Mercurial > repos > metaboflow_cam > ionflow
changeset 0:3b461dc9568b draft default tip
Uploaded
author | metaboflow_cam |
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date | Mon, 09 Aug 2021 09:41:22 +0000 |
parents | |
children | |
files | ionflow/ionflow.R ionflow/ionflow.xml ionflow/ionflow_funcs.R ionflow/macros.xml ionflow/test-data/Dataset_IonFlow_Ionome_KO_short.csv |
diffstat | 5 files changed, 4586 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ionflow/ionflow.R Mon Aug 09 09:41:22 2021 +0000 @@ -0,0 +1,384 @@ +#' wl-07-06-2021, Mon: The fourth version: based on Jacopo's new changes in +#' 'ionflow_funcs.R' and new pipeline 'tutorial_galaxy_ionflow.R' +#' wl-08-06-2021, Tue: finalise + +## ==== General settings ==== +rm(list = ls(all = T)) + +#' flag for command-line use or not. If false, only for debug interactively. +com_f <- T + +#' galaxy will stop even if R has warning message +options(warn = -1) #' disable R warning. Turn back: options(warn=0) + +#' ------------------------------------------------------------------------ +#' Setup R error handling to go to stderr +#' options( show.error.messages=F, error = function () { +#' cat( geterrmessage(), file=stderr() ) +#' q( "no", 1, F ) +#' }) + +#' we need that to not crash galaxy with an UTF8 error on German LC settings. +loc <- Sys.setlocale("LC_MESSAGES", "en_US.UTF-8") + +#' wl-28-08-2018, Tue: Convert a string separated by comma into character vector +str_vec <- function(x) { + x <- unlist(strsplit(x, ",")) + x <- gsub("^[ \t]+|[ \t]+$", "", x) #' trim white spaces +} + +pkgs <- c("optparse", "reshape2", "plyr", "dplyr", "tidyr", "ggplot2", + "ggrepel", "corrplot", "gplots", "network", "sna", "GGally", + "org.Sc.sgd.db","org.Hs.eg.db","GO.db", "GOstats", "KEGG.db", + "pheatmap") +suppressPackageStartupMessages(invisible(lapply(pkgs, library, + character.only = TRUE))) + +## ==== Command line or interactive setting ==== +if (com_f) { + + func <- function() { + argv <- commandArgs(trailingOnly = FALSE) + path <- sub("--file=", "", argv[grep("--file=", argv)]) + } + #' prog_name <- basename(func()) + tool_dir <- paste0(dirname(func()), "/") + + option_list <- + list( + make_option(c("-v", "--verbose"), + action = "store_true", default = TRUE, + help = "Print extra output [default]" + ), + make_option(c("-q", "--quietly"), + action = "store_false", + dest = "verbose", help = "Print little output" + ), + + #' Data pre-processing + make_option("--ion_file", type = "character", + help = "ion concentration file in tabular format"), + make_option("--var_id", type = "integer", default = 1, + help = "Column index of variable"), + make_option("--batch_id", type = "integer", default = 3, + help = "Column index of batch ID"), + make_option("--data_id", type = "integer", default = 5, + help = "Start column index of data matrix"), + make_option("--method_norm", type = "character", default = "median", + help = "Batch correction methods. Support: median, + median+std and none"), + make_option("--batch_control", type = "character", default = "yes", + help = "Use control lines for batch correction or not"), + make_option("--control_lines", type = "character", default = "BY4741", + help = "Batch control lines"), + make_option("--control_use", type = "character", default = "all", + help = "Select lines used for batch correction control. + Three selection: control, all and control.out"), + make_option("--method_outliers", type = "character", + default = "log.FC.dist", + help = "Outlier detection method. Currently support: + mad, IQR, log.FC.dist and none."), + make_option("--thres_outl", type = "double", default = 3.0, + help = "Outlier detection threshold"), + make_option("--stand_method", type = "character", default = "std", + help = "Standardisation method. Currently support: + std, mad and custom."), + make_option("--std_file", type = "character", + help = "user predifined std file with respect to ions"), + make_option("--thres_symb", type = "double", default = 2.0, + help = "Symbolisation threshold"), + + #' Exploratory analysis + make_option("--thres_ion_corr", type = "double", default = 0.15, + help = "Threshold for Ion correlation (0 - 1)"), + + #' Clustering analysis + make_option("--min_clust_size", type = "double", default = 10.0, + help = "Minimal cluster size."), + make_option("--h_tree", type = "double", default = 0.0, + help = "Cutting height for hierarchical clustering."), + make_option("--filter_zero_string", type = "logical", default = TRUE, + help = "Filter the zero string or not"), + + #' Enrichment analysis + make_option("--pval", type = "double", default = 0.05, + help = "P-values for enrichment analysis."), + make_option("--min_count", type = "double", default = 3.0, + help = "Minimal count number for enrichment analysis."), + make_option("--ont", type = "character", default = "BP", + help = "Ontology method: BP, MF and CC."), + make_option("--annot_pkg", type = "character", default = "org.Sc.sgd.db", + help = "Annotation package"), + + #' Network analysis + make_option("--method_corr", type = "character", default = "cosine", + help = "Similarity measure method. Currently support: + pearson, spearman, kendall, cosine, mahal_cosine, + hybrid_mahal_cosine"), + make_option("--thres_corr", type = "double", default = 0.70, + help = "Similarity threshold for network analysis (0 - 1). + Features large than threshold will be kept."), + + #' output: pre-processing + make_option("--pre_proc_pdf", + type = "character", default = "pre_proc.pdf", + help = "Save plots from pre-processing" + ), + make_option("--df_stats_out", + type = "character", default = "df_stats.tsv", + help = "Save stats summary of raw, batch corrected and + standardised data" + ), + make_option("--outl_out", + type = "character", default = "outl.tsv", + help = "Save outliers summary" + ), + make_option("--data_wide_out", + type = "character", default = "data_wide.tsv", + help = "Save pre-processed data in wide format" + ), + make_option("--data_wide_symb_out", + type = "character", default = "data_wide_symb.tsv", + help = "Save pre-processed data