├── .Rbuildignore ├── .gitignore ├── CHANGELOG.md ├── DESCRIPTION ├── NAMESPACE ├── R ├── anitools.R ├── process.R └── treetools.R ├── README.md ├── bactaxR.Rproj ├── data ├── bactaxR_fastani_output.txt ├── bactaxR_phylogeny.nwk └── sup_table_s1_genomes_ani.xlsx ├── inst └── CITATION └── man ├── ANI.dendrogram.Rd ├── ANI.graph.Rd ├── ANI.histogram.Rd ├── load.ANI.Rd ├── phylo.discrete_trait_OTU.Rd ├── phylo.discrete_trait_heatmap.Rd └── read.ANI.Rd /.Rbuildignore: -------------------------------------------------------------------------------- 1 | ^.*\.Rproj$ 2 | ^\.Rproj\.user$ 3 | -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- 1 | # History files 2 | .Rhistory 3 | .Rapp.history 4 | 5 | # Session Data files 6 | .RData 7 | 8 | # Example code in package build process 9 | *-Ex.R 10 | 11 | # Output files from R CMD build 12 | /*.tar.gz 13 | 14 | # Output files from R CMD check 15 | /*.Rcheck/ 16 | 17 | # RStudio files 18 | .Rproj.user/ 19 | 20 | # produced vignettes 21 | vignettes/*.html 22 | vignettes/*.pdf 23 | 24 | # OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3 25 | .httr-oauth 26 | 27 | # knitr and R markdown default cache directories 28 | /*_cache/ 29 | /cache/ 30 | 31 | # Temporary files created by R markdown 32 | *.utf8.md 33 | *.knit.md 34 | 35 | # Shiny token, see https://shiny.rstudio.com/articles/shinyapps.html 36 | rsconnect/ 37 | .Rproj.user 38 | -------------------------------------------------------------------------------- /CHANGELOG.md: -------------------------------------------------------------------------------- 1 | # bactaxR CHANGELOG 2 | 3 | All noteable changes to bactaxR will be documented in this file 4 | 5 | ## [0.2.3] 2024-01-30 6 | 7 | ### Added 8 | - Added the ability to specify any hclust agglomeration method in `ANI.dendrogram` (default is "average", which was previously hard-coded as the hclust method). 9 | 10 | ## [0.2.2] 2022-10-06 11 | 12 | ### Added 13 | - Added `ladderize` and `ladderize_right` parameters to the `phylo.discrete_trait_OTU` function. 14 | 15 | ## [0.2.1] 2022-06-03 16 | 17 | ### Added 18 | - Added `font_angle` and `font_offset_y` parameters to the `phylo.discrete_trait_heatmap` function. 19 | 20 | ## [0.2.0] 2022-05-29 21 | 22 | ### Changed 23 | - Fixed legend color order bug in `ANI.graph` function; in bactaxR v0.1.0, `ANI.graph` would assign colors to graph nodes by converting user-supplied metadata to a factor, converting resulting factors to numeric values, and then supplying the color palette with the numeric values, i.e., `vertex.color = color_palette[as.numeric(as.factor(vertex_attr(ig, "species")))],`. This resulted in colors in the legend sometimes not matching the plotted colors. To correct this, ordered levels are now explicitly used, i.e., `vertex.color = color_palette[as.numeric(factor(vertex_attr(ig, "species"), levels = sorted_labels))]`, where `sorted_labels <- unique(vertex_attr(ig, "species"))`. 24 | 25 | ## [0.1.0] 2020-01-24 26 | 27 | ### Added 28 | - Initial commit 29 | 30 | -------------------------------------------------------------------------------- /DESCRIPTION: -------------------------------------------------------------------------------- 1 | Package: bactaxR 2 | Type: Package 3 | Title: Bacterial taxonomy construction and evaluation in R 4 | Version: 0.2.3 5 | Author: Laura M. Carroll 6 | Maintainer: Laura M. Carroll 7 | Description: Functions for plotting and interpreting ANI values, constructing dendrograms using pairwise ANI values, identifying medoid genomes at selected genomospecies thresholds, and mapping discrete traits to phylogenies. 8 | License: GNU General Public License v3.0 9 | Encoding: UTF-8 10 | LazyData: true 11 | RoxygenNote: 7.1.2 12 | Depends: R (>= 3.6.0), ape, base, cluster, dendextend, dplyr, ggplot2, ggtree, graphics, grDevices, igraph, maps, methods, phylobase, phytools, readxl, reshape2, stats, utils, viridis, viridisLite 13 | Imports: ape, base, cluster, dendextend, dplyr, ggplot2, ggtree, graphics, grDevices, igraph, maps, methods, phylobase, phytools, readxl, reshape2, stats, utils, viridis, viridisLite 14 | -------------------------------------------------------------------------------- /NAMESPACE: -------------------------------------------------------------------------------- 1 | # Generated by roxygen2: do not edit by hand 2 | 3 | export(ANI.dendrogram) 4 | export(ANI.graph) 5 | export(ANI.histogram) 6 | export(load.ANI) 7 | export(phylo.discrete_trait_OTU) 8 | export(phylo.discrete_trait_heatmap) 9 | export(read.ANI) 10 | -------------------------------------------------------------------------------- /R/anitools.R: -------------------------------------------------------------------------------- 1 | setClass(Class = "bactaxRObject", 2 | slots = list(ANI = "numeric", 3 | query = "character", 4 | reference = "character")) 5 | 6 | 7 | setMethod("summary",signature(object="bactaxRObject"),function(object) { 8 | cat("An object of class bactaxRObject \n") 9 | cat("Number of genomes: ", length(unique(object@query)), "\n") 10 | cat("Total number of pairwise ANI comparisons: ", length(object@ANI)) 11 | }) 12 | 13 | 14 | #' Read pairwise output from fastANI 15 | #' 16 | #' This function reads a file of pairwise ANI values calculated by fastANI 17 | #' (or a file of pairwise ANI values constructed using other methods; see below). 18 | #' This file must contain pairwise comparisons for all query and reference genomes 19 | #' (i.e., all-vs-all comparisons). 20 | #' 21 | #' @param file Path to file containing pairwise ANI comparisons output by fastANI 22 | #' (or any 3+ column file, described as follows). 23 | #' The file should not have a header, and should contain 3 or more columns, 24 | #' each separated by a tab. Columns 1, 2, and 3 should contain the query genome, 25 | #' reference genome, and the associated ANI value (ranging from 0 to 100), respectively 26 | #' (remaining columns will be ignored). 27 | #' @return A bactaxRObject object 28 | #' @export 29 | read.ANI <- function(file) { 30 | f <- read.delim(file = file, 31 | header = F, 32 | sep = "\t", 33 | stringsAsFactors = F) 34 | f <- f[,1:3] 35 | colnames(f) <- c("query", "reference", "ANI") 36 | f$query <- unlist(lapply(strsplit(x = f$query, 37 | split = "/"), 38 | function(x) x[length(x)])) 39 | f$reference <- unlist(lapply(strsplit(x = f$reference, 40 | split = "/"), 41 | function(x) x[length(x)])) 42 | if(all(f$query%in%f$reference)){ 43 | obj <- new("bactaxRObject", 44 | query = f$query, 45 | reference = f$reference, 46 | ANI = f$ANI) 47 | return(obj) 48 | } 49 | else{ 50 | stop("Error: file does not contain pairwise comparisons for all genomes.") 51 | } 52 | } 53 | 54 | #' Load dataframe or matrix, and store it as a bactaxRObject object 55 | #' 56 | #' This function takes a matrix or data frame already stored in memory, 57 | #' and converts it to a bactaxR object. The matrix or data frame should contain at 58 | #' least 3 columns, where Column 1 contains a query genome, Column 2 contains a 59 | #' reference genome, and Column 3 contains ANI values (ranging from 0 to 100) 60 | #' This matrix or data frame must contain pairwise comparisons for all query and reference genomes 61 | #' (i.e., all-vs-all comparisons). 62 | #' 63 | #' @param x Matrix or data frame, where Columns 1, 2, and 3 contain the query genome, 64 | #' reference genome, and associated ANI values, respectively (remaining columns will be ignored). 65 | #' @return A bactaxRObject 66 | #' @export 67 | load.ANI <- function(x) { 68 | f <- x[,1:3] 69 | colnames(f) <- c("query", "reference", "ANI") 70 | if(all(f$query%in%f$reference)){ 71 | obj <- new("bactaxRObject", 72 | query = f$query, 73 | reference = f$reference, 74 | ANI = f$ANI) 75 | return(obj) 76 | } 77 | else{ 78 | stop("Error: file does not contain pairwise comparisons for all genomes.") 79 | } 80 | } 81 | 82 | 83 | 84 | 85 | 86 | #' Construct a histogram using ANI values 87 | #' 88 | #' This function constructs a histogram using ANI values 89 | #' 90 | #' @param bactaxRObject A bactaxRObject 91 | #' @param binwidth Width of bins in the histogram. Defaults to 0.01 (ANI). 92 | #' @param xmin Minimum value for the X-axis. Defaults to 79 (ANI). 93 | #' @param xmax Maximum value for the X-axis. Defaults to 100 (ANI). 94 | #' @param xline Numeric value (or vector of numeric values) at which 95 | #' to draw vertical line(s) along the X-axis (i.e., ANI values). 96 | #' Defaults to NULL (no vertical lines). 97 | #' @param xlinecol Character (or vector of characters) corresponding to 98 | #' ggplot2 color(s) for xline. Defaults to "#20A387FF". 99 | #' @param xlinetype Character (or vector of characters) corresponding to 100 | #' ggplot2 line type(s) for xline. Defaults to "dashed". 101 | #' @return A ggplot2 object 102 | #' @export 103 | ANI.histogram <- function(bactaxRObject, 104 | bindwidth=0.01, 105 | xmin=79, 106 | xmax=100, 107 | xline=NULL, 108 | xlinecol="#20A387FF", 109 | xlinetype="dashed"){ 110 | x <- data.frame(bactaxRObject@ANI) 111 | colnames(x) <- "ANI" 112 | p <- ggplot(x, aes(x=ANI)) + 113 | geom_histogram(binwidth = bindwidth) + 114 | scale_x_continuous(breaks = seq(xmin, xmax)) + 115 | xlab("Average Nucleotide Identity (ANI)") + 116 | ylab(paste("Count (", length(x$ANI), " total comparisons)", sep = "")) 117 | if (!(is.null(xline))){ 118 | p <- p + 119 | geom_vline(xintercept = xline, linetype = xlinetype, color = xlinecol) 120 | 121 | } 122 | return(p) 123 | } 124 | 125 | 126 | #' Construct a dendrogram using pairwise ANI values and identity medoid genomes 127 | #' 128 | #' This function constructs a dendrogram using pairwise ANI values 129 | #' calculated between genomes and the dissimilarity metric described 130 | #' by Carroll, Wiedmann, and Kovac (2019), yielding medoid genomes and 131 | #' cluster assignments at an ANI coalescence threshold (if supplied by the user). 132 | #' 133 | #' @param bactaxRObject A bactaxRObject 134 | #' @param ANI_threshold ANI threshold at which to assign genomes to 135 | #' clusters and identify medoid genomes. Defaults to 95. 136 | #' @param label_size Size of dendrogram tip labels. Defaults to an 137 | #' arbitrarily small number (i.e., 1e-10), so that tip labels are hidden. 138 | #' @param color_palette Color palette to use for dendrogram. Defaults to 139 | #' magma(1000, begin = 0.2). 140 | #' @param xline Numeric value (or vector of numeric values) at which 141 | #' to draw vertical line(s) along the dendrogram X-axis 142 | #' (i.e., ANI values). Defaults to NULL (no vertical lines). 143 | #' @param xlinecol Character (or vector of characters) corresponding to 144 | #' ggplot2 color(s) for xline. Defaults to "#20A387FF". 145 | #' @param xlinetype Character (or vector of characters) corresponding to 146 | #' ggplot2 line type(s) for xline. Defaults to "dashed". 147 | #' @return medoid_genomes A data frame of medoid genomes detected at an ANI threshold (ANI_threshold). 148 | #' If an ANI threshold of NULL supplied, this will be NULL. 149 | #' @return cluster_assignments A data frame containing all genomes and the genomospecies clusters to which 150 | #' they are assigned at an ANI threshold (ANI_threshold). 151 | #' If an ANI threshold of NULL is supplied, this will be NULL. 152 | #' @export 153 | ANI.dendrogram <- function(bactaxRObject, 154 | ANI_threshold = 95, 155 | hclust.method = "average", 156 | label_size = 1e-10, 157 | color_palette = magma(1000, begin = 0.2), 158 | xline=NULL, 159 | xlinecol="#20A387FF", 160 | xlinetype="dashed"){ 161 | fastani <- data.frame(bactaxRObject@query, bactaxRObject@reference, bactaxRObject@ANI) 162 | colnames(fastani) <- c("query", "reference", "ANI") 163 | s <- dcast(fastani, formula <- query~reference, value.var = "ANI") 164 | rownames(s) <- s$query 165 | s <- as.matrix(s[ , !(colnames(s) == "query")]) 166 | j <- matrix(data = 100, nrow = nrow(s), ncol = ncol(s)) 167 | d <- j - s 168 | d.sym <- 0.5 * (d + t(d)) 169 | d.dist <- as.dist(d.sym) 170 | h <- hclust(d = d.dist, method = hclust.method) 171 | dend <- as.dendrogram(h) 172 | dend %>% set("labels_cex", label_size) %>% highlight_branches_col(color_palette) %>% plot(horiz=T, xlab = "Dissimilarity (100-ANI)") 173 | if (!(is.null(xline))){ 174 | abline(v = xline, lty = xlinetype, col = xlinecol) 175 | } 176 | if (!(is.null(ANI_threshold))){ 177 | clusters <- cutree(tree = dend, h = 100 - ANI_threshold) 178 | nclus <- length(table(clusters)) 179 | medoid.genome <- c() 180 | medoid.cluster <- c() 181 | allgenomes.cluster <- c() 182 | allgenomes.genome <- c() 183 | allgenomes.medoid <- c() 184 | for (i in 1:nclus){ 185 | genomes <- clusters[which(clusters == i)] 186 | if (length(genomes) > 1){ 187 | genomes.d <- d.sym[which(rownames(d.sym)%in%names(genomes)),] 188 | genomes.d <- genomes.d[,which(colnames(genomes.d)%in%names(genomes))] 189 | gnames <- rownames(genomes.d) 190 | genomes.d <- as.dist(genomes.d) 191 | medoid <- pam(x = genomes.d, k = 1) 192 | medoid.genome <- c(medoid.genome, medoid$medoids) 193 | allgenomes.genome <- c(allgenomes.genome, gnames) 194 | allgenomes.cluster <- c(allgenomes.cluster, rep(i, length(gnames))) 195 | allgenomes.medoid <- c(allgenomes.medoid, rep(medoid$medoids, length(gnames)))} 196 | else{ 197 | medoid <- names(genomes) 198 | medoid.genome <- c(medoid.genome, medoid) 199 | allgenomes.cluster <- c(allgenomes.cluster, i) 200 | allgenomes.genome <- c(allgenomes.genome, medoid) 201 | allgenomes.medoid <- c(allgenomes.medoid, medoid)} 202 | medoid.cluster <- c(medoid.cluster, i) 203 | 204 | } 205 | medoid_genomes <- data.frame(medoid.cluster, medoid.genome) 206 | colnames(medoid_genomes) <- c("Cluster", "Genome") 207 | cluster_assignments <- data.frame(allgenomes.cluster, allgenomes.genome, allgenomes.medoid) 208 | colnames(cluster_assignments) <- c("Cluster", "Genome", "Cluster_Medoid") 209 | return(list("medoid_genomes"= medoid_genomes, "cluster_assignments" = cluster_assignments)) 210 | } 211 | else{ 212 | return(NULL) 213 | } 214 | } 215 | 216 | 217 | #' Construct an undirected graph using pairwise ANI values 218 | #' 219 | #' This function constructs an undirected graph using pairwise ANI values 220 | #' calculated between genomes and the similarity metric described 221 | #' by Carroll, Wiedmann, and Kovac (2019). 222 | #' 223 | #' @param bactaxRObject A bactaxRObject 224 | #' @param ANI_threshold ANI threshold; an edge will be drawn between two genomes 225 | #' whose pairwise ANI value is greater than or equal to this threshold. 226 | #' Defaults to 95. 227 | #' @param graphopt_charge Charge parameter passed to layout_with_graphopt 228 | #' function in the igraph package. Defaults to 0.02. 229 | #' @param graphout_niter Number of iterations to perform for layout_with_graphopt 230 | #' funtion in the igraph package. Defaults to 500. 231 | #' @param edge_color Color of edges in graph. Defaults to 232 | #' gray, specifically hcl(h = 168, c = 5, l = 58, alpha = 0.1). 233 | #' @param metadata Named vector, where names correspond to node names, 234 | #' and vector elements correspond to metadata to map to nodes (e.g., species 235 | #' name). Vector names must match node names exactly. Defaults to NULL 236 | #' (no metadata stupplied). 237 | #' @param color_palette Vector of colors to apply to nodes. 238 | #' Defaults to one color (using the plasma color scale) per unique 239 | #' metadata value, i.e., plasma(n = length(unique(metadata))). 240 | #' @param node_size Size of nodes in graph. Defaults to 3. 241 | #' @param show_legend Display legend (True or False). Defaults to True. 242 | #' @param legend_pos_x x coordinate used to position the legend. 243 | #' Default is -2. 244 | #' @param legend_pos_y y coordinate used to position the legend. 245 | #' Default is 1. 246 | #' @param legend_cex Character expansion factor relative to current 247 | #' ```par("cex")``` to pass to R's ```legend``` function. 248 | #' Defaults to 0.5. 249 | #' @param legend_ncol Number of columns to display in legend. 250 | #' Defaults to 1. 251 | #' @return A plot object 252 | #' @export 253 | ANI.graph <- function(bactaxRObject, 254 | ANI_threshold = 95, 255 | graphopt_charge = 0.02, 256 | graphout_niter = 500, 257 | edge_color = hcl(h = 168, c = 5, l = 58, alpha = 0.1), 258 | metadata = NULL, 259 | color_palette = plasma(n = length(unique(metadata))), 260 | node_size = 3, 261 | show_legend = T, 262 | legend_pos_x = -2, 263 | legend_pos_y = 1, 264 | legend_cex = 0.5, 265 | legend_ncol = 1){ 266 | fastani <- data.frame(bactaxRObject@query, bactaxRObject@reference, bactaxRObject@ANI) 267 | colnames(fastani) <- c("query", "reference", "ANI") 268 | s <- dcast(fastani, formula <- query~reference, value.var = "ANI") 269 | rownames(s) <- s$query 270 | s <- as.matrix(s[ , !(colnames(s) == "query")]) 271 | j <- matrix(data = 100, nrow = nrow(s), ncol = ncol(s)) 272 | d <- j - s 273 | d.sym <- 0.5 * (d + t(d)) 274 | s.sym <- -1 * (d.sym-100) 275 | rownames(s.sym) <- rownames(s) 276 | colnames(s.sym) <- colnames(s) 277 | ig <- graph.adjacency(s.sym, mode = "undirected", weighted = T, diag = F) 278 | ig <- delete_edges(graph = ig, edges = which(E(ig)$weight < ANI_threshold)) 279 | if (!(is.null(metadata))){ 280 | target <- as_ids(V(ig)) 281 | metadata <- metadata[match(target, names(metadata))] 282 | ig <- set_vertex_attr(graph = ig, name = "species", index = as.character(names(metadata)), value = as.character(metadata))} 283 | l <- layout_with_graphopt(ig, charge = graphopt_charge) 284 | sorted_labels <- unique(vertex_attr(ig, "species")) 285 | plot(ig, layout = l, vertex.label = NA, 286 | vertex.color = color_palette[as.numeric(factor(vertex_attr(ig, "species"), levels = sorted_labels))], 287 | vertex.size = node_size, vertex.frame.color = NA, edge.color = edge_color) 288 | if (!(is.null(metadata)) & show_legend == T){ 289 | legend(x = legend_pos_x, y = legend_pos_y, c(unique(V(ig)$species)), col = color_palette, pt.bg = color_palette, pch = 21, cex = legend_cex, ncol = legend_ncol)} 290 | } 291 | -------------------------------------------------------------------------------- /R/process.R: -------------------------------------------------------------------------------- 1 | # load sample fastANI data 2 | #bactaxR_fastANI <- read.ANI(file = "data/bactaxR_fastani_output.txt") 3 | # read phylogeny 4 | #bactaxR_phylo <- read.newick(file = "data/bactaxR_phylogeny.nwk") 5 | # read metadata 6 | #bactaxR_metadata <- read_excel("data/sup_table_s1_genomes_ani.xlsx", skip = 1) 7 | #bactaxR_data <- list(phylogeny = bactaxR_phylo, metadata = bactaxR_metadata, ANI = bactaxR_fastANI) 8 | #usethis::use_data(bactaxR_metadata, overwrite = T) 9 | -------------------------------------------------------------------------------- /R/treetools.R: -------------------------------------------------------------------------------- 1 | #' Highlight taxa in a phylogeny using a discrete variable 2 | #' 3 | #' This function highlights taxa in a phylogeny using the groupOTU 4 | #' function in tidytree/ggtree. 5 | #' 6 | #' @param phylo A phylo object 7 | #' @param trait_list Named list, where names corresponds to traits and 8 | #' vectors under each name correspond to taxa associated with that trait. 9 | #' Defaults to NULL (no list is supplied). 10 | #' @param color_palette Vector of trait color(s). Defaults to 11 | #' one color per trait using the viridis color scale, i.e., 12 | #' viridis(n = length(trait_list)). 13 | #' @param phylo_layout Any ggtree phylogeny layout. 14 | #' Defaults to "circular" 15 | #' @param ladderize Re-order tree to have a "ladder" aspect 16 | #' (True or False). Defaults to False. 17 | #' @param ladderize_right If ladderize = TRUE, show the smallest clade 18 | #' on the right-hand side (True or False). Defaults to False. 19 | #' @param tip_label_size Size of tip labels. Defaults to 2. 20 | #' @param show_legend Display legend (True or False). Defaults to True. 21 | #' @param legend_position Position of legend. Defaults to "left". 22 | #' @return A ggplot2 object 23 | #' @export 24 | phylo.discrete_trait_OTU <- function(phylo, 25 | trait_list = NULL, 26 | color_palette = viridis(n = length(trait_list)), 27 | phylo_layout = "circular", 28 | ladderize = F, 29 | ladderize_right = F, 30 | tip_label_size = 2, 31 | show_legend = T, 32 | legend_position = "left"){ 33 | if (!(is.null(trait_list))){ 34 | target <- phylo$tip.label 35 | p <- groupOTU(phylo, trait_list) 36 | p <- ggtree(p, layout = phylo_layout, aes(color = group), ladderize = ladderize, right = ladderize_right)} 37 | else{ 38 | p <- ggtree(phylo, layout = phylo_layout, ladderize = ladderize, right = ladderize_right) 39 | } 40 | 41 | if (phylo_layout == "circular"){ 42 | p <- p + geom_tiplab(aes(angle=angle),size=tip_label_size) + 43 | scale_color_manual(values = color_palette)} 44 | else{ 45 | p <- p + geom_tiplab(size=tip_label_size) + 46 | scale_color_manual(values = color_palette) 47 | } 48 | 49 | if (show_legend == T){ 50 | p <- p + theme(legend.position = legend_position)} 51 | return(p) 52 | } 53 | 54 | #' Add a discrete trait heatmap to a phylogeny 55 | #' 56 | #' This function adds a discrete trait heatmap to a phylogeny 57 | #' produced by phylo.discrete_trait_OTU (or any ggplot2/ggtree plot). 58 | #' 59 | #' @param plot A ggplot2/ggtree plot 60 | #' @param phylo phylo object which was used to construct plot. 61 | #' @param trait_data_frame Data frame, where each row corresponds to a 62 | #' tip in the phylogeny, and each column corresponds to a discrete trait. 63 | #' Row names should match phylogeny tip labels exactly, and column names 64 | #' should correspond to the trait name. Cells should contain character 65 | #' values corresponding to the trait(s) (equivalent values in the 66 | #' data frame will be assigned the same color, i.e., all cells with "0" 67 | #' will be the same color, all cells with "cat" will be another color, etc.). 68 | #' @param color_palette Vector of heatmap cell color(s). Defaults to 69 | #' one color per unique cell value using the viridis color scale. 