Symbolization in wide format" + ), + + #' output: exploratory analysis + make_option("--expl_anal_pdf", + type = "character", default = "expl_anal.pdf", + help = "Save plots from exploratory analysis" + ), + + #' output: clustering analysis + make_option("--clus_anal_pdf", + type = "character", default = "clus_anal.pdf", + help = "Save plots from clustering analysis" + ), + + #' output: enrichment analysis + make_option("--go_en_out", + type = "character", default = "go_en.tsv", + help = "Save GO enrichment table" + ), + + #' output: network analysis + make_option("--gene_net_pdf", + type = "character", default = "gene_net.pdf", + help = "Save plots from gene network" + ), + make_option("--imbe_out", + type = "character", default = "impact_betweenness.tsv", + help = "Save impact and betweenness table" + ) + ) + + opt <- parse_args( + object = OptionParser(option_list = option_list), + args = commandArgs(trailingOnly = TRUE) + ) +} else { + #' tool_dir <- "C:/R_lwc/my_galaxy/ionflow/" + tool_dir <- "~/my_galaxy/ionflow/" + + opt <- list( + + #' Input + ion_file = paste0(tool_dir, "test-data/Dataset_IonFlow_Ionome_KO_short.csv"), + var_id = 1, + batch_id = 3, + data_id = 5, + method_norm = "median", + batch_control = "yes", + control_lines = "BY4741", + control_use = "all", + method_outliers = "log.FC.dist", + thres_outl = 3.0, + stand_method = "std", + thres_symb = 2, + + #' Exploratory analysis + thres_ion_corr = 0.15, + + #' Clustering analysis + min_clust_size = 10.0, + h_tree = 0.0, + filter_zero_string = TRUE, + + #' Enrichment analysis + pval = 0.05, + min_count = 3, + ont = "BP", + annot_pkg = "org.Sc.sgd.db", + + #' Network analysis + method_corr = "cosine", + thres_corr = 0.7, + + #' output: pre-processing + pre_proc_pdf = paste0(tool_dir, "test-data/res/pre_proc.pdf"), + df_stats_out = paste0(tool_dir, "test-data/res/df_stats.tsv"), + outl_out = paste0(tool_dir, "test-data/res/outl.tsv"), + data_wide_out = paste0(tool_dir, "test-data/res/data_wide.tsv"), + data_wide_symb_out = paste0(tool_dir, "test-data/res/data_wide_symb.tsv"), + + #' output: exploratory analysis + expl_anal_pdf = paste0(tool_dir, "test-data/res/expl_anal.pdf"), + + #' output: clustering analysis + clus_anal_pdf = paste0(tool_dir, "test-data/res/clus_anal.pdf"), + + #' output: enrichment analysis + go_en_out = paste0(tool_dir, "test-data/res/go_en.tsv"), + + #' output: network analysis + gene_net_pdf = paste0(tool_dir, "test-data/res/gene_net.pdf"), + imbe_out = paste0(tool_dir, "test-data/res/impact_betweenness.tsv") + ) +} +#' print(opt) + +suppressPackageStartupMessages({ + source(paste0(tool_dir, "ionflow_funcs.R")) +}) + +## ==== Data preparation ==== +ion_data <- read.table(opt$ion_file, header = T, sep = ",") + +if (opt$batch_control == "yes") { + control_lines <- opt$control_line +} else { + control_lines <- NULL +} + +if (opt$stand_method == "custom") { #' if (lenth(opt$std_file) > 0) { + stdev <- read.table(opt$std_file, header = T, sep = "\t") +} else { + stdev <- NULL +} + +## ==== Pre-processing ==== +pre <- PreProcessing(data = ion_data, + var_id = opt$var_id, + batch_id = opt$batch_id, + data_id = opt$data_id, + method_norm = opt$method_norm, + control_lines = control_lines, + control_use = opt$control_use, + method_outliers = opt$method_outliers, + thres_outl = opt$thres_outl, + stand_method = opt$stand_method, + stdev = stdev, + thres_symb = opt$thres_symb) + +#' save plot in pdf +pdf(file = opt$pre_proc_pdf, onefile = T) # width = 15, height = 10 +plot(pre$plot.hist) +plot(pre$plot.overview) +plot(pre$plot.medians) +plot(pre$plot.CV) +plot(pre$plot.change.stat) +plot(pre$plot.change.dir) +dev.off() + +#' combine stats +df_stats <- list(raw_data = pre$stats.raw.data, + bat_data = pre$stats.batches) +df_stats <- dplyr::bind_rows(df_stats, .id = "Data_Set") +row.names(df_stats) = NULL + +#' save tables +write.table(df_stats, file = opt$df_stats_out, sep = "\t", row.names = F) +write.table(pre$stats.outliers, file = opt$outl_out, sep = "\t", + row.names = F) +write.table(pre$data.line.zscores, file = opt$data_wide_out, sep = "\t", + row.names = F) +write.table(pre$data.line.symb, file = opt$data_wide_symb_out, + sep = "\t", row.names = F) + +## ==== Exploratory analysis ==== + +pdf(file = opt$expl_anal_pdf, onefile = T) +expl <- IonAnalysis(data = pre$data.line.zscores, + thres_ion_corr = opt$thres_ion_corr) +plot(expl$plot.pca) +plot(expl$plot.net) +dev.off() + +## ==== Clustering analysis ==== + +gcl <- ProfileClustering(pre$data.line.symb, + min_clust_size = opt$min_clust_size, + h_tree = opt$h_tree, + filter_zero_string = opt$filter_zero_string) + +#' select larger clusters +cluster_vector <- + gcl$clusters.vector[gcl$clusters.vector$Cluster %in% + gcl$tab.clusters.subset$Cluster, ] + +#' extract symbolic and z-score prifiles for lines in selected clusters +symbol_profiles <- pre$data.line.symb +symbol_profiles$Cluster <- + cluster_vector$Cluster[match(symbol_profiles$Line, cluster_vector$Line)] + +zscore_profiles <- pre$data.line.zscores +zscore_profiles$Cluster <- + cluster_vector$Cluster[match(zscore_profiles$Line, cluster_vector$Line)] + +#' remove lines showing no phenotype +symbol_profiles <- symbol_profiles[!is.na(symbol_profiles$Cluster),] +zscore_profiles <- zscore_profiles[!is.na(zscore_profiles$Cluster),] + +mat_long <- reshape2::melt(zscore_profiles, id = c("Line", "Cluster"), + variable.name = "Ion", value.name = "zscore") + +mat_long$n.genes <- + gcl$tab.clusters.subset$Number.of.genes[match(mat_long$Cluster, + gcl$tab.clusters.subset$Cluster)] +mat_long$title <- paste0('Cluster ', mat_long$Cluster,' (', + mat_long$n.genes, ' genes)') + +p_gcl <- + ggplot(data = mat_long, aes(x = Ion, y = zscore, group = Line), color = "gray") + + geom_line() + + stat_summary(fun.data = "mean_se", color = "red", geom = "line", group = 1) + + labs(x = "", y = "z-score") + + coord_cartesian(ylim = c(-8, 8)) + + facet_wrap(~title) + + theme(legend.position = "none", + axis.text.x = element_text(angle = 90, hjust = 1), + axis.text = element_text(size = 10)) + +pdf(file = opt$clus_anal_pdf, onefile = T) +plot(p_gcl) +dev.off() + +## ==== Enrichment analysis ==== + +ge <- GOEnricher(cluster_vector, + pval = opt$pval, + min_count = opt$min_count, + annot_pkg = opt$annot_pkg, + ont = opt$ont, + gene_uni = as.character(pre$data.line.zscores$Line)) + +if (nrow(ge$enrichment.summary) > 0) { + write.table(ge$enrichment.summary, file = opt$go_en_out, sep = "\t", + row.names = FALSE) +} + +## ==== Network analysis ==== + +gn <- GeneticNetwork(data = zscore_profiles, + method_corr = opt$method_corr, + thres_corr = opt$thres_corr, + network_modules = "input", + cluster_vector = cluster_vector, + cluster_label_vector = NULL) + +pdf(file = opt$gene_net_pdf, onefile = T) # width = 15, height = 10 +plot(gn$plot.network) +plot(gn$plot.impact_betweenness) +dev.off() + +write.table(gn$stats.impact_betweenness, file = opt$imbe_out, + sep = "\t", row.names = FALSE)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ionflow/ionflow.xml Mon Aug 09 09:41:22 2021 +0000 @@ -0,0 +1,437 @@ +<!-- +wl-10-08-2020, Mon: commence +wl-24-08-2020, Mon: first version +wl-16-11-2020, Mon: second version +wl-23-03-2021, Tue: third version +wl-08-06-2021, Tue: fourth version: new stuff from Jacopo +--> + +<tool id="ionfow" name="IonFlow" version="0.4.0"> + <description> + Pipeline for processing and analysis of ionomics data + </description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <expand macro="stdio" /> + + <!-- =============================================================== --> + <command detect_errors="exit_code"> + <![CDATA[ + + Rscript ${__tool_directory__}/ionflow.R + ## Input + --ion_file '$ion_file' + --var_id '$pre.var_id' + --batch_id '$pre.batch_id' + --data_id '$pre.data_id' + --method_norm '$pre.method_norm' + --batch_control '$pre.batch.batch_control' + #if $pre.batch.batch_control=='yes' + --control_lines '$pre.batch.control_lines' + --control_use '$pre.batch.control_use' + #end if + --method_outliers '$pre.method_outliers' + --thres_outl '$pre.thres_outl' + --stand_method '$pre.stand.stand_method' + #if $pre.stand.stand_method=='custom': + --std_file '$pre.stand.std_file' + #end if + --thres_symb '$pre.thres_symb' + + ## Exploratory analysis + --thres_ion_corr '$expl.thres_ion_corr' + + ## Clustering analysis + --min_clust_size '$clus.min_clust_size' + --h_tree '$clus.h_tree' + --filter_zero_string '$clus.filter_zero_string' + + ## Enrichment analysis + --pval '$enri.pval' + --min_count '$enri.min_count' + --ont '$enri.ont' + --annot_pkg '$enri.annot_pkg' + + ## Network analysis + --method_corr '$net.method_corr' + --thres_corr '$net.thres_corr' + + ## output: pre-processing + --pre_proc_pdf '$pre_proc_pdf' + --df_stats_out '$df_stats_out' + --outl_out '$outl_out' + --data_wide_out '$data_wide_out' + --data_wide_symb_out '$data_wide_symb_out' + + ## output: exploratory analysis + --expl_anal_pdf '$expl_anal_pdf' + + ## output: clustering analysis + --clus_anal_pdf '$clus_anal_pdf' + + ## output: enrichment analysis + --go_en_out '$go_en_out' + + ## output: network analysis + --gene_net_pdf '$gene_net_pdf' + --imbe_out '$imbe_out' + ]]> + </command> + + <!-- =============================================================== --> + <inputs> + <param name="ion_file" type="data" format="csv" + label="Ion data table" + help="Ion data table with columns of Ions and meta information." /> + + <!-- start of pre --> + <section name="pre" title="Pre Processing" > + + <param name="var_id" type="integer" value="1" + label="Specify variable column index of input data" + help="Indicate which column will be the variable (ORF or SYMBOL)." /> + + <param name="batch_id" type="integer" value="3" + label="Specify batch ID column index of input data" + help="Indicate which column will be batch ID." /> + + <param name="data_id" type="integer" value="5" + label="Specify data start column index of input data" + help="Indicate which column will be the start of data matrix." /> + + <param name="method_norm" type="select" + label="Select a method for batch correction"> + <option value="median" selected="true">Median</option> + <option value="median+std">Median plus std</option> + <option value="none">None</option> + </param> + + <!-- batch control --> + <conditional name="batch"> + <param name="batch_control" type="select" + label="Use control lines for batch correction or not" > + <option value="yes" selected="true">Yes</option> + <option value="no">No</option> + </param> + + <when value="yes"> + <param name="control_lines" type="text" value="BY4741" + label="Specify batch control lines (rows)"> + <sanitizer> + <valid initial="string.ascii_letters,string.digits"></valid> + </sanitizer> + </param> + + <param name="control_use" type="select" + label="Select lines for batch correction"> + <option value="control">Use control lines for batch correction</option> + <option value="all" selected="true">Use all lines for batch correction</option> + <option value="control.out">Use all lines except control lines for batch correction</option> + </param> + </when> + + <when value="no"> + </when> + </conditional> + + <param name="method_outliers" type="select" + label="Select a method for outlier detection"> + <option value="IQR">IQR</option> + <option value="mad">MAD</option> + <option value="log.FC.dist" selected="true">log FC dist</option> + <option value="none">none</option> + </param> + + <param name="thres_outl" type="float" value="3.0" + label="Specify outlier detection threshold" /> + + <!-- standardisation method --> + <conditional name="stand"> + <param name="stand_method" type="select" + label="Select a method for standardisation"> + <option value="std" selected="true">STD</option> + <option value="mad">MAD</option> + <option value="custom">Custom</option> + </param> + + <when value="custom"> + <param name="std_file" type="data" format="tabular" + label="STD file" + help="A data matrix with only two columns. The fisrt + column is the names of ion and the second one is std + values. " /> + </when> + </conditional> + + <param name="thres_symb" type="float" value="2.0" + label="Specify symbolisation threshold" /> + + </section> + <!