70 | #' @param font_size Size of trait names. Defaults to 2. 71 | #' @param font_angle Angle of trait names. Defaults to 90. 72 | #' @param font_offset_y Vertical offset of trait names. Defaults to 0. 73 | #' @param heatmap_width Width of heatmap, compared to width of tree. 74 | #' Defaults to 1. 75 | #' @param heatmap_offset Offset of heatmap to tree. Defaults to 0.5. 76 | #' @return A ggplot2 object 77 | #' @export 78 | phylo.discrete_trait_heatmap <- function(plot, 79 | phylo, 80 | trait_data_frame, 81 | color_palette = viridis(option = "viridis", n = length(unique(as.vector(apply(X = trait_data_frame, MARGIN = 2, FUN = function(x) unique(x)))))), 82 | font_size = 2, 83 | font_angle = 90, 84 | font_offset_y = 0, 85 | heatmap_width = 1, 86 | heatmap_offset = 0.5){ 87 | if (!(is.null(trait_data_frame))){ 88 | target <- phylo$tip.label 89 | trait_data_frame <- trait_data_frame[match(target, rownames(trait_data_frame)),] 90 | if (all(phylo$tip.label == rownames(trait_data_frame))){ 91 | p <- gheatmap(p = plot, data = trait_data_frame, 92 | font.size = font_size, colnames_angle = font_angle, 93 | colnames_offset_y = font_offset_y, 94 | width = heatmap_width, 95 | offset = heatmap_offset) + 96 | scale_fill_manual(values = color_palette) 97 | return(p) 98 | } 99 | else{ 100 | stop("Tip labels in phylo object do not match rownames(trait_data_frame).") 101 | }} 102 | else{ 103 | stop("trait_data_frame is NULL. Please supply a trait data frame.") 104 | } 105 | } 106 | 107 | 108 | 109 | 110 | -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 1 | # bactaxR 2 | Bacterial taxonomy construction and evaluation in R 3 | 4 | ## Overview 5 | 6 | bactaxR is an R package which contains functions to aid in average-nucleotide identity (ANI)-centric bacterial taxonomy 7 | construction and evaluation. Specific functions include: 8 | 9 | * Parsing output from fastANI 10 | * Identification of ANI-based genomospecies breakpoints 11 | * ANI-based dendrogram construction 12 | * Identification of medoid genomes using selected genomospecies thresholds 13 | * Mapping discrete traits (e.g., genomospecies, presence or absence of a phenotypic trait) to phylogenies 14 | 15 | Post issues at https://github.com/lmc297/bactaxR/issues 16 | 17 | ### Citation 18 | 19 | #### If you found bactaxR and/or its source code to be useful, please cite: 20 | 21 | Carroll, Laura M., Martin Wiedmann, Jasna Kovac. 2020. "Proposal of a Taxonomic Nomenclature for the *Bacillus cereus* Group Which Reconciles Genomic Definitions of Bacterial Species with Clinical and Industrial Phenotypes." *mBio* 11(1): e00034-20; DOI: 10.1128/mBio.00034-20. 22 | 23 | 24 | ------------------------------------------------------------------------ 25 | 26 | ## Installation 27 | 28 | 1. Download R, if necessary: https://www.r-project.org/ 29 | 30 | 2. Dowload R Studio, if necessary: https://www.rstudio.com/products/rstudio/download/ 31 | 32 | 3. Open R Studio, and install the ```devtools``` package, if necessary, by typing the following command into R Studio's console: 33 | 34 | ``` 35 | install.packages("devtools") 36 | ``` 37 | 38 | 4. Install ```ggtree``` from Bioconductor, if necessary, by running the following commands from R Studio's console: 39 | 40 | ``` 41 | if (!requireNamespace("BiocManager", quietly = TRUE)) 42 | install.packages("BiocManager") 43 | 44 | BiocManager::install("ggtree") 45 | ``` 46 | 47 | 5. Load ```devtools``` by typing the following command into R Studio's console: 48 | 49 | ``` 50 | library(devtools) 51 | ``` 52 | 53 | 6. Install ```bactaxR``` by typing the following command into R Studio's console: 54 | 55 | ``` 56 | install_github("lmc297/bactaxR") 57 | ``` 58 | 59 | **Note:** Users who get an error when installing ```bactaxR``` should run the following command before attempting to install `bactaxR` again: `Sys.setenv("R_REMOTES_NO_ERRORS_FROM_WARNINGS"=TRUE)` 60 | 61 | 7. Load ```bactaxR``` by typing the following command into R Studio's console: 62 | ``` 63 | library(bactaxR) 64 | ``` 65 | 66 | ------------------------------------------------------------------------ 67 | 68 | 69 | ## Tutorials 70 | 71 | ### Tutorial 1: Construct a histogram and dendrogram using pairwise ANI values, identify medoid genomes, and visualize medoid-based clusters in a graph 72 | 73 | 1. For this tutorial, we're going to use pairwise ANI values that were calculated between 36 *B. cereus* group genomes using FastANI (a subset of the original data set, which will save time and memory; for all 2,231 genomes used in the full data set, see Supplementary Table S1 of the paper). 74 | 75 | Click here to download the data set. This tab-separated file was produced by FastANI, with query genomes in the first column, reference genomes in the second column, and ANI values in the third column. 76 | 77 | Feel free to save this file in the directory of your choice; if you would like to follow along with this tutorial exactly, using identical path/file names, save this file in your **home** directory as ```bactaxR_fastani_output.txt```. 78 | 79 | 2. Open RStudio; if you have not already installed ```bactaxR```, follow the installation instructions above. 80 | 81 | 3. If you have not already done so, load ```bactaxR``` using the following command: 82 | 83 | ``` 84 | library(bactaxR) 85 | ``` 86 | 87 | 4. Let's store our pairwise ANI information as a ```bactaxRObject```; this will allow us to construct dendrograms and graphs and identify medoid genomes, exactly as was done in the paper. To do so, run the following command (replace ```~/bactaxR_fastani_output.txt``` with the path to your own file, if necessary): 88 | 89 | ``` 90 | ani <- read.ANI(file = "~/bactaxR_fastani_output.txt") 91 | ``` 92 | This command: 93 | 94 | * Uses the ```read.ANI``` function in ```bactaxR``` to read ```bactaxR_fastani_output.txt```, an output file produed by FastANI 95 | * Stores genome names and pairwise comparisons as a ```bactaxRObject```, assigning it to the variable name ```ani``` 96 | 97 | Note: bactaxR can use pairwise ANI values calculated using any ANI tool, not just FastANI; you can use ```read.ANI``` with any headerless, tab-delimited file where query genome is in the first column, reference genome is in the second, and ANI values (ranging from 0 to 100) are in the third. Additionally, if you already have a data frame of query genomes/reference genomes/ANI values loaded into R, you can use the ```load.ANI``` function to store it as a ```bactaxRObject```. Note that both of these functions check to make sure that these ANI values are pairwise all-vs-all ANI values (i.e., all query genome names must be identically present in the reference genome column, and vice-versa). Additionally, **your ANI values should be between 0 and 100** (i.e., if they are between 0 and 1, multiply them by 100; for example, 0.95 ANI becomes 95 ANI, 0.971 ANI becomes 97.1 ANI). See ```?read.ANI``` and ```?load.ANI``` for more information. 98 | 99 | We can obtain a summary of our ```bactaxR``` object using the following command: 100 | 101 | ``` 102 | summary(ani) 103 | ``` 104 | 105 | This should tell us that our data set has 36 genomes and 1,296 total comparisons; this makes sense, because 36^2 = 1,296 (i.e., these are pairwise comparisons). 106 | 107 | 5. Next, we'll construct a histogram using our pairwise ANI values. To build a histogram and store it as a variable ```h```, run the following command: 108 | 109 | ``` 110 | h <- ANI.histogram(bactaxRObject = ani, bindwidth = 0.1) 111 | ``` 112 | 113 | This command: 114 | 115 | * Builds a histogram using pairwise ANI values stored in a ```bactaxRObject``` (here, we're using our ```bactaxRObject``` which we named ```ani```) 116 | * Uses a histogram bin width of 0.1 117 | 118 | To view the histogram, just run: 119 | ``` 120 | h 121 | ``` 122 | 123 | For more options for annotating/displaying your histogram, see ```?ANI.histogram``` 124 | 125 | 126 | 6. Next, we will construct a dendrogram and identify medoid genomes with a single command. Most researchers have relied on a genomospecies threshold of 95, so let's use that as a threshold for identifying medoid genomes here. To build a dendrogram and identify medoid genomes at a 95 ANI genomospecies threshold, run the following command: 127 | 128 | ``` 129 | dend <- ANI.dendrogram(bactaxRObject = ani, ANI_threshold = 95, xline = c(4,5,6,7.5), xlinecol = c("#ffc425", "#f37735", "deeppink4", "black"), label_size = 0.5) 130 | ``` 131 | 132 | This command: 133 | 134 | * Constructs a dendrogram, using the methods described in the paper, with ANI dissimilarity plotted along the X-axis 135 | * Identifies medoid genomes at a 95 ANI threshold, using the ```ANI_threshold``` parameter 136 | * Annotates the dendrogram using vertical lines at the specified ANI dissimilarity (i.e., X-axis) threshold(s), using the ```xline``` parameter for X-axis position and the ```xlinecol``` parameter for color information (here, we have vertical lines at dissimilarity values of 4, 5, 6, and 7.5, which correspond to ANI values of 96, 95, 94, and 92.5, respectively; these parameters are just for annotating the dendrogram plot, and have no analytical value/effect on the identification of medoid genomes or dendrogram construction) 137 | * Annotates the dendrogram using tip labels with size 0.5 (```label_size = 0.5```; by default, this is set to an arbitrarily small number so that tip labels are hidden) 138 | 139 | See ```?ANI.dendrogram``` for a complete list of options. 140 | 141 | We can see the medoid genomes identified at our specified ANI threshold (i.e., 95) by running ```dend$medoid_genomes``` 142 | 143 | We can see the clusters to which all of our genomes were assigned at our specified ANI threshold using ```dend$cluster_assignments``` 144 | 145 | 7. Let's construct an ANI similarity graph using our pairwise ANI values, and color it using the 95 ANI cluster assignments we produced in step 6. If we look at ```?ANI.graph```, we can see that we need to supply metadata (i.e., the discrete attributes which we will use to color our graph; in our case, cluster assignment) in the form of a named vector. 146 | 147 | To do this, we'll create a vector, ```metadata```, which contains our cluster assinments: 148 | 149 | ``` 150 | metadata <- dend$cluster_assignments$Cluster 151 | ``` 152 | 153 | 7. Next, we'll name our vector of cluster assignments with their associated genome labels: 154 | 155 | ``` 156 | names(metadata) <- dend$cluster_assignments$Genome 157 | ``` 158 | 159 | 8. Now we can construct our graph as follows (we'll use a 95 ANI threshold like we did before): 160 | 161 | ``` 162 | ANI.graph(bactaxRObject = ani, ANI_threshold = 95, 163 | metadata = metadata, 164 | legend_pos_x = -1.5, show_legend = T, graphout_niter = 1000000, 165 | legend_ncol = 1, edge_color = "black") 166 | ``` 167 | 168 | This command: 169 | 170 | * Constructs a graph, drawing an edge between any two genomes which share an ANI value greater than or equal to ```ANI_threshold``` (here, we set this to 95) 171 | * Colors nodes (i.e., points) using the named vector ```metadata``` (here, we used clusters identified in step 6 at a 95 ANI threshold) 172 | * Annotate and color the graph according to various user-supplied parameters (see ```?ANI.graph``` for more details) 173 | 174 | ### Tutorial 2: Annotate a phylogeny using discrete traits 175 | 176 | 1. For this tutorial, we're going to annotate a phylogeny constructed using 79 marker genes identified in 2,231 *B. cereus* group genomes, using discrete metadata (i.e., species assignments and presence/absence of phenotypic traits). 177 | 178 | Click here to download the phylogeny (in Newick format). 179 | 180 | Feel free to save this file in the directory of your choice; if you would like to follow along with this tutorial exactly, using identical path/file names, save this file in your **home** directory as ```bactaxR_phylogeny.nwk```. 181 | 182 | 2. Click here, and click "Download" to download a Microsoft Excel file which contains metadata for all 2,231 genomes (i.e., Supplementary Table S1 from the paper). 183 | 184 | Feel free to save this file in the directory of your choice; if you would like to follow along with this tutorial exactly, using identical path/file names, save this file in your **home** directory as ```sup_table_s1_genomes_ani.xlsx``` (note that if you download the file as described here, it will likely be stored in your Downloads directory; please move it to your home directory if you would like to use exact path names). 185 | 186 | 3. Open RStudio; if you have not already installed ```bactaxR```, follow the installation instructions above. 187 | 188 | 4. If you have not already done so, load ```bactaxR``` using the following command: 189 | 190 | ``` 191 | library(bactaxR) 192 | ``` 193 | 194 | 5. If you have not already done so, load the ```phytools``` package using the following command: 195 | 196 | ``` 197 | library(phytools) 198 | ``` 199 | 200 | 6. If you have not already done so, load the ```readxl``` package using the following command: 201 | 202 | ``` 203 | library(readxl) 204 | ``` 205 | 206 | 207 | 7. Read the phylogeny into R using the ```read.newick``` function in ```phytools```, via the following command (replace ```~/bactaxR_phylogeny.nwk``` with the path to your own file, if necessary): 208 | 209 | ``` 210 | tree <- read.newick(file = "~/bactaxR_phylogeny.nwk") 211 | ``` 212 | 213 | If we run the command ```tree```, we can see that our phylogeny has 2,231 tips (i.e., genomes) and is unrooted. 214 | 215 | 8. Read the metadata into R using the ```read_excel``` funtion in the ```readxl``` package, via the following command (replace ```~/sup_table_s1_genomes_ani.xlsx``` with the path to your own file, if necessary): 216 | 217 | ``` 218 | x <- read_excel(path = "~/sup_table_s1_genomes_ani.xlsx", skip = 1) 219 | ``` 220 | 221 | We can get a summary of our metadata by running ```summary(x)``` 222 | 223 | 9. We need to make sure our tree tip labels match the isolate names in our metadata file (i.e., those in the Study ID column); if we type ```table(tree$tip.label%in%x$`Study IDa,b`)```, we can see see that some of our tree tip labels cannot be found in StudyID column in our metadata table. This is because some of our tree tip labels have dashes instead of underscores. To replace all dashes in our tree tip labels with underscores, run the following command: 224 | 225 | ``` 226 | tree$tip.label <- gsub(pattern = "-", replacement = "_", x = tree$tip.label) 227 | ``` 228 | 229 | If we type ```table(tree$tip.label%in%x$`Study IDa,b`)```, we can now see that all of our tip labels can be found in our metadata Study ID column. 230 | 231 | 10. Let's treat "*B. manliponensis*", the most distant member of the group, as an outgroup along which we can root our tree. To do so, run the following command: 232 | 233 | ``` 234 | tree <- root(tree, outgroup = "B_manliponensis_JCM_15802_TYPE_STRAIN.fna") 235 | ``` 236 | 237 | If we run ```tree```, we should see that our tree is now rooted. 238 | 239 | 11. Let's color our tree using the ```phylo.discrete_trait_OTU``` function in ```bactaxR``` and genomospecies assignments produced at a 92.5 ANI threshold (see the column of our metadata titled "Closest Medoid Genome at 92.5 ANI Threshold (ANI)"). 240 | 241 | If we use the command ```?phylo.discrete_trait_OTU```, we can see that we need to supply a named list to ```trait_list```, where the names correspond to the traits (i.e., genomospecies assignments), and the vectors under each name correspond to the taxa associated with each name (i.e., each genome assigned to a particular genomospecies). 242 | 243 | Let's run the following command to create a vector named ```metadata.92_5```; this vector is identical to our column "Closest Medoid Genome at 92.5 ANI Threshold (ANI)", except we are discarding all of the information after a "(" character (i.e., we are removing the ANI values appended to each medoid genome): 244 | 245 | ``` 246 | metadata.92_5 <- unlist(lapply(strsplit(x = x$`Closest Medoid Genome at 92.5 ANI Threshold (ANI)`, split = "\\("), "[[", 1)) 247 | ``` 248 | 249 | If we run ```table(metadata.92_5)```, we can see the number of genomes assigned to each genomospecies. 250 | 251 | 12. Let's name the vector of genomospecies assignments (```metadata.92_5```) using the corresponding Study IDs (which match tip labels found in the tree): 252 | 253 | ``` 254 | names(metadata.92_5) <- x$`Study IDa,b` 255 | ``` 256 | 257 | 13. To make the list more interpretable, run each of the following commands below; these will replace the genomospecies medoid genome names with their respective names proposed in the manuscript: 258 | 259 | ``` 260 | metadata.92_5 <- gsub(pattern = "Bacillus_anthracis_GCF_001683155_1_ASM168315v1_genomic.fna", replacement = "B. mosaicus ", x = metadata.92_5) 261 | metadata.92_5 <- gsub(pattern = "B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna", replacement = "B. bingmayongensis ", x = metadata.92_5) 262 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002568015_1_ASM256801v1_genomic.fna", replacement = "B. cereus s.s. ", x = metadata.92_5) 263 | metadata.92_5 <- gsub(pattern = "Bacillus_cytotoxicus_GCF_002251005_2_ASM225100v2_genomic.fna", replacement = "B. cytotoxicus ", x = metadata.92_5) 264 | metadata.92_5 <- gsub(pattern = "B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna", replacement = "B. gaemokensis ", x = metadata.92_5) 265 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002559215_1_ASM255921v1_genomic.fna", replacement = "B. luti ", x = metadata.92_5) 266 | metadata.92_5 <- gsub(pattern = "B_manliponensis_JCM_15802_TYPE_STRAIN.fna", replacement = "B. manliponensis ", x = metadata.92_5) 267 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002550135_1_ASM255013v1_genomic.fna", replacement = "B. mycoides ", x = metadata.92_5) 268 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002576795_1_ASM257679v1_genomic.fna", replacement = "B. paramycoides ", x = metadata.92_5) 269 | metadata.92_5 <- gsub(pattern = "Bacillus_pseudomycoides_GCF_002588885_1_ASM258888v1_genomic.fna", replacement = "B. pseudomycoides ", x = metadata.92_5) 270 | metadata.92_5 <- gsub(pattern = "B_toyonensis_BCT_7112_TYPE_STRAIN.fna", replacement = "B. toyonensis ", x = metadata.92_5) 271 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002583515_1_ASM258351v1_genomic.fna", replacement = "Unknown B. cereus group Species 13", x = metadata.92_5) 272 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002550855_1_ASM255085v1_genomic.fna", replacement = "Unknown B. cereus group Species 14 ", x = metadata.92_5) 273 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002559665_1_ASM255966v1_genomic.fna", replacement = "Unknown B. cereus group Species 15 ", x = metadata.92_5) 274 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002578045_1_ASM257804v1_genomic.fna", replacement = "Unknown B. cereus group Species 16 ", x = metadata.92_5) 275 | metadata.92_5 <- gsub(pattern = "Bacillus_cereus_GCF_002584535_1_ASM258453v1_genomic.fna", replacement = "Unknown B. cereus group Species 17 ", x = metadata.92_5) 276 | metadata.92_5 <- gsub(pattern = "Bacillus_mycoides_GCF_000746925_1_BHP_1_genomic.fna", replacement = "B. clarus ", x = metadata.92_5) 277 | metadata.92_5 <- gsub(pattern = "Bacillus_pseudomycoides_GCF_002552625_1_ASM255262v1_genomic.fna", replacement = "Unknown B. cereus group Species 18", x = metadata.92_5) 278 | ``` 279 | 280 | 14. Remove the NA value (produced due to the footer in the metadata Excel sheet) using the following function: 281 | 282 | ``` 283 | metadata.92_5 <- na.omit(metadata.92_5) 284 | ``` 285 | 286 | If we run ```table(metadata.92_5)```, we should see that our genomospecies genome names have been repaced with species names. 287 | 288 | 15. We can now construct the named list that we will supply to ```trait_list```. To construct this list, we'll first initiate an empty list, and assign it to the variable name ```clades.92_5```: 289 | 290 | ``` 291 | clades.92_5 <- list() 292 | ``` 293 | 294 | 16. Now run the following, which will loop through each genomospecies in our named vector (```metadata.92_5```), identify all genomes which belong to that genomospecies, and store it in our list, ```clades.92_5```: 295 | 296 | ``` 297 | for (i in 1:length(unique(metadata.92_5))){ 298 | myclust <- as.character(unique(metadata.92_5)[i]) 299 | tiplabs <- names(metadata.92_5)[which(metadata.92_5==myclust)] 300 | clades.92_5[[myclust]] <- tiplabs 301 | } 302 | ``` 303 | 304 | If we type ```names(clades.92_5)```, we should see that our list has named elements, with one per genomospecies. 305 | 306 | 17. Let's create a color palette for our tree by running the following function, which uses the ```viridis``` palette to color known/proposed species, and colors the root of the tree and unknown species black: 307 | 308 | ``` 309 | pal.tree_92_5 <- c("black", viridis(option = "viridis", n = 12), rep("black", 6)) 310 | ``` 311 | 312 | 18. We can finally color our phylogeny using the ```phylo.discrete_trait_OTU``` function in ```bactaxR```by running the following: 313 | 314 | ``` 315 | tree_92_5 <- phylo.discrete_trait_OTU(phylo = tree, trait_list = clades.92_5, 316 | color_palette = pal.tree_92_5, 317 | phylo_layout = "circular", tip_label_size = 0.5) 318 | ``` 319 | 320 | This command: 321 | 322 | * Uses ```phylo.discrete_trait_OTU``` to color the phylogeny using a named list, ```clades.92_5``` 323 | * Colors the respective clusters using the provided ```color_palette``` 324 | * Displays the phylogeny in a circular layout with a tip label size of 0.5 325 | 326 | To view the phylogeny, run: 327 | ``` 328 | tree_92_5 329 | ``` 330 | 331 | To see more phylogeny annotation options, see ```?phylo.discrete_trait_OTU``` 332 | 333 | 19. Let's add a heatmap to our tree to display predicted phenotypic information (i.e., anthrax toxin, cereulide, and Cry/Cyt toxin production) for our isolates. If we type ```?phylo.discrete_trait_heatmap```, we see that we need to supply a data frame to ```trait_data_frame```, where each row corresponds to an isolate and each column to a trait. 