-- end of pre --> + + <section name="expl" title="Exploratory analysis" > + <param name="thres_ion_corr" type="float" value="0.15" + label="Threshold for Ion correlation (0 - 1)" /> + </section> + + <section name="clus" title="Clustering analysis" > + <param name="min_clust_size" type="float" value="10.0" + label="Specify minimal cluster center number" /> + <param name="h_tree" type="float" value="0.0" + label="Cutting height for hierarchical clustering" /> + <param name="filter_zero_string" type="boolean" truevalue="True" + falsevalue="False" checked="True" + label="Filter the zero string?" /> + </section> + + <section name="enri" title="Enrichment analysis" > + <param name="pval" type="float" value="0.05" + label="Specify p-value threshold for enrichment analysiss" /> + <param name="min_count" type="float" value="3.0" + label="Minimal count number for enrichment analysis" /> + <param name="ont" type="select" + label="Select gene ontology for GO Terms"> + <option value="BP" selected="true">BP</option> + <option value="MF">MF</option> + <option value="CC">CC</option> + </param> + <param name="annot_pkg" type="select" + label="Select an annotation package"> + <option value="org.Sc.sgd.db" selected="true">Yeast(org.Sc.sgd.db)</option> + <option value="org.Hs.eg.db">Human(org.Hs.eg.db)</option> + <option value="org.Mm.eg.db">Mouse(org.Mm.eg.db)</option> + </param> + </section> + + <section name="net" title="Network analysis" > + <param name="method_corr" type="select" + label="Select a method for similarity measure"> + <option value="pearson">Pearson</option> + <option value="spearman">Spearman</option> + <option value="kendall">Kendall</option> + <option value="cosine" selected="true">Cosine</option> + <option value="mahal_cosine">Mahalanobis Cosine</option> + <option value="hybrid_mahal_cosine">Hybrid Mahalanobis Cosine</option> + </param> + <param name="thres_corr" type="float" value="0.7" min="0" max="1" + label="Specify similarity threshold (0 - 1)" /> + </section> + + </inputs> + + + <!-- =============================================================== --> + <outputs> + <data format="pdf" name="pre_proc_pdf" + label="Pre-processing plots for Ions on ${on_string}" /> + <data format="tabular" name="df_stats_out" + label="Statistical summary of data set on ${on_string}"/> + <data format="tabular" name="outl_out" + label="Outlier table on ${on_string}"/> + <data format="tabular" name="data_wide_out" + label="Pre-processed data in wide format on ${on_string}"/> + <data format="tabular" name="data_wide_symb_out" + label="Symbolization data in wide format on ${on_string}"/> + <data format="pdf" name="expl_anal_pdf" + label="Explanatation analysis plots for Ions on ${on_string}" /> + <data format="pdf" name="clus_anal_pdf" + label="Explanatation analysis plots for Ions on ${on_string}" /> + <data format="tabular" name="go_en_out" + label="GO enrichment table on ${on_string}"/> + <data format="pdf" name="gene_net_pdf" + label="Gene network plots on ${on_string}" /> + <data format="tabular" name="imbe_out" + label="Impact and betweenness table on ${on_string}"/> + </outputs> + + <!-- =============================================================== --> + <tests> + <test> + <param name="ion_file" value="Dataset_IonFlow_Ionome_KO_short.csv" /> + <param name="var_id" value="1" /> + <param name="batch_id" value="3" /> + <param name="data_id" value="5" /> + <param name="method_norm" value="median" /> + <param name="batch_control" value="yes" /> + <param name="control_lines" value="BY4741" /> + <param name="control_use" value="all" /> + <param name="method_outliers" value="log.FC.dist" /> + <param name="thres_outl" value="3.0" /> + <param name="stand_method" value="std" /> + <param name="thres_symb" value="2" /> + <param name="thres_ion_corr" value="0.15" /> + <param name="min_clust_size" value="10.0" /> + <param name="h_tree" value="0.0" /> + <param name="filter_zero_string" value="TRUE" /> + <param name="pval" value="0.05" /> + <param name="min_count" value="3" /> + <param name="ont" value="BP" /> + <param name="annot_pkg" value="org.Sc.sgd.db" /> + <param name="method_corr" value="cosine" /> + <param name="thres_corr" value="0.7" /> + <output name="pre_proc_pdf" file="res/pre_proc.pdf" compare="sim_size" /> + <output name="df_stats_out" file="res/df_stats.tsv" compare="diff" /> + <output name="outl_out" file="res/outl.tsv" compare="diff" /> + <output name="data_wide_out" file="res/data_wide.tsv" compare="diff" /> + <output name="data_wide_symb_out" file="res/data_wide_symb.tsv" compare="diff" /> + <output name="expl_anal_pdf" file="res/expl_anal.pdf" compare="sim_size" /> + <output name="clus_anal_pdf" file="res/clus_anal.pdf" compare="sim_size" /> + <output name="go_en_out" file="res/go_en.tsv" compare="diff" /> + <output name="gene_net_pdf" file="res/gene_net.pdf" compare="sim_size" /> + <output name="imbe_out" file="res/impact_betweenness.tsv" compare="diff" /> + </test> + </tests> + + <!-- =============================================================== --> +<help> +IonFlow Pipeline +================= + +Description +----------- + +This galaxy tool wraps R package IonFlow_ with modification to process +ionomics data to aid reproducible data sharing and big data initiatives. + +The pipeline includes: + +Pre-Processing + This procedure performs batch correction with or without control lines, + outlier detection and data standardisation. The processed concentration + data and a symbolisation profile data are returned for further analysis. + +Exploratory Analysis + This procedure performs correlation analysis and PCA analysis in terms of + ions. The heatmap with hierarchical clustering and network graph are based + on the correlation analysis. + +Clustering Analysis + This step performs hierarchical clustering based on symbolised profile. + The selected cluster centres (control by the threshold of minimal cluster + centre number) are applied to enrichment and network analysis. + +Enrichment Analysis + This step uses the clustering results for enrichment analysis. Current suports + three annotation packages: + + - Yeast(org.Sc.sgd.db) + - Human(org.Hs.eg.db) + - Mouse(org.Mm.eg.db) + +Network Analysis + This part uses hierarchical clustering of the symbolised profile + for network analysis. Genes with correlation coefficient large than a + threshold are then used. Some network analysis stats such as impact and + betweenness are also returned. + +.. _IonFlow: https://github.com/AlinaPeluso/MetaboFlow + +Inputs +------ + +Ionomics data +~~~~~~~~~~~~~ + +The input file is an ionomics data table in tubular format. The following is +an example with the first two columns of knockout name and batch ID and +other columns are ion data. To use this input data in ``Pre-processing`` , the +user must indicate ``var_id`` as ``1`` (``Knockout``), ``batch_id`` as ``2`` +(``Batch_ID``) and ``data_id`` as ``3``. If the file has the batch control +information in the first column, ``control_lines`` should indicate. For +example, if ``YDL227C`` will be used as batch control, ``control_lines = +"YDL227C"``. + + + +----------+----------+---------+-------+-------+--------+----------+---------+-------+---------+-------+----------+----------+ + | Knockout | Batch_ID | Ca | Cd | Cu | Fe | K | Mg | Mo | Na | Ni | P | S | + +----------+----------+---------+-------+-------+--------+----------+---------+-------+---------+-------+----------+----------+ + | YDL227C | 14 | 59.549 | 0.953 | 2.202 | 10.942 | 3448.070 | 693.992 | 1.603 | 259.816 | 1.573 | 4963.315 | 556.397 | + +----------+--+-------+---------+-------+-------+--------+----------+---------+-------+---------+-------+----------+----------+ + | YDL227C | 14 | 62.258 | 0.927 | 2.067 | 26.262 | 3493.741 | 705.008 | 2.691 | 273.640 | 4.443 | 4874.101 | 553.229 | + +----------+--+-------+---------+-------+-------+--------+----------+---------+-------+---------+-------+----------+----------+ + | YDL227C | 14 | 65.075 | 0.875 | 2.048 | 10.244 | 3317.611 | 691.411 | 1.878 | 278.167 | 1.448 | 4608.300 | 535.609 | + +----------+--+-------+---------+-------+-------+--------+----------+---------+-------+---------+-------+----------+----------+ + | YDL227C | 14 | 56.886 | 0.985 | 2.203 | 9.206 | 3330.854 | 702.734 | 1.396 | 268.609 | 1.640 | 5119.736 | 546.230 | + +----------+----------+---------+-------+-------+--------+----------+---------+-------+---------+-------+----------+----------+ + +| + +Custom STD data +~~~~~~~~~~~~~~~ + +Standard derivation values can be provide by user if standardisation method +``stand_method`` in pre-processing procedure is selected as ``custom``. The +user defined std file has tabular format such as: + + +------+----------+ + | Ion | sd | + +------+----------+ + | Ca | 0.150 | + +------+----------+ + | Fe | 0.163 | + +------+----------+ + | K | 0.094 | + +------+----------+ + | Mg | 0.059 | + +------+----------+ + | Na | 0.107 | + +------+----------+ + | Ni | 0.078 | + +------+----------+ + | Zn | 0.067 | + +------+----------+ + +| + +Outputs +------- + +Pre-processing +~~~~~~~~~~~~~~ + +The output includes: + +- A PDF file for the plots: dot-plot with ion vs batch and distribution + plot of ions. +- A tabular file for statistical summary of data set +- A tabular file for outlier table +- A tabular file for processed data set +- A tabular file for the symbolisation data set + +Exploratory analysis +~~~~~~~~~~~~~~~~~~~~ + +A single PDF file with plots: + +- Correlation map +- Heatmap with dendrogram +- PCA plot +- Correlation network graph + +Clustering analysis +~~~~~~~~~~~~~~~~~~~ + +A single PDF file with clustering plots. + +Enrichment analysis +~~~~~~~~~~~~~~~~~~~ + +A tabular file for GO Terms enrichment table. + +Network analysis +~~~~~~~~~~~~~~~~ + +Two files are returned: + +- A PDF file for plots + - network graph + - impact scatter plot +- A tabular file for impact and betweenness table + + +</help> + <citations> + </citations> +</tool>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ionflow/ionflow_funcs.R Mon Aug 09 09:41:22 2021 +0000 @@ -0,0 +1,898 @@ +#' ======================================================================= +#' +PreProcessing <- function(data = NULL, var_id = 1, batch_id = 3, data_id = 5, + method_norm = c("median", "median+std", "none"), + control_lines = NULL, + control_use = c("control", "all", "control.out"), + method_outliers = c("mad", "IQR", "log.FC.dist", "none"), + thres_outl = 3, + stand_method = c("std", "mad", "custom"), + stdev = NULL, thres_symb = 2) { + + + #' -------------------> Import data + #' ji: get sample id + data$sample_id <- rownames(data) + + data <- data[, c(var_id, ncol(data), batch_id, data_id:(ncol(data) - 1))] + names(data)[1:3] <- c("Line", "Sample_ID", "Batch_ID") + mat <- data[, -c(1:3)] + + #' ji: Remove samples with zeros or negative or missing values + data <- data[!is.na(sum(mat)), ] + data <- data[!(sum(mat <= 0) > 0), ] + + #' get summary stats + res <- as.data.frame(t(sapply(mat, function(x) { + c(round(summary(x), 3), round(var(x), 3)) + }))) + names(res)[ncol(res)] <- "Variance" + res <- cbind(Ion = names(mat), res) + rownames(res) <- NULL + df_raw <- res + + #' data long format + data_long <- reshape2::melt(data, + id = c("Line", "Sample_ID", "Batch_ID"), variable.name = "Ion", + value.name = "Concentration" + ) + + #' convert to factors before using levels function. + data_long$Line <- factor(data_long$Line) + data_long$Ion <- factor(data_long$Ion) + ion_name <- levels(data_long$Ion) + + #' -------------------> Median batch correction + data_long$control <- rep(1, length(data_long$Concentration)) + data_long$log <- log(data_long$Concentration) + + #' ji: control use in batch correction + if (length(control_lines) > 0) { + if (control_use == "all") { } + if (control_use == "control") { + data_long$control[!