334 | 335 | To construct a trait data frame, with row names which match our Study ID/tree tip labels, run the following command: 336 | 337 | ``` 338 | traitmap <- data.frame(x$`Anthrax toxin-encoding cya, lef, and pagAc`, 339 | x$`Cereulide synthetase-encoding cesABCDc`, 340 | x$`Known Cry- and/or Cyt-encoding genesd`, 341 | row.names = x$`Study IDa,b`) 342 | ``` 343 | 344 | 20. Let's change our column names to the trait which they represent: 345 | 346 | ``` 347 | colnames(traitmap) <- c("Anthrax", "Cereulide", "Thuringiensis") 348 | ``` 349 | 350 | 21. Run each of the following commands to replace cells which correspond to the absence of genes/a trait with a numerical character (i.e., "0", "1", or "2" for Anthrax, Cereulide, and Thuringiensis traits, respectively): 351 | 352 | ``` 353 | traitmap$Anthrax <- ifelse(test = grepl(pattern = "Absent", x = traitmap$Anthrax), yes = "0", no = "Anthrax toxin genes present") 354 | traitmap$Cereulide <- ifelse(test = grepl(pattern = "Absent", x = traitmap$Cereulide), yes = "1", no = "Cereulide synthetase genes present") 355 | traitmap$Thuringiensis <- ifelse(test = grepl(pattern = "No Cry", x = traitmap$Thuringiensis), yes = "2", no = "Known Cry- and/or Cyt-encoding genes present") 356 | ``` 357 | 358 | 22. Now we can add our heatmap using the following command: 359 | 360 | ``` 361 | tree_92_5.2 <- phylo.discrete_trait_heatmap(plot = tree_92_5, phylo = tree, 362 | trait_data_frame = traitmap, 363 | font_size = 0, 364 | heatmap_width = 0.1, 365 | heatmap_offset = 0.3, 366 | color_palette = c("#DE49681A", "#8C29811A", "#22A8841A" , "#DE4968FF", "#8C2981FF", "#22A884FF")) 367 | ``` 368 | 369 | This command: 370 | 371 | * Adds a heatmap to our plot, ```tree_92_5```, using our phylogeny (```tree```) and our trait data frame (```traitmap```) 372 | * Removes trait names from the heatmap (```font_size = 0```) 373 | * Displays the heatmap with corresponding width and offset parameters 374 | * Annotates the heatmap using the specified color palette 375 | 376 | If we run the following, we can view our phylogeny with the heatmap added: 377 | ``` 378 | tree_92_5.2 379 | ``` 380 | 381 | ------------------------------------------------------------------------ 382 | 383 | 384 | ## References 385 | 386 | Carroll, Laura M., Martin Wiedmann, Jasna Kovac. 2020. "Proposal of a Taxonomic Nomenclature for the *Bacillus cereus* Group Which Reconciles Genomic Definitions of Bacterial Species with Clinical and Industrial Phenotypes." *mBio* 11(1): e00034-20; DOI: 10.1128/mBio.00034-20. 387 | 388 | Carroll, Laura M., Martin Wiedmann, Jasna Kovac. 2019. "Proposal of a taxonomic nomenclature for the *Bacillus cereus* group which reconciles genomic definitions of bacterial species with clinical and industrial phenotypes." *bioRxiv* 779199; doi: https://doi.org/10.1101/779199. 389 | 390 | Jain, Chirag, et al. High-throughput ANI Analysis of 90K Prokaryotic Genomes Reveals Clear Species Boundaries. bioRxiv 225342; doi: https://doi.org/10.1101/225342. 391 | 392 | ------------------------------------------------------------------------ 393 | 394 | 395 | Disclaimer: bactaxR is pretty neat! However, no tool is perfect. As always, interpret your results with caution. We are not responsible for taxonomic misclassifications, misclassifications of an isolate's pathogenic potential or industrial utility, and/or misinterpretations (biological, statistical, or otherwise) of bactaxR results. 396 | 397 | 398 | -------------------------------------------------------------------------------- /bactaxR.Rproj: -------------------------------------------------------------------------------- 1 | Version: 1.0 2 | 3 | RestoreWorkspace: Default 4 | SaveWorkspace: Default 5 | AlwaysSaveHistory: Default 6 | 7 | EnableCodeIndexing: Yes 8 | UseSpacesForTab: Yes 9 | NumSpacesForTab: 2 10 | Encoding: UTF-8 11 | 12 | RnwWeave: Sweave 13 | LaTeX: pdfLaTeX 14 | 15 | AutoAppendNewline: Yes 16 | StripTrailingWhitespace: Yes 17 | 18 | BuildType: Package 19 | PackageUseDevtools: Yes 20 | PackageInstallArgs: --no-multiarch --with-keep.source 21 | PackageRoxygenize: rd,collate,namespace,vignette 22 | -------------------------------------------------------------------------------- /data/bactaxR_fastani_output.txt: -------------------------------------------------------------------------------- 1 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 100 1544 1549 2 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 90.9239 1288 1549 3 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 88.7369 1223 1549 4 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 88.7068 1258 1549 5 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 88.6106 1278 1549 6 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 88.2842 1234 1549 7 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_UnknownSpecies18_GCF_002552625.fna 86.0762 1069 1549 8 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 85.7491 1179 1549 9 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_clarus_BHP_GCF_000746925.fna 84.5315 1108 1549 10 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 83.9789 1072 1549 11 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.9497 1052 1549 12 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.9421 1033 1549 13 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.8698 1061 1549 14 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_luti_AFS005615_GCF_002559215.fna 83.7671 1027 1549 15 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.7516 1059 1549 16 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.685 1065 1549 17 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_luti_TD41_TYPE_STRAIN.fna 83.6755 1006 1549 18 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_mycoides_AFS098983_GCF_002550135.fna 83.6632 1063 1549 19 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_mosaicus_PR02_GCF_001683155.fna 83.6407 1013 1549 20 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.6226 1017 1549 21 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.6197 1033 1549 22 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.6157 1082 1549 23 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.5401 1026 1549 24 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.509 858 1549 25 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.4962 1009 1549 26 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.4899 1031 1549 27 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.4796 996 1549 28 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_cereus_AFS065770_GCF_002568015.fna 83.4374 1035 1549 29 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.4309 1043 1549 30 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.4267 1041 1549 31 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_tropicus_N24_TYPE_STRAIN.fna 83.4044 1022 1549 32 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.3702 1008 1549 33 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.3166 1016 1549 34 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.2201 863 1549 35 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.1544 882 1549 36 | B_UnknownSpecies13_AFS030055_GCF_002583515.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.506 683 1549 37 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 100 1619 1620 38 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_luti_AFS005615_GCF_002559215.fna 91.9012 1344 1620 39 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_luti_TD41_TYPE_STRAIN.fna 91.5007 1296 1620 40 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.2527 1296 1620 41 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 90.6695 1314 1620 42 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.6687 1361 1620 43 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 90.5811 1033 1620 44 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 90.5608 1321 1620 45 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_cereus_AFS065770_GCF_002568015.fna 90.5259 1312 1620 46 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.4572 1302 1620 47 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 90.4174 1340 1620 48 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_mycoides_AFS098983_GCF_002550135.fna 90.3679 1352 1620 49 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_tropicus_N24_TYPE_STRAIN.fna 90.3597 1312 1620 50 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.3337 1335 1620 51 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_mosaicus_PR02_GCF_001683155.fna 90.2131 1297 1620 52 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_paranthracis_MN5_TYPE_STRAIN.fna 90.2026 1304 1620 53 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_anthracis_Ames_TYPE_STRAIN.fna 90.2006 1302 1620 54 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 90.1609 1374 1620 55 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_albus_N35-10-2_TYPE_STRAIN.fna 90.1538 1307 1620 56 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 90.1204 1353 1620 57 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_pacificus_EB422_TYPE_STRAIN.fna 90.0641 1314 1620 58 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 90.0306 1316 1620 59 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_paramycoides_AFS046754_GCF_002576795.fna 89.9652 1297 1620 60 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.8067 1337 1620 61 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_clarus_BHP_GCF_000746925.fna 86.395 1244 1620 62 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.956 1040 1620 63 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_UnknownSpecies18_GCF_002552625.fna 83.9187 998 1620 64 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.5873 1038 1620 65 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.523 1115 1620 66 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.5006 1057 1620 67 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.3586 1095 1620 68 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.3513 1021 1620 69 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.3136 1067 1620 70 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.3587 877 1620 71 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.3403 881 1620 72 | B_UnknownSpecies14_AFS092566_GCF_002550855.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3766 648 1620 73 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 100 1751 1759 74 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 91.3747 1376 1759 75 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 91.3577 1453 1759 76 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 90.8546 1293 1759 77 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 90.3618 1375 1759 78 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 90.1119 1365 1759 79 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_UnknownSpecies18_GCF_002552625.fna 86.808 1143 1759 80 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 86.6326 1294 1759 81 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_clarus_BHP_GCF_000746925.fna 84.7281 1219 1759 82 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 83.9153 1117 1759 83 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.872 1088 1759 84 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_mycoides_AFS098983_GCF_002550135.fna 83.7487 1146 1759 85 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.6554 1134 1759 86 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.6279 1167 1759 87 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.6184 1162 1759 88 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.6037 882 1759 89 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.5466 1052 1759 90 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.4836 1133 1759 91 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.3947 1052 1759 92 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_luti_AFS005615_GCF_002559215.fna 83.3864 1042 1759 93 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_cereus_AFS065770_GCF_002568015.fna 83.3398 1050 1759 94 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_luti_TD41_TYPE_STRAIN.fna 83.3114 1030 1759 95 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.2877 1055 1759 96 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.2696 1082 1759 97 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.2535 1059 1759 98 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.2382 1057 1759 99 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.2341 1029 1759 100 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.2188 1020 1759 101 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_tropicus_N24_TYPE_STRAIN.fna 83.2152 1036 1759 102 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_mosaicus_PR02_GCF_001683155.fna 83.2027 1068 1759 103 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.1883 923 1759 104 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.1828 1018 1759 105 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.1614 1035 1759 106 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.1396 914 1759 107 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.0959 1089 1759 108 | B_UnknownSpecies15_AFS028441_GCF_002559665.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.5648 690 1759 109 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 100 1345 1354 110 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.8293 1028 1354 111 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.7244 1047 1354 112 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_cereus_AFS065770_GCF_002568015.fna 90.312 1068 1354 113 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 90.2131 1066 1354 114 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 90.0821 1046 1354 115 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_luti_AFS005615_GCF_002559215.fna 90.0707 1017 1354 116 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 90.0313 1107 1354 117 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_luti_TD41_TYPE_STRAIN.fna 90.0002 1020 1354 118 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 89.9016 1040 1354 119 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_mosaicus_PR02_GCF_001683155.fna 89.8498 1043 1354 120 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_paranthracis_MN5_TYPE_STRAIN.fna 89.8263 1051 1354 121 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_tropicus_N24_TYPE_STRAIN.fna 89.8134 1055 1354 122 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_pacificus_EB422_TYPE_STRAIN.fna 89.8127 1066 1354 123 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_anthracis_Ames_TYPE_STRAIN.fna 89.7961 1056 1354 124 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 89.7597 1073 1354 125 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_albus_N35-10-2_TYPE_STRAIN.fna 89.5404 1089 1354 126 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_mycoides_AFS098983_GCF_002550135.fna 89.4589 1056 1354 127 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.4132 1047 1354 128 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_paramycoides_AFS046754_GCF_002576795.fna 89.3861 1042 1354 129 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_nitratireducens_4049_TYPE_STRAIN.fna 89.3741 1053 1354 130 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.3336 1044 1354 131 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.2445 1062 1354 132 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.2217 1071 1354 133 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_clarus_BHP_GCF_000746925.fna 86.3843 1023 1354 134 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_UnknownSpecies18_GCF_002552625.fna 84.1249 848 1354 135 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.965 882 1354 136 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.8973 905 1354 137 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.7819 897 1354 138 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.6954 874 1354 139 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5885 865 1354 140 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.4899 885 1354 141 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.471 921 1354 142 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.5426 780 1354 143 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.3703 788 1354 144 | B_UnknownSpecies16_AFS039342_GCF_002578045.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3125 562 1354 145 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 100 1671 1674 146 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 90.3995 1374 1674 147 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 90.2719 1324 1674 148 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 90.1252 1401 1674 149 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 89.3147 1290 1674 150 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 88.5292 1217 1674 151 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_UnknownSpecies18_GCF_002552625.fna 86.6248 1101 1674 152 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 86.2808 1221 1674 153 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_clarus_BHP_GCF_000746925.fna 84.4799 1158 1674 154 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.7958 1097 1674 155 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 83.7607 1080 1674 156 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.5299 1092 1674 157 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_mycoides_AFS098983_GCF_002550135.fna 83.5255 1088 1674 158 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_luti_AFS005615_GCF_002559215.fna 83.4663 1017 1674 159 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.4476 1113 1674 160 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.4235 1042 1674 161 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.4082 1078 1674 162 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.3908 1014 1674 163 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.3887 869 1674 164 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_cereus_AFS065770_GCF_002568015.fna 83.3797 1004 1674 165 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.3719 1007 1674 166 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.3608 1102 1674 167 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_tropicus_N24_TYPE_STRAIN.fna 83.329 999 1674 168 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.2538 991 1674 169 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_mosaicus_PR02_GCF_001683155.fna 83.2468 1027 1674 170 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.2444 1027 1674 171 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.2382 886 1674 172 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_luti_TD41_TYPE_STRAIN.fna 83.2265 998 1674 173 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.2042 1018 1674 174 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.1951 1014 1674 175 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.1402 1006 1674 176 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.1345 1017 1674 177 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.1265 901 1674 178 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.0807 1019 1674 179 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 82.874 1011 1674 180 | B_UnknownSpecies17_AFS031783_GCF_002584535.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.702 664 1674 181 | B_UnknownSpecies18_GCF_002552625.fna B_UnknownSpecies18_GCF_002552625.fna 100 1520 1531 182 | B_UnknownSpecies18_GCF_002552625.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 87.5053 1136 1531 183 | B_UnknownSpecies18_GCF_002552625.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 87.3627 1179 1531 184 | B_UnknownSpecies18_GCF_002552625.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 86.9993 1130 1531 185 | B_UnknownSpecies18_GCF_002552625.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 86.7456 1130 1531 186 | B_UnknownSpecies18_GCF_002552625.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 86.7147 1099 1531 187 | B_UnknownSpecies18_GCF_002552625.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 86.4877 1121 1531 188 | B_UnknownSpecies18_GCF_002552625.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 85.9725 1088 1531 189 | B_UnknownSpecies18_GCF_002552625.fna B_clarus_BHP_GCF_000746925.fna 85.1385 1111 1531 190 | B_UnknownSpecies18_GCF_002552625.fna B_paramycoides_AFS046754_GCF_002576795.fna 84.4517 1045 1531 191 | B_UnknownSpecies18_GCF_002552625.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 84.3589 1059 1531 192 | B_UnknownSpecies18_GCF_002552625.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 84.0442 1046 1531 193 | B_UnknownSpecies18_GCF_002552625.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 84.0333 1040 1531 194 | B_UnknownSpecies18_GCF_002552625.fna B_mycoides_AFS098983_GCF_002550135.fna 83.9902 1018 1531 195 | B_UnknownSpecies18_GCF_002552625.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.986 1049 1531 196 | B_UnknownSpecies18_GCF_002552625.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.9271 971 1531 197 | B_UnknownSpecies18_GCF_002552625.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.9249 1021 1531 198 | B_UnknownSpecies18_GCF_002552625.fna B_luti_AFS005615_GCF_002559215.fna 83.8812 1000 1531 199 | B_UnknownSpecies18_GCF_002552625.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.8739 859 1531 200 | B_UnknownSpecies18_GCF_002552625.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.8439 987 1531 201 | B_UnknownSpecies18_GCF_002552625.