(data_long$Line %in% control_lines)] <- 0 + } + if (control_use == "control.out") { + data_long$control[data_long$Line %in% control_lines] <- 0 + } + } + + #' batch correction methods + if (method_norm == "median") { + data_long <- plyr::ddply(data_long, "Ion", function(x) { + res <- plyr::ddply(x, "Batch_ID", function(y) { + med <- median(y$log[y$control == 1]) + y$log_corr <- y$log - med + y$med <- med + y + }) + }) + } + if (method_norm == "median+std") { + data_long <- plyr::ddply(data_long, "Ion", function(x) { + res <- plyr::ddply(x, "Batch_ID", function(y) { + med <- median(y$log[y$control == 1]) + st_de <- sd(y$log[y$control == 1]) + y$log_corr <- y$log - med - st_de + y$med <- med + y + }) + }) + } + if (method_norm == "none") { + data_long$log_corr <- data_long$log + data_long$med <- NULL + } + + #' get correction stats + res <- plyr::ddply(data_long, "Ion", function(x) { + c(round(summary(x$log_corr), 3), round(var(x$log_corr), 3)) + }) + names(res)[ncol(res)] <- "Variance" + df_bat <- res + + #' -------------------> Outlier detection + + #' ji: outlier detection methods + if (method_outliers == "IQR") { + data_long <- plyr::ddply(data_long, "Ion", function(x) { + res <- plyr::ddply(x, "Batch_ID", function(y) { + lowerq <- quantile(y$log_corr, na.rm = T)[2] + upperq <- quantile(y$log_corr, na.rm = T)[4] + iqr <- upperq - lowerq + extreme.t.upper <- (iqr * thres_outl) + upperq + extreme.t.lower <- lowerq - (iqr * thres_outl) + y$Outlier <- ifelse((y$log_corr > extreme.t.upper) | + (y$log_corr < extreme.t.lower), 1, 0) + return(y) + }) + }) + } + if (method_outliers == "mad") { + data_long <- plyr::ddply(data_long, "Ion", function(x) { + res <- plyr::ddply(x, "Batch_ID", function(y) { + med_dev <- mad(y$log_corr) + extreme.t.upper <- (med_dev * thres_outl) + extreme.t.lower <- -(med_dev * thres_outl) + y$Outlier <- ifelse((y$log_corr > extreme.t.upper) | + (y$log_corr < extreme.t.lower), 1, 0) + return(y) + }) + }) + } + if (method_outliers == "log.FC.dist") { + data_long <- plyr::ddply(data_long, "Ion", function(x) { + res <- plyr::ddply(x, "Batch_ID", function(y) { + extreme.t.upper <- thres_outl + extreme.t.lower <- -thres_outl + y$Outlier <- ifelse((y$log_corr > extreme.t.upper) | + (y$log_corr < extreme.t.lower), 1, 0) + return(y) + }) + }) + } + + if (method_outliers == "none") { + data_long$Outlier <- rep(0, length(data_long$Line)) + df_outlier <- data.frame() + } else { + df_outlier <- data.frame(cbind( + levels(data_long$Ion), + table(data_long$Ion, data_long$Outlier), + round(table(data_long$Ion, data_long$Outlier)[, 2] / + dim(data_long)[1] * 100, 2) + )) + rownames(df_outlier) <- c() + colnames(df_outlier) <- c("Ion", "no_outlier", "outlier", "outlier(%)") + } + + #' ji: remove samples with at least an outlier value + samples_to_exclude <- unique(data_long$Sample_ID[data_long$Outlier == 1]) + data_long <- data_long[!(data_long$Sample_ID %in% samples_to_exclude), ] + + #' -------------------> Standardisation + + #' ji: standardisation methods + if (stand_method == "std") { + sds <- plyr::ddply(data_long, "Ion", function(x) sd(x$log_corr)) + nam <- sds[, 1] + sds <- as.numeric(as.vector(sds[, 2])) + names(sds) <- nam + } + if (stand_method == "mad") { + sds <- plyr::ddply(data_long, "Ion", function(x) mad(x$log_corr)) + nam <- sds[, 1] + sds <- as.numeric(as.vector(sds[, 2])) + names(sds) <- nam + } + if (stand_method == "custom") { + # specific 2-columns format for vector of sd + sds <- stdev + nam <- sds[, 1] + sds <- as.numeric(as.vector(sds[, 2])) + names(sds) <- nam + } + + #' ji: aggregate measurements at line level (median) + data_wide_line_log_norm <- reshape2::dcast(data_long, Line ~ Ion, + fun.aggregate = median, + value.var = "log_corr" + ) + + #' ji: normalise by stds + data_wide_line_z_score <- data_wide_line_log_norm + data_wide_line_z_score[, 2:ncol(data_wide_line_z_score)] <- data_wide_line_z_score[, 2:ncol(data_wide_line_z_score)] / sds + + #' -------------------> Symbolisation + symb_profiles <- data_wide_line_z_score[, 2:ncol(data_wide_line_z_score)] + symb_profiles[(symb_profiles > -thres_symb) & (symb_profiles < thres_symb)] <- 0 + symb_profiles[symb_profiles >= thres_symb] <- 1 + symb_profiles[symb_profiles <= -thres_symb] <- -1 + + #' ji: save sybolic profiles + data_wide_line_symb <- cbind(Line = data_wide_line_z_score$Line, symb_profiles) + + #' plot z-score distributions + p1 <- ggplot( + data = data_long, + aes(x = factor(Batch_ID), y = log_corr, col = factor(Batch_ID)) + ) + + geom_point(shape = 1) + + facet_wrap(~Ion) + + xlab("Batch.ID") + + ylab("Log FC to batch median") + + theme(legend.position = "none") + + theme(axis.text.x = element_blank(), axis.ticks.x = element_blank()) + + # plot overview processed samples + dat <- reshape2::melt(data_wide_line_z_score, id = "Line") + p2 <- ggplot(data = dat, aes(x = value)) + + geom_histogram(binwidth = .1) + + facet_wrap(~variable) + + xlab("Concentration (z-score)") + + ylab("Counts") + + xlim(-10, 10) + + geom_vline(xintercept = c(-thres_symb, thres_symb), col = "red") + + # Histogram Number of Elements Changed + ions.changed <- rowSums(abs(data_wide_line_symb[,2:ncol(data_wide_line_symb)])) + + p3 <- ggplot(data=data.frame(table(ions.changed)), aes(x=ions.changed, y=Freq)) + + geom_bar(stat="identity") + + xlab("Number of Elements Changed") + + ylab("Number of Mutants"); + + # Histogram number of changes per element + ions.up <- colSums((data_wide_line_symb[,2:ncol(data_wide_line_symb)])==1) + ions.down <- colSums((data_wide_line_symb[,2:ncol(data_wide_line_symb)])==-1) + + ions.direction <- data.frame(hist.name = names(c(ions.down, ions.up)), + hist.val = c(ions.down, ions.up), + hist.type = c(rep("down",length(ions.down)), rep("up",length(ions.up))) + ) + + p4 <- ggplot(data=ions.direction, aes(fill=hist.type, x=hist.name, y=hist.val)) + + geom_bar(position="stack", stat="identity") + + scale_fill_manual(values=c("down"="blue","up"="red")) + + theme(legend.title = element_blank()) + + ylab("Number of Mutants") + + xlab(""); + + if (method_norm != "none"){ + # plot batch median log-concentrations + plot.data.long <- data_long[data_long["Outlier"]==0, ] + batch_median_ions <- plot.data.long[!duplicated(plot.data.long[,"med"]), c("Batch_ID","Ion","med"), drop = FALSE]; + + ion.batch.mean.median <- batch_median_ions %>% + dplyr::group_by(Ion) %>% + dplyr::summarize(mean = mean(med, na.rm = TRUE)) + + ion.order <- as.character(ion.batch.mean.median$Ion[sort.list(ion.batch.mean.median$mean)], decreasing = TRUE) + + batch_median_ions$Ion <- factor(batch_median_ions$Ion, levels = ion.order) + + p5 <- ggplot(batch_median_ions, aes(x=Ion, y=med, group = Batch_ID)) + + geom_line(aes(), color = "gray") + + theme(text = element_text(size=20), axis.title.x=element_blank()) + + ylab("Log-concentration") + + stat_summary(aes(y = med, group=1), fun = mean, colour="green1", geom="line", group=1) + + stat_summary(fun.min = function(x) mean(x) - sd(x), fun.max = function(x) mean(x) + sd(x), position ='dodge', + colour="green1", geom = 'errorbar', aes(group = 1), width=.1)+ + ggtitle("Median log-concentrations of batches"); + + # plot CV batch median log-concentrations + ion.batch.cv.median <- batch_median_ions %>% + dplyr::group_by(Ion) %>% + dplyr::summarize(CV = sd(med, na.rm = TRUE)/mean(med, na.rm = TRUE)) + + ion.batch.cv.median <- data.frame(ion.batch.cv.median) + + ion.batch.cv.median <- ion.batch.cv.median[order(ion.batch.cv.median$CV),] + + ion.batch.cv.median$Ion <- factor(ion.batch.cv.median$Ion, levels = ion.batch.cv.median$Ion) + + p6 <- ggplot(ion.batch.cv.median, aes(x=Ion, y=abs(CV), group =1)) + + ylab(" Absolute CV") + + geom_line(aes(), color = "red") + + theme(text = element_text(size=20), axis.title.x=element_blank()) + + scale_y_log10() + + ggtitle("CV median log-concentrations across batches"); + + }else{ + p5 <- NULL + p6 <- NULL + } + + #' -------------------> Output + res <- list() + res$stats.raw.data <- df_raw # raw data + res$stats.outliers <- df_outlier # outliers + res$stats.batches <- df_bat # batch corrected data + res$stats.std <- sds # standard deviations + res$data.long <- data_long # with Batch_ID + res$data.line.logFC <- data_wide_line_log_norm + res$data.line.zscores <- data_wide_line_z_score + res$data.line.symb <- data_wide_line_symb + res$plot.overview <- p1 + res$plot.hist <- p2 + res$plot.change.stat <- p3 + res$plot.change.dir <- p4 + res$plot.medians <- p5 + res$plot.CV <- p6 + return(res) +} + +#' ======================================================================= +#' +IonAnalysis <- function(data = NULL, thres_ion_corr = 0.15, method_ion_corr = "pearson"){ + + #' -------------------> PCA + ionProfile.PCA = NULL + ionProfile.PCA$pr.y = prcomp(data[, -1],scale. = F) + ionProfile.PCA$y = cbind(data.frame(Line = data$Line), as.data.frame(ionProfile.PCA$pr.y$x)) + + unit.norm = function(x)(x / sqrt(sum(x^2))) + ionProfile.PCA$y[,grepl("^PC",colnames(ionProfile.PCA$y))] = apply(ionProfile.PCA$y[,grepl("^PC",colnames(ionProfile.PCA$y))],2,unit.norm) + + p.PCA.data = ionProfile.PCA$y %>% + dplyr::select(Line, PC1, PC2 ) + + my.annotation = tbl_df(ionProfile.PCA$pr.y$rotation) %>% + dplyr::select(PC1, PC2) %>% + dplyr::mutate(Ion = row.names(ionProfile.PCA$pr.y$rotation)) %>% + `colnames<-`(c("x", "y", "Ion")) + + p_pca <- p.PCA.data %>% + ggplot(aes(x = PC1, y = PC2)) + + geom_segment(inherit.aes = F, data = my.annotation, + aes(x = 0, y = 0, xend = x/2, yend = y/2), + color = "blue", + arrow = arrow(length = unit(0.02, "npc")))+ + geom_text(inherit.aes = F, data = my.annotation, + aes(x = 0.51*x, y = 0.51*y, label = Ion), + color = "red", size = 4) + + geom_point(size = 1, alpha = 1/20) + + theme(aspect.ratio = 1) + + scale_shape(solid = FALSE) + + labs(x = paste0("PC1", + " (",round(summary(ionProfile.PCA$pr.y)$importance[2,"PC1"],2)*100,"%)"), + y = paste0("PC2"," (", + round(summary(ionProfile.PCA$pr.y)$importance[2,"PC2"],2)*100,"%)"), + color = "changed") + + #' PCA loading + pca_loadings <- data.frame(ionProfile.PCA$pr.y$rotation) + rownames(pca_loadings) <- colnames(data[, -1]) + pca_loadings <- pca_loadings[, 1:2] + + + #' -------------------> Correlation + col3 <- colorRampPalette(c("steelblue4", "white", "firebrick")) + corrplot.mixed(cor(data[, -1], use = "complete.obs", method = method_ion_corr), + number.cex = .7, + lower.col = "black", upper.col = col3(100) + ) + p_corr <- recordPlot() + + + #' -------------------> Heatmap with dendrogram + pheatmap(data[, -1], show_rownames = F, cluster_cols = T, cluster_rows = T, + legend = T, fontsize = 15, clustering_method = "ward.D", + scale = "row") + p_heat <- recordPlot() + + #' -------------------> Correlation network + #' wl-13-08-2020, Thu: there is no 'qgraph' in conda forge and bio conda. + if (T) { + #' library(glasso) + #' corr_reg <- glasso(corr, rho = 0.01) + #' net <- network::network(corr_reg$w, directed = FALSE) + corr <- cor(na.omit(data[, -1]), method = method_ion_corr) + corr[abs(corr) < thres_ion_corr] <- 0 + net <- network::network(corr[], directed = FALSE) + + #' set edge attributes + net %e% "weight" <- corr + net %e% "weight_abs" <- abs(corr) * 6 + net %e% "color" <- ifelse(net %e% "weight" > 0, "lightgreen", "coral") + p_net <- + ggnet2(net, + label = TRUE, mode = "fruchtermanreingold", + node.size = 10, edge.size = "weight_abs", edge.color = "color" + ) + } else { + #' wl-06-07-2020, Mon: 'cor_auto' is from package qgraph(lavaan) + #' wl-28-07-2020, Tue: cad and corr are the same + cad <- cor_auto(data[, -1]) + suppressWarnings(qgraph(cad, + graph = "glasso", layout = "spring", + tuning = 0.25, sampleSize = nrow(data[, -1]) + )) + Graph_lasso <- recordPlot() + } + + res <- list() + res$data.pca.load <- pca_loadings + res$plot.pca <- p_pca + res$plot.corr <- p_corr + res$plot.net <- p_net + res$plot.heat <- p_heat + return(res) + +} + + + +#' ======================================================================= +#' wl-04-10-2020, Sun: Hierarchical clustering +#' ji-10-01-2020, Sun: Input, Method, Output simplified + +ProfileClustering <- function(symbol_profiles, min_clust_size = 10, h_tree = 0, filter_zero_string = TRUE) { + + if (filter_zero_string){ + symbol_profiles <- symbol_profiles[rowSums(symbol_profiles[, -1])!