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.8239 934 1531 202 | B_UnknownSpecies18_GCF_002552625.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.8138 938 1531 203 | B_UnknownSpecies18_GCF_002552625.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.813 1017 1531 204 | B_UnknownSpecies18_GCF_002552625.fna B_cereus_AFS065770_GCF_002568015.fna 83.7785 982 1531 205 | B_UnknownSpecies18_GCF_002552625.fna B_mosaicus_PR02_GCF_001683155.fna 83.7783 984 1531 206 | B_UnknownSpecies18_GCF_002552625.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.7606 971 1531 207 | B_UnknownSpecies18_GCF_002552625.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.7552 988 1531 208 | B_UnknownSpecies18_GCF_002552625.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.752 986 1531 209 | B_UnknownSpecies18_GCF_002552625.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.6917 984 1531 210 | B_UnknownSpecies18_GCF_002552625.fna B_tropicus_N24_TYPE_STRAIN.fna 83.6493 980 1531 211 | B_UnknownSpecies18_GCF_002552625.fna B_luti_TD41_TYPE_STRAIN.fna 83.6428 972 1531 212 | B_UnknownSpecies18_GCF_002552625.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.6424 992 1531 213 | B_UnknownSpecies18_GCF_002552625.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.6353 1000 1531 214 | B_UnknownSpecies18_GCF_002552625.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.5854 1013 1531 215 | B_UnknownSpecies18_GCF_002552625.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.5677 1023 1531 216 | B_UnknownSpecies18_GCF_002552625.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.5172 644 1531 217 | B_albus_N35-10-2_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 100 1880 1881 218 | B_albus_N35-10-2_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 93.8471 1483 1881 219 | B_albus_N35-10-2_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.7671 1532 1881 220 | B_albus_N35-10-2_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 93.5791 1507 1881 221 | B_albus_N35-10-2_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 93.5533 1506 1881 222 | B_albus_N35-10-2_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 93.4553 1478 1881 223 | B_albus_N35-10-2_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 93.3519 1480 1881 224 | B_albus_N35-10-2_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 93.3405 1455 1881 225 | B_albus_N35-10-2_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 93.1154 1501 1881 226 | B_albus_N35-10-2_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.5157 1479 1881 227 | B_albus_N35-10-2_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.4451 1508 1881 228 | B_albus_N35-10-2_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.3221 1419 1881 229 | B_albus_N35-10-2_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.1961 1568 1881 230 | B_albus_N35-10-2_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.8832 1435 1881 231 | B_albus_N35-10-2_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.6202 1357 1881 232 | B_albus_N35-10-2_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.2813 1444 1881 233 | B_albus_N35-10-2_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.2533 1455 1881 234 | B_albus_N35-10-2_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 89.9664 1328 1881 235 | B_albus_N35-10-2_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.7632 1453 1881 236 | B_albus_N35-10-2_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.5997 1501 1881 237 | B_albus_N35-10-2_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.525 1479 1881 238 | B_albus_N35-10-2_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.4725 1097 1881 239 | B_albus_N35-10-2_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.7347 1357 1881 240 | B_albus_N35-10-2_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.6586 1395 1881 241 | B_albus_N35-10-2_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 85.8211 1333 1881 242 | B_albus_N35-10-2_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.6852 988 1881 243 | B_albus_N35-10-2_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5854 1043 1881 244 | B_albus_N35-10-2_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.4337 1110 1881 245 | B_albus_N35-10-2_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.2466 1122 1881 246 | B_albus_N35-10-2_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2413 1128 1881 247 | B_albus_N35-10-2_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2273 1074 1881 248 | B_albus_N35-10-2_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.2149 1073 1881 249 | B_albus_N35-10-2_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.1061 1034 1881 250 | B_albus_N35-10-2_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4421 892 1881 251 | B_albus_N35-10-2_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4175 883 1881 252 | B_albus_N35-10-2_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3454 641 1881 253 | B_anthracis_Ames_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 100 1741 1742 254 | B_anthracis_Ames_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 99.9935 1740 1742 255 | B_anthracis_Ames_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 95.3013 1505 1742 256 | B_anthracis_Ames_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 95.2351 1523 1742 257 | B_anthracis_Ames_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 94.7655 1502 1742 258 | B_anthracis_Ames_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 94.2692 1457 1742 259 | B_anthracis_Ames_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.5875 1505 1742 260 | B_anthracis_Ames_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.092 1484 1742 261 | B_anthracis_Ames_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 92.9479 1447 1742 262 | B_anthracis_Ames_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.7725 1515 1742 263 | B_anthracis_Ames_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.5838 1469 1742 264 | B_anthracis_Ames_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.5359 1508 1742 265 | B_anthracis_Ames_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.4207 1415 1742 266 | B_anthracis_Ames_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.126 1406 1742 267 | B_anthracis_Ames_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.6447 1328 1742 268 | B_anthracis_Ames_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.111 1311 1742 269 | B_anthracis_Ames_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.0722 1431 1742 270 | B_anthracis_Ames_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.0383 1432 1742 271 | B_anthracis_Ames_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.8246 1446 1742 272 | B_anthracis_Ames_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.5972 1052 1742 273 | B_anthracis_Ames_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.5031 1453 1742 274 | B_anthracis_Ames_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.4242 1418 1742 275 | B_anthracis_Ames_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.8065 1358 1742 276 | B_anthracis_Ames_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.7344 1340 1742 277 | B_anthracis_Ames_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.1478 1284 1742 278 | B_anthracis_Ames_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.6585 989 1742 279 | B_anthracis_Ames_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5804 1023 1742 280 | B_anthracis_Ames_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.3836 1036 1742 281 | B_anthracis_Ames_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.3068 1100 1742 282 | B_anthracis_Ames_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.3024 1082 1742 283 | B_anthracis_Ames_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2264 1080 1742 284 | B_anthracis_Ames_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2167 1054 1742 285 | B_anthracis_Ames_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.1373 1016 1742 286 | B_anthracis_Ames_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.8202 887 1742 287 | B_anthracis_Ames_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.7627 894 1742 288 | B_anthracis_Ames_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.2028 659 1742 289 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 100 1792 1794 290 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 90.482 1297 1794 291 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 90.222 1377 1794 292 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 90.0154 1350 1794 293 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 89.2842 1299 1794 294 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 88.8119 1232 1794 295 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 87.557 1350 1794 296 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 87.0352 1125 1794 297 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 84.6947 1245 1794 298 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 83.8272 1142 1794 299 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.781 1129 1794 300 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.698 1133 1794 301 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.6931 905 1794 302 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.6524 1144 1794 303 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.6321 1142 1794 304 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.6242 1038 1794 305 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.6161 1060 1794 306 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.5747 1070 1794 307 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 83.5102 1092 1794 308 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.5089 1132 1794 309 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.4703 1149 1794 310 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.4495 934 1794 311 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.4261 1040 1794 312 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 83.4117 1040 1794 313 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.4042 961 1794 314 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 83.4034 1156 1794 315 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 83.4021 1065 1794 316 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 83.3807 1068 1794 317 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.3778 1089 1794 318 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.3584 1076 1794 319 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.3455 1068 1794 320 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 83.3446 1090 1794 321 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.3215 1072 1794 322 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.2825 1116 1794 323 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.2149 1050 1794 324 | B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.5212 721 1794 325 | B_cereus_AFS065770_GCF_002568015.fna B_cereus_AFS065770_GCF_002568015.fna 100 1764 1764 326 | B_cereus_AFS065770_GCF_002568015.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 97.1145 1561 1764 327 | B_cereus_AFS065770_GCF_002568015.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 96.2626 1573 1764 328 | B_cereus_AFS065770_GCF_002568015.fna B_tropicus_N24_TYPE_STRAIN.fna 91.9345 1467 1764 329 | B_cereus_AFS065770_GCF_002568015.fna B_paranthracis_MN5_TYPE_STRAIN.fna 91.8137 1456 1764 330 | B_cereus_AFS065770_GCF_002568015.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.6923 1440 1764 331 | B_cereus_AFS065770_GCF_002568015.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 91.6914 1450 1764 332 | B_cereus_AFS065770_GCF_002568015.fna B_pacificus_EB422_TYPE_STRAIN.fna 91.6179 1440 1764 333 | B_cereus_AFS065770_GCF_002568015.fna B_mosaicus_PR02_GCF_001683155.fna 91.6063 1474 1764 334 | B_cereus_AFS065770_GCF_002568015.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.6024 1476 1764 335 | B_cereus_AFS065770_GCF_002568015.fna B_anthracis_Ames_TYPE_STRAIN.fna 91.5723 1471 1764 336 | B_cereus_AFS065770_GCF_002568015.fna B_albus_N35-10-2_TYPE_STRAIN.fna 91.5346 1484 1764 337 | B_cereus_AFS065770_GCF_002568015.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 91.2659 1422 1764 338 | B_cereus_AFS065770_GCF_002568015.fna B_luti_TD41_TYPE_STRAIN.fna 91.0275 1403 1764 339 | B_cereus_AFS065770_GCF_002568015.fna B_luti_AFS005615_GCF_002559215.fna 90.655 1335 1764 340 | B_cereus_AFS065770_GCF_002568015.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.5154 1315 1764 341 | B_cereus_AFS065770_GCF_002568015.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 90.1171 1081 1764 342 | B_cereus_AFS065770_GCF_002568015.fna B_mycoides_AFS098983_GCF_002550135.fna 89.9836 1458 1764 343 | B_cereus_AFS065770_GCF_002568015.fna B_nitratireducens_4049_TYPE_STRAIN.fna 89.9473 1421 1764 344 | B_cereus_AFS065770_GCF_002568015.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.8519 1425 1764 345 | B_cereus_AFS065770_GCF_002568015.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.6092 1442 1764 346 | B_cereus_AFS065770_GCF_002568015.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.5758 1456 1764 347 | B_cereus_AFS065770_GCF_002568015.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.9696 1380 1764 348 | B_cereus_AFS065770_GCF_002568015.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.9304 1363 1764 349 | B_cereus_AFS065770_GCF_002568015.fna B_clarus_BHP_GCF_000746925.fna 86.2182 1288 1764 350 | B_cereus_AFS065770_GCF_002568015.fna B_UnknownSpecies18_GCF_002552625.fna 83.7774 981 1764 351 | B_cereus_AFS065770_GCF_002568015.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.5632 1078 1764 352 | B_cereus_AFS065770_GCF_002568015.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.3808 1032 1764 353 | B_cereus_AFS065770_GCF_002568015.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.3307 1047 1764 354 | B_cereus_AFS065770_GCF_002568015.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.3155 1045 1764 355 | B_cereus_AFS065770_GCF_002568015.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.2546 1020 1764 356 | B_cereus_AFS065770_GCF_002568015.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2344 1109 1764 357 | B_cereus_AFS065770_GCF_002568015.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.1908 1112 1764 358 | B_cereus_AFS065770_GCF_002568015.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.644 859 1764 359 | B_cereus_AFS065770_GCF_002568015.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.5764 869 1764 360 | B_cereus_AFS065770_GCF_002568015.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.1927 642 1764 361 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 100 1804 1808 362 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 97.0695 1580 1808 363 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 96.7208 1607 1808 364 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 92.0951 1475 1808 365 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 91.9495 1503 1808 366 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 91.881 1474 1808 367 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 91.8038 1510 1808 368 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 91.7961 1512 1808 369 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.7477 1454 1808 370 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 91.588 1439 1808 371 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.4744 1488 1808 372 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 91.4099 1518 1808 373 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.1273 1421 1808 374 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 91.087 1447 1808 375 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.6525 1353 1808 376 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.4505 1323 1808 377 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 90.0644 1069 1808 378 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.8634 1417 1808 379 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 89.8305 1461 1808 380 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 89.8303 1438 1808 381 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.4882 1455 1808 382 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.4842 1458 1808 383 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.9743 1338 1808 384 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.8585 1376 1808 385 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.0766 1325 1808 386 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.7434 985 1808 387 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.6483 1019 1808 388 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.544 1067 1808 389 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.4031 1009 1808 390 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.3186 1047 1808 391 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2843 1082 1808 392 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2066 1074 1808 393 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.1907 1106 1808 394 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.6565 892 1808 395 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4605 920 1808 396 | B_cereus_ATCC_14579_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.0975 686 1808 397 | B_clarus_BHP_GCF_000746925.fna B_clarus_BHP_GCF_000746925.fna 100 1949 1951 398 | B_clarus_BHP_GCF_000746925.fna B_paramycoides_AFS046754_GCF_002576795.fna 87.4567 1343 1951 399 | B_clarus_BHP_GCF_000746925.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 87.3266 1367 1951 400 | B_clarus_BHP_GCF_000746925.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 86.9916 1407 1951 401 | B_clarus_BHP_GCF_000746925.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 86.9599 1364 1951 402 | B_clarus_BHP_GCF_000746925.fna B_nitratireducens_4049_TYPE_STRAIN.fna 86.8784 1350 1951 403 | B_clarus_BHP_GCF_000746925.fna B_mycoides_AFS098983_GCF_002550135.fna 86.8381 1382 1951 404 | B_clarus_BHP_GCF_000746925.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 86.7541 1396 1951 405 | B_clarus_BHP_GCF_000746925.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 86.5317 1301 1951 406 | B_clarus_BHP_GCF_000746925.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 86.4016 1238 1951 407 | B_clarus_BHP_GCF_000746925.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 86.2639 1033 1951 408 | B_clarus_BHP_GCF_000746925.fna B_luti_AFS005615_GCF_002559215.fna 86.192 1236 1951 409 | B_clarus_BHP_GCF_000746925.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 86.1406 1286 1951 410 | B_clarus_BHP_GCF_000746925.fna B_luti_TD41_TYPE_STRAIN.fna 86.1354 1259 1951 411 | B_clarus_BHP_GCF_000746925.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 86.117 1290 1951 412 | B_clarus_BHP_GCF_000746925.fna B_mosaicus_PR02_GCF_001683155.fna 86.1164 1280 1951 413 | B_clarus_BHP_GCF_000746925.fna B_anthracis_Ames_TYPE_STRAIN.fna 86.0979 1282 1951 414 | B_clarus_BHP_GCF_000746925.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 86.0882 1322 1951 415 | B_clarus_BHP_GCF_000746925.fna B_cereus_AFS065770_GCF_002568015.fna 86.0461 1305 1951 416 | B_clarus_BHP_GCF_000746925.fna B_pacificus_EB422_TYPE_STRAIN.fna 85.9854 1276 1951 417 | B_clarus_BHP_GCF_000746925.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 85.9849 1338 1951 418 | B_clarus_BHP_GCF_000746925.fna B_tropicus_N24_TYPE_STRAIN.fna 85.9846 1277 1951 419 | B_clarus_BHP_GCF_000746925.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 85.9842 1253 1951 420 | B_clarus_BHP_GCF_000746925.fna B_paranthracis_MN5_TYPE_STRAIN.fna 85.9525 1268 1951 421 | B_clarus_BHP_GCF_000746925.fna B_albus_N35-10-2_TYPE_STRAIN.fna 85.8247 1338 1951 422 | B_clarus_BHP_GCF_000746925.fna B_UnknownSpecies18_GCF_002552625.fna 85.1412 1113 1951 423 | B_clarus_BHP_GCF_000746925.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 84.958 1308 1951 424 | B_clarus_BHP_GCF_000746925.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 84.9137 1198 1951 425 | B_clarus_BHP_GCF_000746925.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 84.9055 1281 1951 426 | B_clarus_BHP_GCF_000746925.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 84.7211 1233 1951 427 | B_clarus_BHP_GCF_000746925.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 84.7086 1229 1951 428 | B_clarus_BHP_GCF_000746925.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 84.6199 1091 1951 429 | B_clarus_BHP_GCF_000746925.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 84.4874 1167 1951 430 | B_clarus_BHP_GCF_000746925.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.2152 948 1951 431 | B_clarus_BHP_GCF_000746925.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.1433 977 1951 432 | B_clarus_BHP_GCF_000746925.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.4525 685 1951 433 | B_cytotoxicus_CH_39_GCF_002251005.fna B_cytotoxicus_CH_39_GCF_002251005.fna 100 1441 1444 434 | B_cytotoxicus_CH_39_GCF_002251005.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 99.4839 1310 1444 435 | B_cytotoxicus_CH_39_GCF_002251005.fna B_UnknownSpecies18_GCF_002552625.fna 83.9946 924 1444 436 | B_cytotoxicus_CH_39_GCF_002251005.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.5023 959 1444 437 | B_cytotoxicus_CH_39_GCF_002251005.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.3386 910 1444 438 | B_cytotoxicus_CH_39_GCF_002251005.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.289 924 1444 439 | B_cytotoxicus_CH_39_GCF_002251005.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.2839 943 1444 440 | B_cytotoxicus_CH_39_GCF_002251005.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.2395 896 1444 441 | B_cytotoxicus_CH_39_GCF_002251005.fna B_clarus_BHP_GCF_000746925.fna 83.2341 962 1444 442 | B_cytotoxicus_CH_39_GCF_002251005.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.233 877 1444 443 | B_cytotoxicus_CH_39_GCF_002251005.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2 948 1444 444 | B_cytotoxicus_CH_39_GCF_002251005.fna B_anthracis_Ames_TYPE_STRAIN.fna 82.9269 887 1444 445 | B_cytotoxicus_CH_39_GCF_002251005.fna B_mosaicus_PR02_GCF_001683155.fna 82.8849 885 1444 446 | B_cytotoxicus_CH_39_GCF_002251005.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 82.72 897 1444 447 | B_cytotoxicus_CH_39_GCF_002251005.fna B_paramycoides_AFS046754_GCF_002576795.fna 82.6828 890 1444 448 | B_cytotoxicus_CH_39_GCF_002251005.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 82.6682 906 1444 449 | B_cytotoxicus_CH_39_GCF_002251005.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 82.598 888 1444 450 | B_cytotoxicus_CH_39_GCF_002251005.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 82.5855 869 1444 451 | B_cytotoxicus_CH_39_GCF_002251005.fna B_mycoides_AFS098983_GCF_002550135.fna 82.5822 872 1444 452 | B_cytotoxicus_CH_39_GCF_002251005.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 82.574 885 1444 453 | B_cytotoxicus_CH_39_GCF_002251005.fna B_cereus_AFS065770_GCF_002568015.fna 82.5557 882 1444 454 | B_cytotoxicus_CH_39_GCF_002251005.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 82.5557 886 1444 455 | B_cytotoxicus_CH_39_GCF_002251005.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 82.5481 888 1444 456 | B_cytotoxicus_CH_39_GCF_002251005.fna B_tropicus_N24_TYPE_STRAIN.fna 82.5179 875 1444 457 | B_cytotoxicus_CH_39_GCF_002251005.fna B_pacificus_EB422_TYPE_STRAIN.fna 82.5046 882 1444 458 | B_cytotoxicus_CH_39_GCF_002251005.fna B_nitratireducens_4049_TYPE_STRAIN.fna 82.4899 873 1444 459 | B_cytotoxicus_CH_39_GCF_002251005.fna B_luti_AFS005615_GCF_002559215.fna 82.4646 845 1444 460 | B_cytotoxicus_CH_39_GCF_002251005.fna B_albus_N35-10-2_TYPE_STRAIN.fna 82.4587 890 1444 461 | B_cytotoxicus_CH_39_GCF_002251005.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 82.4403 864 1444 462 | B_cytotoxicus_CH_39_GCF_002251005.fna B_paranthracis_MN5_TYPE_STRAIN.fna 82.4274 882 1444 463 | B_cytotoxicus_CH_39_GCF_002251005.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 82.4245 901 1444 464 | B_cytotoxicus_CH_39_GCF_002251005.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 82.4226 925 1444 465 | B_cytotoxicus_CH_39_GCF_002251005.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 82.3975 870 1444 466 | B_cytotoxicus_CH_39_GCF_002251005.fna B_luti_TD41_TYPE_STRAIN.fna 82.3482 864 1444 467 | B_cytotoxicus_CH_39_GCF_002251005.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 82.3424 805 1444 468 | B_cytotoxicus_CH_39_GCF_002251005.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.0575 582 1444 469 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 100 1364 1364 470 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 99.5081 1306 1364 471 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 84.0096 919 1364 472 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.5274 935 1364 473 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.3596 919 1364 474 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.3448 903 1364 475 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.3413 906 1364 476 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 83.3192 930 1364 477 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.2789 895 1364 478 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.2184 868 1364 479 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2081 929 1364 480 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 82.9019 889 1364 481 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 82.8189 896 1364 482 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 82.8125 913 1364 483 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 82.7823 870 1364 484 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 82.7327 864 1364 485 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 82.6557 864 1364 486 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 82.6287 864 1364 487 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 82.6159 858 1364 488 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 82.6114 879 1364 489 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 82.55 879 1364 490 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 82.537 861 1364 491 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 82.5283 906 1364 492 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 82.5273 873 1364 493 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 82.5201 778 1364 494 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 82.5148 870 1364 495 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 82.5121 844 1364 496 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 82.5007 875 1364 497 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 82.5005 869 1364 498 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 82.4957 851 1364 499 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 82.4834 879 1364 500 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 82.4821 884 1364 501 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 82.4689 872 1364 502 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 82.4492 860 1364 503 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 82.3359 864 1364 504 | B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 79.9302 582 1364 505 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 100 1834 1837 506 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 87.6023 1341 1837 507 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 87.2269 1233 1837 508 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 86.9419 1340 1837 509 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 86.6722 1102 1837 510 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 86.6393 1277 1837 511 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 86.0563 1225 1837 512 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 85.7832 1178 1837 513 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 84.8273 1310 1837 514 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 83.831 1126 1837 515 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.7873 1137 1837 516 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.5641 1111 1837 517 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.5285 1157 1837 518 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.4852 1161 1837 519 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.4541 1068 1837 520 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.454 1143 1837 521 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.4405 1049 1837 522 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 83.4157 1137 1837 523 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 83.3793 1093 1837 524 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 83.3761 1041 1837 525 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 83.3695 1044 1837 526 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.3679 1061 1837 527 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.3434 903 1837 528 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.3417 1073 1837 529 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.3387 1066 1837 530 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.3384 1111 1837 531 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 83.3019 1087 1837 532 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.2782 1110 1837 533 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.2556 1057 1837 534 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.2028 1054 1837 535 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.2017 1070 1837 536 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 83.1987 1065 1837 537 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.1871 1073 1837 538 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.9667 948 1837 539 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.9276 958 1837 540 | B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.4968 657 1837 541 | B_luti_AFS005615_GCF_002559215.fna B_luti_AFS005615_GCF_002559215.fna 100 1649 1651 542 | B_luti_AFS005615_GCF_002559215.fna B_luti_TD41_TYPE_STRAIN.fna 93.9199 1370 1651 543 | B_luti_AFS005615_GCF_002559215.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 91.9314 1338 1651 544 | B_luti_AFS005615_GCF_002559215.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.0777 1365 1651 545 | B_luti_AFS005615_GCF_002559215.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.8995 1321 1651 546 | B_luti_AFS005615_GCF_002559215.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.8944 1315 1651 547 | B_luti_AFS005615_GCF_002559215.fna B_tropicus_N24_TYPE_STRAIN.fna 90.8847 1328 1651 548 | B_luti_AFS005615_GCF_002559215.fna B_cereus_AFS065770_GCF_002568015.fna 90.7544 1324 1651 549 | B_luti_AFS005615_GCF_002559215.fna B_mosaicus_PR02_GCF_001683155.fna 90.751 1316 1651 550 | B_luti_AFS005615_GCF_002559215.fna B_paranthracis_MN5_TYPE_STRAIN.fna 90.7365 1332 1651 551 | B_luti_AFS005615_GCF_002559215.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 90.7185 1347 1651 552 | B_luti_AFS005615_GCF_002559215.fna B_anthracis_Ames_TYPE_STRAIN.fna 90.7131 1325 1651 553 | B_luti_AFS005615_GCF_002559215.fna B_albus_N35-10-2_TYPE_STRAIN.fna 90.7054 1341 1651 554 | B_luti_AFS005615_GCF_002559215.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 90.6766 1343 1651 555 | B_luti_AFS005615_GCF_002559215.fna B_pacificus_EB422_TYPE_STRAIN.fna 90.6609 1306 1651 556 | B_luti_AFS005615_GCF_002559215.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 90.6448 1348 1651 557 | B_luti_AFS005615_GCF_002559215.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.2896 1363 1651 558 | B_luti_AFS005615_GCF_002559215.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.1528 1326 1651 559 | B_luti_AFS005615_GCF_002559215.fna B_mycoides_AFS098983_GCF_002550135.fna 90.0507 1348 1651 560 | B_luti_AFS005615_GCF_002559215.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.8853 1006 1651 561 | B_luti_AFS005615_GCF_002559215.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.7013 1342 1651 562 | B_luti_AFS005615_GCF_002559215.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.5889 1364 1651 563 | B_luti_AFS005615_GCF_002559215.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.3151 1324 1651 564 | B_luti_AFS005615_GCF_002559215.fna B_paramycoides_AFS046754_GCF_002576795.fna 89.3091 1314 1651 565 | B_luti_AFS005615_GCF_002559215.fna B_clarus_BHP_GCF_000746925.fna 86.154 1255 1651 566 | B_luti_AFS005615_GCF_002559215.fna B_UnknownSpecies18_GCF_002552625.fna 83.8979 987 1651 567 | B_luti_AFS005615_GCF_002559215.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.728 1046 1651 568 | B_luti_AFS005615_GCF_002559215.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.604 1035 1651 569 | B_luti_AFS005615_GCF_002559215.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.4753 1056 1651 570 | B_luti_AFS005615_GCF_002559215.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.4376 1048 1651 571 | B_luti_AFS005615_GCF_002559215.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.4237 1083 1651 572 | B_luti_AFS005615_GCF_002559215.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.3482 1037 1651 573 | B_luti_AFS005615_GCF_002559215.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.3414 1021 1651 574 | B_luti_AFS005615_GCF_002559215.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.5217 845 1651 575 | B_luti_AFS005615_GCF_002559215.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4782 838 1651 576 | B_luti_AFS005615_GCF_002559215.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3431 633 1651 577 | B_luti_TD41_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 100 1653 1656 578 | B_luti_TD41_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 93.9561 1375 1656 579 | B_luti_TD41_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.7994 1428 1656 580 | B_luti_TD41_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 91.7042 1418 1656 581 | B_luti_TD41_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 91.5898 1407 1656 582 | B_luti_TD41_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 91.5373 1404 1656 583 | B_luti_TD41_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 91.5224 1410 1656 584 | B_luti_TD41_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 91.5208 1401 1656 585 | B_luti_TD41_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 91.4489 1410 1656 586 | B_luti_TD41_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 91.4352 1386 1656 587 | B_luti_TD41_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.4058 1369 1656 588 | B_luti_TD41_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 91.3745 1415 1656 589 | B_luti_TD41_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 91.3606 1309 1656 590 | B_luti_TD41_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.2571 1426 1656 591 | B_luti_TD41_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.217 1417 1656 592 | B_luti_TD41_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.1799 1395 1656 593 | B_luti_TD41_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.3813 1417 1656 594 | B_luti_TD41_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.3046 1404 1656 595 | B_luti_TD41_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.2597 1404 1656 596 | B_luti_TD41_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.9262 1405 1656 597 | B_luti_TD41_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.9116 1035 1656 598 | B_luti_TD41_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.8832 1396 1656 599 | B_luti_TD41_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.1794 1319 1656 600 | B_luti_TD41_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 89.0865 1338 1656 601 | B_luti_TD41_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.178 1251 1656 602 | B_luti_TD41_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.773 966 1656 603 | B_luti_TD41_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.6413 1009 1656 604 | B_luti_TD41_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.4566 1045 1656 605 | B_luti_TD41_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.4292 1027 1656 606 | B_luti_TD41_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.3988 1050 1656 607 | B_luti_TD41_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.3013 1063 1656 608 | B_luti_TD41_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.3005 980 1656 609 | B_luti_TD41_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.1457 1059 1656 610 | B_luti_TD41_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.2289 875 1656 611 | B_luti_TD41_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.2191 865 1656 612 | B_luti_TD41_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.2215 656 1656 613 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 100 1499 1503 614 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 80.6794 673 1503 615 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 80.6708 699 1503 616 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 80.6648 667 1503 617 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 80.6514 670 1503 618 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 80.6082 661 1503 619 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 80.565 659 1503 620 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 80.5163 694 1503 621 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 80.4844 691 1503 622 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 80.4722 658 1503 623 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 80.4376 630 1503 624 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 80.4166 639 1503 625 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 80.4034 681 1503 626 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 80.3771 636 1503 627 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 80.3744 654 1503 628 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 80.374 659 1503 629 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 80.3578 646 1503 630 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 80.3287 653 1503 631 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 80.32 660 1503 632 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 80.3186 660 1503 633 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 80.3069 672 1503 634 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 80.2804 642 1503 635 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 80.2787 657 1503 636 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 80.2785 665 1503 637 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 80.2604 649 1503 638 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 80.2406 651 1503 639 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 80.2352 648 1503 640 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 80.2324 668 1503 641 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 80.2256 670 1503 642 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 80.1774 668 1503 643 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 80.1341 681 1503 644 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 80.1194 639 1503 645 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 80.1165 593 1503 646 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 80.0333 673 1503 647 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 80.0014 574 1503 648 | B_manliponensis_JCM_15802_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 79.975 579 1503 649 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 100 1822 1828 650 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 94.6106 1472 1828 651 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.8108 1479 1828 652 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 93.2252 1498 1828 653 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 93.2049 1473 1828 654 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 93.1049 1539 1828 655 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 92.9208 1484 1828 656 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 92.9123 1456 1828 657 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 92.8826 1467 1828 658 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.4379 1430 1828 659 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.2499 1429 1828 660 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.2228 1497 1828 661 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.1501 1442 1828 662 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.0585 1384 1828 663 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.856 1431 1828 664 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.8238 1427 1828 665 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.7357 1329 1828 666 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.3076 1326 1828 667 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.2159 1413 1828 668 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 90.1711 1435 1828 669 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 90.0771 1402 1828 670 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.5591 1057 1828 671 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.0211 1339 1828 672 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.9456 1353 1828 673 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.0206 1254 1828 674 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.7154 983 1828 675 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.4537 1025 1828 676 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.3472 1052 1828 677 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.2972 1002 1828 678 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2256 1066 1828 679 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2076 1031 1828 680 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.1835 1058 1828 681 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 82.9765 991 1828 682 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4208 888 1828 683 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.3539 895 1828 684 | B_mobilis_0711P9-1_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.1589 631 1828 685 | B_mosaicus_PR02_GCF_001683155.fna B_mosaicus_PR02_GCF_001683155.fna 100 1741 1742 686 | B_mosaicus_PR02_GCF_001683155.fna B_anthracis_Ames_TYPE_STRAIN.fna 99.9933 1740 1742 687 | B_mosaicus_PR02_GCF_001683155.fna B_paranthracis_MN5_TYPE_STRAIN.fna 95.3031 1506 1742 688 | B_mosaicus_PR02_GCF_001683155.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 95.254 1527 1742 689 | B_mosaicus_PR02_GCF_001683155.fna B_tropicus_N24_TYPE_STRAIN.fna 94.8259 1502 1742 690 | B_mosaicus_PR02_GCF_001683155.fna B_pacificus_EB422_TYPE_STRAIN.fna 94.2652 1449 1742 691 | B_mosaicus_PR02_GCF_001683155.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.642 1497 1742 692 | B_mosaicus_PR02_GCF_001683155.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.176 1486 1742 693 | B_mosaicus_PR02_GCF_001683155.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 92.9655 1447 1742 694 | B_mosaicus_PR02_GCF_001683155.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.8475 1508 1742 695 | B_mosaicus_PR02_GCF_001683155.fna B_cereus_AFS065770_GCF_002568015.fna 91.5952 1480 1742 696 | B_mosaicus_PR02_GCF_001683155.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.552 1510 1742 697 | B_mosaicus_PR02_GCF_001683155.fna B_luti_TD41_TYPE_STRAIN.fna 91.4529 1409 1742 698 | B_mosaicus_PR02_GCF_001683155.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.1782 1402 1742 699 | B_mosaicus_PR02_GCF_001683155.fna B_luti_AFS005615_GCF_002559215.fna 90.6959 1317 1742 700 | B_mosaicus_PR02_GCF_001683155.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.1139 1307 1742 701 | B_mosaicus_PR02_GCF_001683155.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.0988 1436 1742 702 | B_mosaicus_PR02_GCF_001683155.fna B_mycoides_AFS098983_GCF_002550135.fna 90.0983 1427 1742 703 | B_mosaicus_PR02_GCF_001683155.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.8758 1450 1742 704 | B_mosaicus_PR02_GCF_001683155.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.6002 1061 1742 705 | B_mosaicus_PR02_GCF_001683155.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.5486 1447 1742 706 | B_mosaicus_PR02_GCF_001683155.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.4725 1419 1742 707 | B_mosaicus_PR02_GCF_001683155.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.7975 1363 1742 708 | B_mosaicus_PR02_GCF_001683155.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.7145 1336 1742 709 | B_mosaicus_PR02_GCF_001683155.fna B_clarus_BHP_GCF_000746925.fna 86.1158 1289 1742 710 | B_mosaicus_PR02_GCF_001683155.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.681 1013 1742 711 | B_mosaicus_PR02_GCF_001683155.fna B_UnknownSpecies18_GCF_002552625.fna 83.6466 994 1742 712 | B_mosaicus_PR02_GCF_001683155.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.4572 1018 1742 713 | B_mosaicus_PR02_GCF_001683155.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2685 1070 1742 714 | B_mosaicus_PR02_GCF_001683155.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2639 1059 1742 715 | B_mosaicus_PR02_GCF_001683155.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.2639 1089 1742 716 | B_mosaicus_PR02_GCF_001683155.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.2284 1104 1742 717 | B_mosaicus_PR02_GCF_001683155.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.1286 1014 1742 718 | B_mosaicus_PR02_GCF_001683155.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.7677 888 1742 719 | B_mosaicus_PR02_GCF_001683155.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.7421 900 1742 720 | B_mosaicus_PR02_GCF_001683155.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.2272 655 1742 721 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 100 1864 1866 722 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_paranthracis_MN5_TYPE_STRAIN.fna 97.4862 1527 1866 723 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_pacificus_EB422_TYPE_STRAIN.fna 96.0285 1545 1866 724 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_tropicus_N24_TYPE_STRAIN.fna 95.5934 1477 1866 725 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_anthracis_Ames_TYPE_STRAIN.fna 95.1767 1540 1866 726 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_mosaicus_PR02_GCF_001683155.fna 95.1725 1540 1866 727 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.2087 1468 1866 728 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 93.1652 1530 1866 729 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.0825 1464 1866 730 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.9236 1512 1866 731 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_cereus_AFS065770_GCF_002568015.fna 91.6208 1451 1866 732 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.3932 1517 1866 733 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_luti_TD41_TYPE_STRAIN.fna 91.3417 1412 1866 734 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.007 1414 1866 735 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_luti_AFS005615_GCF_002559215.fna 90.5965 1347 1866 736 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.0882 1315 1866 737 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.0594 1429 1866 738 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_mycoides_AFS098983_GCF_002550135.fna 89.9446 1441 1866 739 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.691 1446 1866 740 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.5006 1059 1866 741 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.3987 1414 1866 742 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.3369 1450 1866 743 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.7359 1331 1866 744 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.6959 1357 1866 745 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_clarus_BHP_GCF_000746925.fna 86.045 1310 1866 746 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_UnknownSpecies18_GCF_002552625.fna 83.6592 985 1866 747 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.6165 1004 1866 748 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.3119 1070 1866 749 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.2799 1029 1866 750 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2751 1077 1866 751 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2313 1032 1866 752 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.1561 1000 1866 753 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.1551 1082 1866 754 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.758 895 1866 755 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.7096 903 1866 756 | B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3142 643 1866 757 | B_mycoides_AFS098983_GCF_002550135.fna B_mycoides_AFS098983_GCF_002550135.fna 100 1864 1870 758 | B_mycoides_AFS098983_GCF_002550135.fna B_nitratireducens_4049_TYPE_STRAIN.fna 98.4186 1640 1870 759 | B_mycoides_AFS098983_GCF_002550135.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 94.6481 1614 1870 760 | B_mycoides_AFS098983_GCF_002550135.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 93.7429 1565 1870 761 | B_mycoides_AFS098983_GCF_002550135.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 93.6884 1570 1870 762 | B_mycoides_AFS098983_GCF_002550135.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 91.1508 1463 1870 763 | B_mycoides_AFS098983_GCF_002550135.fna B_paramycoides_AFS046754_GCF_002576795.fna 91.0388 1442 1870 764 | B_mycoides_AFS098983_GCF_002550135.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.0051 1460 1870 765 | B_mycoides_AFS098983_GCF_002550135.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.8215 1423 1870 766 | B_mycoides_AFS098983_GCF_002550135.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.811 1424 1870 767 | B_mycoides_AFS098983_GCF_002550135.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.2624 1370 1870 768 | B_mycoides_AFS098983_GCF_002550135.fna B_tropicus_N24_TYPE_STRAIN.fna 90.2571 1454 1870 769 | B_mycoides_AFS098983_GCF_002550135.fna B_albus_N35-10-2_TYPE_STRAIN.fna 90.2047 1470 1870 770 | B_mycoides_AFS098983_GCF_002550135.fna B_luti_TD41_TYPE_STRAIN.fna 90.1361 1398 1870 771 | B_mycoides_AFS098983_GCF_002550135.fna B_pacificus_EB422_TYPE_STRAIN.fna 90.1048 1434 1870 772 | B_mycoides_AFS098983_GCF_002550135.fna B_mosaicus_PR02_GCF_001683155.fna 90.0175 1442 1870 773 | B_mycoides_AFS098983_GCF_002550135.fna B_anthracis_Ames_TYPE_STRAIN.fna 90.0029 1432 1870 774 | B_mycoides_AFS098983_GCF_002550135.fna B_cereus_AFS065770_GCF_002568015.fna 89.9966 1465 1870 775 | B_mycoides_AFS098983_GCF_002550135.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 89.9716 1434 1870 776 | B_mycoides_AFS098983_GCF_002550135.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 89.955 1456 1870 777 | B_mycoides_AFS098983_GCF_002550135.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 89.9507 1504 1870 778 | B_mycoides_AFS098983_GCF_002550135.fna B_luti_AFS005615_GCF_002559215.fna 89.8648 1359 1870 779 | B_mycoides_AFS098983_GCF_002550135.fna B_paranthracis_MN5_TYPE_STRAIN.fna 89.8549 1424 1870 780 | B_mycoides_AFS098983_GCF_002550135.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.1996 1073 1870 781 | B_mycoides_AFS098983_GCF_002550135.fna B_clarus_BHP_GCF_000746925.fna 86.8264 1402 1870 782 | B_mycoides_AFS098983_GCF_002550135.fna B_UnknownSpecies18_GCF_002552625.fna 84.0899 1013 1870 783 | B_mycoides_AFS098983_GCF_002550135.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.7591 1141 1870 784 | B_mycoides_AFS098983_GCF_002550135.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.723 1221 1870 785 | B_mycoides_AFS098983_GCF_002550135.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.7102 1126 1870 786 | B_mycoides_AFS098983_GCF_002550135.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.6049 1064 1870 787 | B_mycoides_AFS098983_GCF_002550135.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.6028 1145 1870 788 | B_mycoides_AFS098983_GCF_002550135.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.4903 1148 1870 789 | B_mycoides_AFS098983_GCF_002550135.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.4674 1080 1870 790 | B_mycoides_AFS098983_GCF_002550135.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4952 870 1870 791 | B_mycoides_AFS098983_GCF_002550135.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4854 886 1870 792 | B_mycoides_AFS098983_GCF_002550135.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3141 669 1870 793 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 99.9999 1853 1853 794 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 97.378 1587 1853 795 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 93.8531 1566 1853 796 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 93.7225 1546 1853 797 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 92.9876 1554 1853 798 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 91.5785 1407 1853 799 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 91.4945 1425 1853 800 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.6839 1417 1853 801 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 90.5132 1478 1853 802 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.0336 1416 1853 803 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 89.9448 1372 1853 804 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 89.8507 1390 1853 805 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 89.6456 1466 1853 806 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 89.6104 1351 1853 807 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 89.5501 1439 1853 808 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 89.4937 1464 1853 809 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 89.4826 1467 1853 810 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 89.4561 1431 1853 811 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 89.4559 1413 1853 812 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 89.4425 1430 1853 813 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 89.397 1429 1853 814 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 89.379 1425 1853 815 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 89.3749 1511 1853 816 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 88.9404 1086 1853 817 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 87.081 1395 1853 818 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 84.0176 1022 1853 819 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.8092 1116 1853 820 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.7175 1200 1853 821 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.661 1147 1853 822 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.6531 1085 1853 823 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.6115 1161 1853 824 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.5417 1168 1853 825 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.5402 1103 1853 826 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.5062 902 1853 827 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4539 876 1853 828 | B_mycoides_DSM_2048_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 79.962 686 1853 829 | B_nitratireducens_4049_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 100 1786 1790 830 | B_nitratireducens_4049_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 98.4765 1625 1790 831 | B_nitratireducens_4049_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 94.9074 1596 1790 832 | B_nitratireducens_4049_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 93.8278 1563 1790 833 | B_nitratireducens_4049_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 93.8233 1546 1790 834 | B_nitratireducens_4049_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 91.1822 1419 1790 835 | B_nitratireducens_4049_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 91.1399 1418 1790 836 | B_nitratireducens_4049_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.0164 1458 1790 837 | B_nitratireducens_4049_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.8798 1427 1790 838 | B_nitratireducens_4049_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.8517 1410 1790 839 | B_nitratireducens_4049_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.2938 1358 1790 840 | B_nitratireducens_4049_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 90.2868 1457 1790 841 | B_nitratireducens_4049_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 90.226 1440 1790 842 | B_nitratireducens_4049_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 90.208 1414 1790 843 | B_nitratireducens_4049_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 90.118 1429 1790 844 | B_nitratireducens_4049_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 90.093 1417 1790 845 | B_nitratireducens_4049_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 90.0865 1441 1790 846 | B_nitratireducens_4049_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 90.0709 1421 1790 847 | B_nitratireducens_4049_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.0023 1362 1790 848 | B_nitratireducens_4049_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 89.9459 1424 1790 849 | B_nitratireducens_4049_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 89.9261 1486 1790 850 | B_nitratireducens_4049_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 89.876 1439 1790 851 | B_nitratireducens_4049_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 89.8088 1441 1790 852 | B_nitratireducens_4049_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.1664 1062 1790 853 | B_nitratireducens_4049_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.7808 1373 1790 854 | B_nitratireducens_4049_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 84.0085 1020 1790 855 | B_nitratireducens_4049_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.7206 1082 1790 856 | B_nitratireducens_4049_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.7179 1098 1790 857 | B_nitratireducens_4049_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.6631 1111 1790 858 | B_nitratireducens_4049_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.638 1136 1790 859 | B_nitratireducens_4049_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.6324 1179 1790 860 | B_nitratireducens_4049_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.5027 1152 1790 861 | B_nitratireducens_4049_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.4048 1081 1790 862 | B_nitratireducens_4049_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.5325 890 1790 863 | B_nitratireducens_4049_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.5091 878 1790 864 | B_nitratireducens_4049_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.2316 685 1790 865 | B_pacificus_EB422_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 100 1757 1763 866 | B_pacificus_EB422_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 96.0675 1545 1763 867 | B_pacificus_EB422_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 95.9453 1468 1763 868 | B_pacificus_EB422_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 94.9501 1470 1763 869 | B_pacificus_EB422_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 94.2332 1471 1763 870 | B_pacificus_EB422_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 94.1805 1466 1763 871 | B_pacificus_EB422_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.3875 1432 1763 872 | B_pacificus_EB422_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.3434 1441 1763 873 | B_pacificus_EB422_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 93.3223 1497 1763 874 | B_pacificus_EB422_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.6128 1427 1763 875 | B_pacificus_EB422_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.5877 1440 1763 876 | B_pacificus_EB422_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.4344 1385 1763 877 | B_pacificus_EB422_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.2887 1509 1763 878 | B_pacificus_EB422_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.7876 1380 1763 879 | B_pacificus_EB422_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.647 1317 1763 880 | B_pacificus_EB422_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.1476 1409 1763 881 | B_pacificus_EB422_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.1443 1430 1763 882 | B_pacificus_EB422_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.0365 1320 1763 883 | B_pacificus_EB422_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.725 1438 1763 884 | B_pacificus_EB422_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.5812 1068 1763 885 | B_pacificus_EB422_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.5201 1412 1763 886 | B_pacificus_EB422_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.4077 1410 1763 887 | B_pacificus_EB422_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.7842 1349 1763 888 | B_pacificus_EB422_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.7703 1357 1763 889 | B_pacificus_EB422_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 85.9853 1276 1763 890 | B_pacificus_EB422_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.6405 998 1763 891 | B_pacificus_EB422_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5242 989 1763 892 | B_pacificus_EB422_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.3383 1052 1763 893 | B_pacificus_EB422_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.3321 1020 1763 894 | B_pacificus_EB422_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.2902 1057 1763 895 | B_pacificus_EB422_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.2303 989 1763 896 | B_pacificus_EB422_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2186 1020 1763 897 | B_pacificus_EB422_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.1864 1072 1763 898 | B_pacificus_EB422_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4656 873 1763 899 | B_pacificus_EB422_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4639 859 1763 900 | B_pacificus_EB422_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3245 640 1763 901 | B_paramycoides_AFS046754_GCF_002576795.fna B_paramycoides_AFS046754_GCF_002576795.fna 100 1711 1717 902 | B_paramycoides_AFS046754_GCF_002576795.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 97.9111 1512 1717 903 | B_paramycoides_AFS046754_GCF_002576795.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 91.6089 1423 1717 904 | B_paramycoides_AFS046754_GCF_002576795.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 91.4957 1417 1717 905 | B_paramycoides_AFS046754_GCF_002576795.fna B_mycoides_AFS098983_GCF_002550135.fna 91.2342 1429 1717 906 | B_paramycoides_AFS046754_GCF_002576795.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 91.226 1430 1717 907 | B_paramycoides_AFS046754_GCF_002576795.fna B_nitratireducens_4049_TYPE_STRAIN.fna 91.1934 1405 1717 908 | B_paramycoides_AFS046754_GCF_002576795.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 89.9518 1303 1717 909 | B_paramycoides_AFS046754_GCF_002576795.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 89.7442 1319 1717 910 | B_paramycoides_AFS046754_GCF_002576795.fna B_luti_AFS005615_GCF_002559215.fna 89.2402 1326 1717 911 | B_paramycoides_AFS046754_GCF_002576795.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 89.2352 1390 1717 912 | B_paramycoides_AFS046754_GCF_002576795.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.1647 1060 1717 913 | B_paramycoides_AFS046754_GCF_002576795.fna B_luti_TD41_TYPE_STRAIN.fna 89.0022 1323 1717 914 | B_paramycoides_AFS046754_GCF_002576795.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 88.9883 1359 1717 915 | B_paramycoides_AFS046754_GCF_002576795.fna B_cereus_AFS065770_GCF_002568015.fna 88.9817 1361 1717 916 | B_paramycoides_AFS046754_GCF_002576795.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 88.9622 1375 1717 917 | B_paramycoides_AFS046754_GCF_002576795.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 88.9355 1364 1717 918 | B_paramycoides_AFS046754_GCF_002576795.fna B_tropicus_N24_TYPE_STRAIN.fna 88.9009 1353 1717 919 | B_paramycoides_AFS046754_GCF_002576795.fna B_pacificus_EB422_TYPE_STRAIN.fna 88.8232 1339 1717 920 | B_paramycoides_AFS046754_GCF_002576795.fna B_albus_N35-10-2_TYPE_STRAIN.fna 88.7807 1340 1717 921 | B_paramycoides_AFS046754_GCF_002576795.fna B_anthracis_Ames_TYPE_STRAIN.fna 88.7771 1339 1717 922 | B_paramycoides_AFS046754_GCF_002576795.fna B_mosaicus_PR02_GCF_001683155.fna 88.7467 1346 1717 923 | B_paramycoides_AFS046754_GCF_002576795.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 88.7252 1336 1717 924 | B_paramycoides_AFS046754_GCF_002576795.fna B_paranthracis_MN5_TYPE_STRAIN.fna 88.7053 1331 1717 925 | B_paramycoides_AFS046754_GCF_002576795.fna B_clarus_BHP_GCF_000746925.fna 87.3992 1357 1717 926 | B_paramycoides_AFS046754_GCF_002576795.fna B_UnknownSpecies18_GCF_002552625.fna 84.313 1059 1717 927 | B_paramycoides_AFS046754_GCF_002576795.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.9561 1083 1717 928 | B_paramycoides_AFS046754_GCF_002576795.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.9543 1099 1717 929 | B_paramycoides_AFS046754_GCF_002576795.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.9464 1150 1717 930 | B_paramycoides_AFS046754_GCF_002576795.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.9423 1128 1717 931 | B_paramycoides_AFS046754_GCF_002576795.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.9286 1099 1717 932 | B_paramycoides_AFS046754_GCF_002576795.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.8756 1133 1717 933 | B_paramycoides_AFS046754_GCF_002576795.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.8499 1069 1717 934 | B_paramycoides_AFS046754_GCF_002576795.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.7253 901 1717 935 | B_paramycoides_AFS046754_GCF_002576795.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.644 886 1717 936 | B_paramycoides_AFS046754_GCF_002576795.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.2882 665 1717 937 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 100 1756 1760 938 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 97.8598 1508 1760 939 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 91.6441 1413 1760 940 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 91.578 1449 1760 941 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 91.2561 1457 1760 942 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 91.2034 1473 1760 943 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 91.1318 1435 1760 944 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 89.8802 1327 1760 945 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 89.8543 1333 1760 946 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 89.2455 1341 1760 947 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 89.2394 1375 1760 948 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 89.0809 1335 1760 949 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 89.0579 1337 1760 950 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.0566 1072 1760 951 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 88.9906 1388 1760 952 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 88.9612 1367 1760 953 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 88.8693 1402 1760 954 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 88.8546 1352 1760 955 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 88.8402 1364 1760 956 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 88.8257 1361 1760 957 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 88.8209 1422 1760 958 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 88.7963 1368 1760 959 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 88.7302 1355 1760 960 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 88.6419 1352 1760 961 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 87.5095 1367 1760 962 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 84.5081 1064 1760 963 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 84.0472 1131 1760 964 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 84.0129 1095 1760 965 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.9799 1081 1760 966 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.8887 1133 1760 967 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.8753 1153 1760 968 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.8464 1207 1760 969 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.7143 1099 1760 970 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.7416 872 1760 971 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.6286 871 1760 972 | B_paramycoides_NH24A2_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.2314 661 1760 973 | B_paranthracis_MN5_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 100 1797 1798 974 | B_paranthracis_MN5_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 97.4121 1538 1798 975 | B_paranthracis_MN5_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 95.8823 1474 1798 976 | B_paranthracis_MN5_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 95.3624 1476 1798 977 | B_paranthracis_MN5_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 95.3207 1508 1798 978 | B_paranthracis_MN5_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 95.2975 1512 1798 979 | B_paranthracis_MN5_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.4126 1473 1798 980 | B_paranthracis_MN5_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.0974 1466 1798 981 | B_paranthracis_MN5_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 92.9858 1468 1798 982 | B_paranthracis_MN5_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.89 1474 1798 983 | B_paranthracis_MN5_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.8107 1453 1798 984 | B_paranthracis_MN5_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.5373 1487 1798 985 | B_paranthracis_MN5_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.4977 1407 1798 986 | B_paranthracis_MN5_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.9311 1371 1798 987 | B_paranthracis_MN5_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.7192 1347 1798 988 | B_paranthracis_MN5_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.0687 1328 1798 989 | B_paranthracis_MN5_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.0436 1400 1798 990 | B_paranthracis_MN5_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 89.9452 1423 1798 991 | B_paranthracis_MN5_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.7762 1407 1798 992 | B_paranthracis_MN5_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.5314 1063 1798 993 | B_paranthracis_MN5_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.4772 1417 1798 994 | B_paranthracis_MN5_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.4538 1425 1798 995 | B_paranthracis_MN5_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.7089 1364 1798 996 | B_paranthracis_MN5_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.6263 1345 1798 997 | B_paranthracis_MN5_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 85.949 1272 1798 998 | B_paranthracis_MN5_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.6974 985 1798 999 | B_paranthracis_MN5_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5167 1007 1798 1000 | B_paranthracis_MN5_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.2935 1037 1798 1001 | B_paranthracis_MN5_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.2095 1070 1798 1002 | B_paranthracis_MN5_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.1894 1059 1798 1003 | B_paranthracis_MN5_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.1806 1069 1798 1004 | B_paranthracis_MN5_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.1308 1027 1798 1005 | B_paranthracis_MN5_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 82.9127 1012 1798 1006 | B_paranthracis_MN5_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.5554 866 1798 1007 | B_paranthracis_MN5_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.484 875 1798 1008 | B_paranthracis_MN5_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.1485 644 1798 1009 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 100 1889 1891 1010 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 94.8254 1600 1891 1011 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 94.678 1612 1891 1012 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 92.9382 1571 1891 1013 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 92.8512 1548 1891 1014 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 91.0948 1439 1891 1015 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 91.0691 1476 1891 1016 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.8941 1405 1891 1017 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.664 1384 1891 1018 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 90.4254 1407 1891 1019 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 90.4107 1463 1891 1020 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.1511 1385 1891 1021 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.1409 1426 1891 1022 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 90.0673 1436 1891 1023 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 89.888 1436 1891 1024 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 89.8759 1445 1891 1025 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 89.8668 1439 1891 1026 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 89.8422 1427 1891 1027 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 89.8368 1467 1891 1028 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 89.7833 1429 1891 1029 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 89.7271 1460 1891 1030 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 89.674 1416 1891 1031 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 89.6446 1444 1891 1032 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.1199 1062 1891 1033 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.8085 1384 1891 1034 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.9474 1059 1891 1035 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.8642 1078 1891 1036 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.701 1151 1891 1037 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.6908 1226 1891 1038 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.6101 1184 1891 1039 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.4729 1127 1891 1040 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.4175 1183 1891 1041 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.3809 1168 1891 1042 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4667 875 1891 1043 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.3826 893 1891 1044 | B_proteolyticus_TD42_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.198 679 1891 1045 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 100 1673 1684 1046 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 98.3559 1559 1684 1047 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 91.4564 1372 1684 1048 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 90.52 1300 1684 1049 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 90.2389 1317 1684 1050 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 88.7367 1230 1684 1051 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_UnknownSpecies18_GCF_002552625.fna 87.5334 1135 1684 1052 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 87.2087 1248 1684 1053 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_clarus_BHP_GCF_000746925.fna 84.8864 1211 1684 1054 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 84.0934 1110 1684 1055 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.9102 1089 1684 1056 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.8925 1092 1684 1057 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.7926 877 1684 1058 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.7281 1020 1684 1059 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.7187 1114 1684 1060 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.7053 1114 1684 1061 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_luti_AFS005615_GCF_002559215.fna 83.6245 1020 1684 1062 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_mycoides_AFS098983_GCF_002550135.fna 83.5916 1135 1684 1063 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.5796 1101 1684 1064 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.533 1049 1684 1065 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_luti_TD41_TYPE_STRAIN.fna 83.424 1024 1684 1066 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_mosaicus_PR02_GCF_001683155.fna 83.4174 1021 1684 1067 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_cereus_AFS065770_GCF_002568015.fna 83.4131 1031 1684 1068 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.3783 1026 1684 1069 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.3495 1041 1684 1070 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.3492 1053 1684 1071 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_tropicus_N24_TYPE_STRAIN.fna 83.3355 1023 1684 1072 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.3232 890 1684 1073 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.3137 1025 1684 1074 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.2759 1011 1684 1075 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.2642 1019 1684 1076 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.2573 1050 1684 1077 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.2522 1058 1684 1078 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.2522 1017 1684 1079 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.1736 916 1684 1080 | B_pseudomycoides_AFS032210_GCF_002588885.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.6197 683 1684 1081 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 99.9999 1927 1927 1082 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 98.2918 1555 1927 1083 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 91.2626 1471 1927 1084 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 90.1546 1398 1927 1085 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 90.1154 1385 1927 1086 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 88.5835 1283 1927 1087 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 87.2882 1186 1927 1088 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 86.9514 1353 1927 1089 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 84.8356 1294 1927 1090 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 83.9428 1171 1927 1091 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 83.7929 1172 1927 1092 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 83.724 1211 1927 1093 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 83.7065 1166 1927 1094 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 83.687 1208 1927 1095 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 83.6098 1081 1927 1096 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 83.5901 1244 1927 1097 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 83.5807 922 1927 1098 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 83.4475 1168 1927 1099 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 83.4373 1094 1927 1100 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 83.3812 1086 1927 1101 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 83.311 1075 1927 1102 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 83.263 1120 1927 1103 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 83.2535 1083 1927 1104 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 83.2149 1061 1927 1105 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 83.1956 1141 1927 1106 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 83.1814 921 1927 1107 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 83.181 1096 1927 1108 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 83.1502 1118 1927 1109 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 83.1447 1089 1927 1110 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 83.129 1109 1927 1111 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 83.1112 1075 1927 1112 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 83.0972 1058 1927 1113 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 83.0935 1068 1927 1114 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 83.0615 1135 1927 1115 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 83.0565 967 1927 1116 | B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.421 713 1927 1117 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 100 2086 2086 1118 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 96.6666 1618 2086 1119 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 96.2545 1579 2086 1120 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 91.9 1504 2086 1121 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.7361 1459 2086 1122 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 91.5271 1486 2086 1123 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 91.4812 1525 2086 1124 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 91.4739 1520 2086 1125 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.4019 1519 2086 1126 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 91.3593 1544 2086 1127 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 91.2448 1495 2086 1128 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.1773 1415 2086 1129 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 91.0648 1509 2086 1130 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 91.0605 1569 2086 1131 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.4679 1354 2086 1132 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.229 1370 2086 1133 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 89.8722 1493 2086 1134 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 89.8133 1491 2086 1135 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 89.804 1497 2086 1136 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.7204 1121 2086 1137 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.411 1535 2086 1138 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.3092 1531 2086 1139 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.969 1379 2086 1140 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.6977 1424 2086 1141 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 85.8923 1357 2086 1142 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.625 1009 2086 1143 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5592 1032 2086 1144 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.4813 1119 2086 1145 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.2863 1062 2086 1146 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2234 1136 2086 1147 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.2096 1096 2086 1148 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.1845 1062 2086 1149 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.0562 1143 2086 1150 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4825 890 2086 1151 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.3386 914 2086 1152 | B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.1905 655 2086 1153 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 100 1668 1673 1154 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.7938 1467 1673 1155 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.7049 1456 1673 1156 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.6851 1429 1673 1157 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 91.4639 1432 1673 1158 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.2904 1379 1673 1159 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 91.1586 1309 1673 1160 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 91.1549 1381 1673 1161 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 91.1515 1401 1673 1162 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 91.1162 1418 1673 1163 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 91.0496 1371 1673 1164 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 91.0392 1399 1673 1165 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.997 1380 1673 1166 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 90.9931 1404 1673 1167 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 90.9687 1372 1673 1168 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.9208 1314 1673 1169 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 90.8811 1359 1673 1170 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.8779 1411 1673 1171 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.8717 1394 1673 1172 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 90.641 1431 1673 1173 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 90.6263 1416 1673 1174 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 90.5351 1038 1673 1175 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 89.8005 1332 1673 1176 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.7402 1328 1673 1177 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.63 1317 1673 1178 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 84.0526 966 1673 1179 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.5495 1029 1673 1180 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.5211 1060 1673 1181 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.4962 1040 1673 1182 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.4623 1008 1673 1183 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.4563 1095 1673 1184 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.4053 1062 1673 1185 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.3374 1090 1673 1186 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.558 904 1673 1187 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.5409 905 1673 1188 | B_toyonensis_BCT_7112_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.4515 653 1673 1189 | B_tropicus_N24_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 100 1706 1706 1190 | B_tropicus_N24_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 95.6055 1487 1706 1191 | B_tropicus_N24_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 95.3658 1479 1706 1192 | B_tropicus_N24_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 94.9508 1478 1706 1193 | B_tropicus_N24_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 94.7775 1511 1706 1194 | B_tropicus_N24_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 94.7569 1512 1706 1195 | B_tropicus_N24_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.4432 1472 1706 1196 | B_tropicus_N24_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 93.3946 1489 1706 1197 | B_tropicus_N24_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 93.1897 1486 1706 1198 | B_tropicus_N24_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 92.1093 1471 1706 1199 | B_tropicus_N24_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.9719 1479 1706 1200 | B_tropicus_N24_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.9348 1509 1706 1201 | B_tropicus_N24_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.8054 1420 1706 1202 | B_tropicus_N24_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.2213 1406 1706 1203 | B_tropicus_N24_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 90.8025 1339 1706 1204 | B_tropicus_N24_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 90.2799 1441 1706 1205 | B_tropicus_N24_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 90.2377 1451 1706 1206 | B_tropicus_N24_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.1842 1340 1706 1207 | B_tropicus_N24_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.0927 1441 1706 1208 | B_tropicus_N24_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 89.6803 1456 1706 1209 | B_tropicus_N24_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.6392 1070 1706 1210 | B_tropicus_N24_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 89.615 1423 1706 1211 | B_tropicus_N24_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 88.9416 1355 1706 1212 | B_tropicus_N24_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 88.8966 1376 1706 1213 | B_tropicus_N24_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 85.9592 1282 1706 1214 | B_tropicus_N24_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.785 971 1706 1215 | B_tropicus_N24_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.4715 1014 1706 1216 | B_tropicus_N24_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.4397 1002 1706 1217 | B_tropicus_N24_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.4215 1067 1706 1218 | B_tropicus_N24_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.3641 1024 1706 1219 | B_tropicus_N24_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.3027 988 1706 1220 | B_tropicus_N24_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.2967 1084 1706 1221 | B_tropicus_N24_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.1786 1068 1706 1222 | B_tropicus_N24_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.4074 872 1706 1223 | B_tropicus_N24_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4038 878 1706 1224 | B_tropicus_N24_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3111 627 1706 1225 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 100 1869 1869 1226 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 97.407 1580 1869 1227 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 93.7811 1548 1869 1228 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 93.7104 1562 1869 1229 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 92.825 1538 1869 1230 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 91.6335 1426 1869 1231 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 91.5576 1450 1869 1232 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 90.6221 1433 1869 1233 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 90.5358 1497 1869 1234 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 90.1994 1437 1869 1235 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.0815 1387 1869 1236 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 89.8213 1406 1869 1237 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 89.66 1452 1869 1238 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 89.6106 1501 1869 1239 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 89.58 1372 1869 1240 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 89.5585 1413 1869 1241 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 89.5451 1460 1869 1242 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 89.5113 1465 1869 1243 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 89.4968 1463 1869 1244 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 89.4542 1408 1869 1245 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 89.4354 1473 1869 1246 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 89.4135 1536 1869 1247 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 89.3604 1453 1869 1248 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 88.9342 1086 1869 1249 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.8791 1380 1869 1250 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 84.0656 1043 1869 1251 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.8099 1111 1869 1252 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.7492 1161 1869 1253 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.7308 1150 1869 1254 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.6198 1077 1869 1255 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.5582 1155 1869 1256 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.5181 1141 1869 1257 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.3867 1100 1869 1258 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.6188 889 1869 1259 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.4997 910 1869 1260 | B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.3687 650 1869 1261 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna 100 1742 1743 1262 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_mobilis_0711P9-1_TYPE_STRAIN.fna 94.6404 1480 1743 1263 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_albus_N35-10-2_TYPE_STRAIN.fna 93.9115 1516 1743 1264 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_tropicus_N24_TYPE_STRAIN.fna 93.437 1478 1743 1265 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_pacificus_EB422_TYPE_STRAIN.fna 93.1763 1447 1743 1266 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_paranthracis_MN5_TYPE_STRAIN.fna 93.0956 1459 1743 1267 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_anthracis_Ames_TYPE_STRAIN.fna 93.0557 1492 1743 1268 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_mosaicus_PR02_GCF_001683155.fna 93.0519 1486 1743 1269 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_mosaicus_subsp_cereus_AH187_GCF_000021225.fna 93.0496 1475 1743 1270 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_luti_TD41_TYPE_STRAIN.fna 91.658 1448 1743 1271 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_cereus_AFS065770_GCF_002568015.fna 91.5692 1479 1743 1272 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_cereus_ATCC_14579_TYPE_STRAIN.fna 91.4437 1476 1743 1273 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_thuringiensis_serovar_berliner_ATCC_10792_TYPE_STRAIN.fna 91.4231 1509 1743 1274 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_toyonensis_BCT_7112_TYPE_STRAIN.fna 91.3798 1446 1743 1275 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_mycoides_AFS098983_GCF_002550135.fna 91.1256 1440 1743 1276 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_nitratireducens_4049_TYPE_STRAIN.fna 91.1212 1442 1743 1277 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_luti_AFS005615_GCF_002559215.fna 91.0515 1380 1743 1278 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_UnknownSpecies14_AFS092566_GCF_002550855.fna 90.5504 1330 1743 1279 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_mycoides_DSM_2048_TYPE_STRAIN.fna 90.532 1472 1743 1280 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_weihenstephanensis_WSBC_10204_TYPE_STRAIN.fna 90.5133 1492 1743 1281 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_proteolyticus_TD42_TYPE_STRAIN.fna 90.5041 1447 1743 1282 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_UnknownSpecies16_AFS039342_GCF_002578045.fna 89.8756 1060 1743 1283 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_paramycoides_AFS046754_GCF_002576795.fna 89.2063 1390 1743 1284 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_paramycoides_NH24A2_TYPE_STRAIN.fna 89.1973 1372 1743 1285 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_clarus_BHP_GCF_000746925.fna 86.1255 1307 1743 1286 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_UnknownSpecies18_GCF_002552625.fna 83.7831 983 1743 1287 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_UnknownSpecies13_AFS030055_GCF_002583515.fna 83.718 1016 1743 1288 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_pseudomycoides_AFS032210_GCF_002588885.fna 83.5066 1046 1743 1289 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_bingmayongensis_FJAT-13831_TYPE_STRAIN.fna 83.4331 1084 1743 1290 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_gaemokensis_KCTC_13318_TYPE_STRAIN.fna 83.2481 1107 1743 1291 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_UnknownSpecies17_AFS031783_GCF_002584535.fna 83.2282 1013 1743 1292 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_UnknownSpecies15_AFS028441_GCF_002559665.fna 83.1646 1090 1743 1293 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_pseudomycoides_DSM_12442_TYPE_STRAIN.fna 83.157 1119 1743 1294 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_cytotoxicus_CH_39_GCF_002251005.fna 82.392 896 1743 1295 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_cytotoxicus_NVH_391_98_TYPE_STRAIN.fna 82.2914 892 1743 1296 | B_wiedmannii_FSL_W8-0169_TYPE_STRAIN.fna B_manliponensis_JCM_15802_TYPE_STRAIN.fna 80.1559 647 1743 1297 | -------------------------------------------------------------------------------- /data/sup_table_s1_genomes_ani.xlsx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/lmc297/bactaxR/bf4780db0c9dcc7f0718d2ffd75585001d9d1818/data/sup_table_s1_genomes_ani.xlsx -------------------------------------------------------------------------------- /inst/CITATION: -------------------------------------------------------------------------------- 1 | bibentry(bibtype = "Article", 2 | author = "Laura M. Carroll, Martin Wiedmann, and Jasna Kovac", 3 | year = "2020", 4 | title = "Proposal of a Taxonomic Nomenclature for the Bacillus cereus Group Which Reconciles Genomic Definitions of Bacterial Species with Clinical and Industrial Phenotypes", 5 | journal = "mBio", 6 | volume = "11", 7 | pages = "e00034-20", 8 | url = "https://mbio.asm.org/content/11/1/e00034-20") 9 | -------------------------------------------------------------------------------- /man/ANI.dendrogram.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/anitools.R 3 | \name{ANI.dendrogram} 4 | \alias{ANI.dendrogram} 5 | \title{Construct a dendrogram using pairwise ANI values and identity medoid genomes} 6 | \usage{ 7 | ANI.dendrogram( 8 | bactaxRObject, 9 | ANI_threshold = 95, 10 | hclust.method = "average", 11 | label_size = 1e-10, 12 | color_palette = magma(1000, begin = 0.2), 13 | xline = NULL, 14 | xlinecol = "#20A387FF", 15 | xlinetype = "dashed" 16 | ) 17 | } 18 | \arguments{ 19 | \item{bactaxRObject}{A bactaxRObject} 20 | 21 | \item{ANI_threshold}{ANI threshold at which to assign genomes to 22 | clusters and identify medoid genomes. Defaults to 95.} 23 | 24 | \item{hclust.method}{Agglomeration method to pass to hclust. 25 | Defaults to "average".} 26 | 27 | \item{label_size}{Size of dendrogram tip labels. Defaults to an 28 | arbitrarily small number (i.e., 1e-10), so that tip labels are hidden.} 29 | 30 | \item{color_palette}{Color palette to use for dendrogram. Defaults to 31 | magma(1000, begin = 0.2).} 32 | 33 | \item{xline}{Numeric value (or vector of numeric values) at which 34 | to draw vertical line(s) along the dendrogram X-axis 35 | (i.e., ANI values). Defaults to NULL (no vertical lines).} 36 | 37 | \item{xlinecol}{Character (or vector of characters) corresponding to 38 | ggplot2 color(s) for xline. Defaults to "#20A387FF".} 39 | 40 | \item{xlinetype}{Character (or vector of characters) corresponding to 41 | ggplot2 line type(s) for xline. Defaults to "dashed".} 42 | } 43 | \value{ 44 | medoid_genomes A data frame of medoid genomes detected at an ANI threshold (ANI_threshold). 45 | If an ANI threshold of NULL supplied, this will be NULL. 46 | 47 | cluster_assignments A data frame containing all genomes and the genomospecies clusters to which 48 | they are assigned at an ANI threshold (ANI_threshold). 49 | If an ANI threshold of NULL is supplied, this will be NULL. 50 | } 51 | \description{ 52 | This function constructs a dendrogram using pairwise ANI values 53 | calculated between genomes and the dissimilarity metric described 54 | by Carroll, Wiedmann, and Kovac (2019), yielding medoid genomes and 55 | cluster assignments at an ANI coalescence threshold (if supplied by the user). 56 | } 57 | -------------------------------------------------------------------------------- /man/ANI.graph.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/anitools.R 3 | \name{ANI.graph} 4 | \alias{ANI.graph} 5 | \title{Construct an undirected graph using pairwise ANI values} 6 | \usage{ 7 | ANI.graph( 8 | bactaxRObject, 9 | ANI_threshold = 95, 10 | graphopt_charge = 0.02, 11 | graphout_niter = 500, 12 | edge_color = hcl(h = 168, c = 5, l = 58, alpha = 0.1), 13 | metadata = NULL, 14 | color_palette = plasma(n = length(unique(metadata))), 15 | node_size = 3, 16 | show_legend = T, 17 | legend_pos_x = -2, 18 | legend_pos_y = 1, 19 | legend_cex = 0.5, 20 | legend_ncol = 1 21 | ) 22 | } 23 | \arguments{ 24 | \item{bactaxRObject}{A bactaxRObject} 25 | 26 | \item{ANI_threshold}{ANI threshold; an edge will be drawn between two genomes 27 | whose pairwise ANI value is greater than or equal to this threshold. 28 | Defaults to 95.} 29 | 30 | \item{graphopt_charge}{Charge parameter passed to layout_with_graphopt 31 | function in the igraph package. Defaults to 0.02.} 32 | 33 | \item{graphout_niter}{Number of iterations to perform for layout_with_graphopt 34 | funtion in the igraph package. Defaults to 500.} 35 | 36 | \item{edge_color}{Color of edges in graph. Defaults to 37 | gray, specifically hcl(h = 168, c = 5, l = 58, alpha = 0.1).} 38 | 39 | \item{metadata}{Named vector, where names correspond to node names, 40 | and vector elements correspond to metadata to map to nodes (e.g., species 41 | name). Vector names must match node names exactly. Defaults to NULL 42 | (no metadata stupplied).} 43 | 44 | \item{color_palette}{Vector of colors to apply to nodes. 45 | Defaults to one color (using the plasma color scale) per unique 46 | metadata value, i.e., plasma(n = length(unique(metadata))).} 47 | 48 | \item{node_size}{Size of nodes in graph. Defaults to 3.} 49 | 50 | \item{show_legend}{Display legend (True or False). Defaults to True.} 51 | 52 | \item{legend_pos_x}{x coordinate used to position the legend. 53 | Default is -2.} 54 | 55 | \item{legend_pos_y}{y coordinate used to position the legend. 56 | Default is 1.} 57 | 58 | \item{legend_cex}{Character expansion factor relative to current 59 | ```par("cex")``` to pass to R's ```legend``` function. 60 | Defaults to 0.5.} 61 | 62 | \item{legend_ncol}{Number of columns to display in legend. 63 | Defaults to 1.} 64 | } 65 | \value{ 66 | A plot object 67 | } 68 | \description{ 69 | This function constructs an undirected graph using pairwise ANI values 70 | calculated between genomes and the similarity metric described 71 | by Carroll, Wiedmann, and Kovac (2019). 72 | } 73 | -------------------------------------------------------------------------------- /man/ANI.histogram.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/anitools.R 3 | \name{ANI.histogram} 4 | \alias{ANI.histogram} 5 | \title{Construct a histogram using ANI values} 6 | \usage{ 7 | ANI.histogram( 8 | bactaxRObject, 9 | bindwidth = 0.01, 10 | xmin = 79, 11 | xmax = 100, 12 | xline = NULL, 13 | xlinecol = "#20A387FF", 14 | xlinetype = "dashed" 15 | ) 16 | } 17 | \arguments{ 18 | \item{bactaxRObject}{A bactaxRObject} 19 | 20 | \item{xmin}{Minimum value for the X-axis. Defaults to 79 (ANI).} 21 | 22 | \item{xmax}{Maximum value for the X-axis. Defaults to 100 (ANI).} 23 | 24 | \item{xline}{Numeric value (or vector of numeric values) at which 25 | to draw vertical line(s) along the X-axis (i.e., ANI values). 26 | Defaults to NULL (no vertical lines).} 27 | 28 | \item{xlinecol}{Character (or vector of characters) corresponding to 29 | ggplot2 color(s) for xline. Defaults to "#20A387FF".} 30 | 31 | \item{xlinetype}{Character (or vector of characters) corresponding to 32 | ggplot2 line type(s) for xline. Defaults to "dashed".} 33 | 34 | \item{binwidth}{Width of bins in the histogram. Defaults to 0.01 (ANI).} 35 | } 36 | \value{ 37 | A ggplot2 object 38 | } 39 | \description{ 40 | This function constructs a histogram using ANI values 41 | } 42 | -------------------------------------------------------------------------------- /man/load.ANI.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/anitools.R 3 | \name{load.ANI} 4 | \alias{load.ANI} 5 | \title{Load dataframe or matrix, and store it as a bactaxRObject object} 6 | \usage{ 7 | load.ANI(x) 8 | } 9 | \arguments{ 10 | \item{x}{Matrix or data frame, where Columns 1, 2, and 3 contain the query genome, 11 | reference genome, and associated ANI values, respectively (remaining columns will be ignored).} 12 | } 13 | \value{ 14 | A bactaxRObject 15 | } 16 | \description{ 17 | This function takes a matrix or data frame already stored in memory, 18 | and converts it to a bactaxR object. The matrix or data frame should contain at 19 | least 3 columns, where Column 1 contains a query genome, Column 2 contains a 20 | reference genome, and Column 3 contains ANI values (ranging from 0 to 100) 21 | This matrix or data frame must contain pairwise comparisons for all query and reference genomes 22 | (i.e., all-vs-all comparisons). 23 | } 24 | -------------------------------------------------------------------------------- /man/phylo.discrete_trait_OTU.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/treetools.R 3 | \name{phylo.discrete_trait_OTU} 4 | \alias{phylo.discrete_trait_OTU} 5 | \title{Highlight taxa in a phylogeny using a discrete variable} 6 | \usage{ 7 | phylo.discrete_trait_OTU( 8 | phylo, 9 | trait_list = NULL, 10 | color_palette = viridis(n = length(trait_list)), 11 | phylo_layout = "circular", 12 | ladderize = F, 13 | ladderize_right = F, 14 | tip_label_size = 2, 15 | show_legend = T, 16 | legend_position = "left" 17 | ) 18 | } 19 | \arguments{ 20 | \item{phylo}{A phylo object} 21 | 22 | \item{trait_list}{Named list, where names corresponds to traits and 23 | vectors under each name correspond to taxa associated with that trait. 24 | Defaults to NULL (no list is supplied).} 25 | 26 | \item{color_palette}{Vector of trait color(s). Defaults to 27 | one color per trait using the viridis color scale, i.e., 28 | viridis(n = length(trait_list)).} 29 | 30 | \item{phylo_layout}{Any ggtree phylogeny layout. 31 | Defaults to "circular".} 32 | 33 | \item{ladderize}{Re-order tree to have a "ladder" 34 | aspect (True or False). Defaults to False.} 35 | 36 | \item{ladderize_right}{If ladderize = TRUE, show the 37 | smallest clade on the right-hand side (True or False). 38 | Defaults to False.} 39 | 40 | \item{tip_label_size}{Size of tip labels. Defaults to 2.} 41 | 42 | \item{show_legend}{Display legend (True or False). Defaults to True.} 43 | 44 | \item{legend_position}{Position of legend. Defaults to "left".} 45 | } 46 | \value{ 47 | A ggplot2 object 48 | } 49 | \description{ 50 | This function highlights taxa in a phylogeny using the groupOTU 51 | function in tidytree/ggtree. 52 | } 53 | -------------------------------------------------------------------------------- /man/phylo.discrete_trait_heatmap.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/treetools.R 3 | \name{phylo.discrete_trait_heatmap} 4 | \alias{phylo.discrete_trait_heatmap} 5 | \title{Add a discrete trait heatmap to a phylogeny} 6 | \usage{ 7 | phylo.discrete_trait_heatmap( 8 | plot, 9 | phylo, 10 | trait_data_frame, 11 | color_palette = viridis(option = "viridis", n = length(unique(as.vector(apply(X = 12 | trait_data_frame, MARGIN = 2, FUN = function(x) unique(x)))))), 13 | font_size = 2, 14 | font_angle = 90, 15 | font_offset_y = 0, 16 | heatmap_width = 1, 17 | heatmap_offset = 0.5 18 | ) 19 | } 20 | \arguments{ 21 | \item{plot}{A ggplot2/ggtree plot} 22 | 23 | \item{phylo}{phylo object which was used to construct plot.} 24 | 25 | \item{trait_data_frame}{Data frame, where each row corresponds to a 26 | tip in the phylogeny, and each column corresponds to a discrete trait. 27 | Row names should match phylogeny tip labels exactly, and column names 28 | should correspond to the trait name. Cells should contain character 29 | values corresponding to the trait(s) (equivalent values in the 30 | data frame will be assigned the same color, i.e., all cells with "0" 31 | will be the same color, all cells with "cat" will be another color, etc.).} 32 | 33 | \item{color_palette}{Vector of heatmap cell color(s). Defaults to 34 | one color per unique cell value using the viridis color scale.} 35 | 36 | \item{font_size}{Size of trait names. Defaults to 2.} 37 | 38 | \item{font_angle}{Angle of trait names. Defaults to 90.} 39 | 40 | \item{font_offset_y}{Vertical offset of trait names. Defaults to 0.} 41 | 42 | \item{heatmap_width}{Width of heatmap, compared to width of tree. 43 | Defaults to 1.} 44 | 45 | \item{heatmap_offset}{Offset of heatmap to tree. Defaults to 0.5.} 46 | } 47 | \value{ 48 | A ggplot2 object 49 | } 50 | \description{ 51 | This function adds a discrete trait heatmap to a phylogeny 52 | produced by phylo.discrete_trait_OTU (or any ggplot2/ggtree plot). 53 | } 54 | -------------------------------------------------------------------------------- /man/read.ANI.Rd: -------------------------------------------------------------------------------- 1 | % Generated by roxygen2: do not edit by hand 2 | % Please edit documentation in R/anitools.R 3 | \name{read.ANI} 4 | \alias{read.ANI} 5 | \title{Read pairwise output from fastANI} 6 | \usage{ 7 | read.ANI(file) 8 | } 9 | \arguments{ 10 | \item{file}{Path to file containing pairwise ANI comparisons output by fastANI 11 | (or any 3+ column file, described as follows). 12 | The file should not have a header, and should contain 3 or more columns, 13 | each separated by a tab. Columns 1, 2, and 3 should contain the query genome, 14 | reference genome, and the associated ANI value (ranging from 0 to 100), respectively 15 | (remaining columns will be ignored).} 16 | } 17 | \value{ 18 | A bactaxRObject object 19 | } 20 | \description{ 21 | This function reads a file of pairwise ANI values calculated by fastANI 22 | (or a file of pairwise ANI values constructed using other methods; see below). 23 | This file must contain pairwise comparisons for all query and reference genomes 24 | (i.e., all-vs-all comparisons). 25 | } 26 | --------------------------------------------------------------------------------