=0, ] + } + x <- symbol_profiles[, -1] + dis <- stats::dist(x, method = "manhattan") + hc <- hclust(d = dis, method = "single") + clus <- data.frame(Line = symbol_profiles$Line, Cluster = cutree(hc, h = h_tree)) + + tab <- as.data.frame(table(clus$Cluster), stringsAsFactors = F) + names(tab) <- c("Cluster", "Number.of.genes") + + tab_subset <- tab[tab$Number.of.genes > min_clust_size, ] + tab_subset <- tab_subset[order(tab_subset$Number.of.genes, decreasing = T), ] + idx_subset <- clus %in% tab_subset$Cluster + + + res <- list() + res$clusters.vector <- clus + res$tab.clusters <- tab + res$tab.clusters.subset <- tab_subset + + return(res) + +} + + +#' ======================================================================= +#' wl-06-11-2020, Fri: Get ENTREZID from SYMBOL +#' +get_entrez_id <- function(gene_list, annot_pkg = "org.Sc.sgd.db", key_type = "ORF") { + + res <- AnnotationDbi::select(get(annot_pkg), keys = gene_list, + columns = "ENTREZID", keytype = key_type) + res <- res[,2,drop = T] + res <- res[!is.na(res)] + res <- res[!duplicated(res)] + + return(res) +} + +#' ======================================================================= +#' wl-03-10-2020, Sat: KEGG enrichment analysis for symbolization data +#' wl-06-11-2020, Fri: The first column of data must be ORF for +#' org.Sc.sgd.db or SYMBOL for any other annotation packages. +#' ji-11-01-2020, Mon: Input, Method, Output simplified +#' + +KeggEnricher <- function(cluster_vector, pval = 0.05, + min_count = 3, annot_pkg = "org.Sc.sgd.db", + gene_uni = NULL) { + + if(is.null(gene_uni)){ + gene_uni <- as.character(cluster_vector$Line) + } + + clusters_set <- unique(cluster_vector$Cluster) + + #' geneIds can be ORF or ENTREZID + enrich <- lapply(clusters_set, function(x) { + params <- new("KEGGHyperGParams", + geneIds = gene_uni[cluster_vector$Cluster == x], + universeGeneIds = gene_uni, + annotation = annot_pkg, + categoryName = "KEGG", + pvalueCutoff = pval, + testDirection = "over") + + over <- hyperGTest(params) + }) + + # name list with original clusters ID + names(enrich) <- clusters_set + + #' There is no explicit methods for getting manual summary table. + summ <- lapply(enrich, function(x) { + tmp <- summary(x) + if (nrow(tmp) == 0) tmp <- NULL #' wl-04-10-2020, Sun: it happens very often. + return(tmp) + }) + summ <- summ[!sapply(summ,is.null)] + + #' binding and filtering + summ <- lapply(summ, "[", -c(3, 4)) %>% + dplyr::bind_rows(.id = "Cluster") %>% + dplyr::filter(Pvalue <= pval & Count >= min_count) + + res <- list() + res$enrichment.summary <- summ + res$enrichment.full.results <- enrich + return(res) + + +} + +#' ======================================================================= +#' wl-03-10-2020, Sat: GO enrichment analysis for symbolization data +#' wl-06-11-2020, Fri: The first column of data must be ORF for +#' org.Sc.sgd.db or SYMBOL for any other annotation packages. +#' +GOEnricher <- function(cluster_vector, pval = 0.05, ont = c("BP","CC","MF"), + min_count = 3, annot_pkg = "org.Sc.sgd.db", + gene_uni = NULL) { + + if(is.null(gene_uni)){ + gene_uni <- as.character(cluster_vector$Line) + } + + ont <- match.arg(ont) + + genes_not_annotated <- NULL + + if ( annot_pkg == "org.Sc.sgd.db"){ + genes_not_annotated <- unlist(mget( + mappedkeys(org.Sc.sgdGO2ALLORFS)[which(is.na(Term(mappedkeys(org.Sc.sgdGO2ALLORFS))))], org.Sc.sgdGO2ALLORFS) + ) + gene_uni <- mappedkeys(org.Sc.sgdGO)[mappedkeys(org.Sc.sgdGO) %in% gene_uni] + } + if ( annot_pkg == "org.Hs.eg.db"){ + genes_not_annotated <- unlist(mget( + mappedkeys(org.Hs.egGO2ALLEGS)[which(is.na(Term(mappedkeys(org.Hs.egGO2ALLEGS))))], org.Hs.egGO2ALLEGS) + ) + #gene_uni <- mappedkeys(org.Hs.egGO) + gene_uni <- mappedkeys(org.Hs.egGO)[mappedkeys(org.Hs.egGO) %in% gene_uni] + } + if ( annot_pkg == "org.Mm.eg.db"){ + genes_not_annotated <- unlist(mget( + mappedkeys(org.Mm.egGO2ALLEGS)[which(is.na(Term(mappedkeys(org.Mm.egGO2ALLEGS))))], org.Mm.egGO2ALLEGS) + ) + gene_uni <- mappedkeys(org.Mm.egGO)[mappedkeys(org.Mm.egGO) %in% cluster_vector$Line] + } + + gene_uni <- as.character(gene_uni[!gene_uni %in% genes_not_annotated]) + + cluster_vector <- cluster_vector[cluster_vector$Line %in% gene_uni,] + clusters_set <- unique(cluster_vector$Cluster) + + #' geneIds can be ORF or ENTREZID + enrich <- lapply(clusters_set, function(x) { + gene_set <- as.character(cluster_vector$Line[cluster_vector$Cluster == x]) + params <- new("GOHyperGParams", + geneIds = gene_set, + universeGeneIds = gene_uni, + annotation = annot_pkg, + categoryName = "GO", + ontology = ont, + pvalueCutoff = pval, + conditional = T, + testDirection = "over") + + over <- hyperGTest(params) + }) + + # name list with original clusters ID + names(enrich) <- clusters_set + + summ <- lapply(enrich, function(x) { + Pvalue <- round(pvalues(x), digit = 4) + ID <- names(Pvalue) + Description <- Term(ID) + OddsRatio <- oddsRatios(x) + ExpCount <- expectedCounts(x) + Count <- geneCounts(x) + CountUniverse <- universeCounts(x) + + tab <- cbind(ID, Description, Pvalue, OddsRatio, ExpCount, Count, CountUniverse) + rownames(tab) <- NULL + tab <- na.omit(tab) #' wl-03-10-2020, Sat: this is why summary fails. + tab <- data.frame(tab, Ontology = ont) + }) + + summ <- lapply(summ, "[", -c(4, 5)) %>% + dplyr::bind_rows(.id = "Cluster") %>% + dplyr::filter(Pvalue <= pval & Count >= min_count) + + res <- list() + res$enrichment.summary <- summ + res$enrichment.full.results <- enrich + return(res) +} + + + + +GeneticNetwork <- function(data = NULL, + method_corr = c("pearson", "spearman", "kendall", + "cosine", "mahal_cosine", "hybrid_mahal_cosine"), + network_modules = c("louvain", "input"), + thres_corr = 0.7, + cluster_vector = NULL, + cluster_label_vector = NULL, + n_labels = 3 + ) { + + + mat <- as.matrix(data[,!colnames(data)%in%c("Line","Cluster")]) + + + #' Compute similarity matrix + if (method_corr == "pearson" || + method_corr == "spearman" || + method_corr == "kendall") { + corrGenes <- cor(t(as.matrix(mat)), + method = method_corr, + use = "pairwise.complete.obs") + } else if (method_corr == "cosine") { + corrGenes <- cosine(t(as.matrix(mat))) + } else if (method_corr == "mahal_cosine") { + corrGenes <- cosM(mat, mode = "normal") + } else if (method_corr == "hybrid_mahal_cosine") { + corrGenes <- cosM(mat, mode = "hybrid") + } + + #' Adjacency matrix + A <- corrGenes + diag(A) <- 0 + A <- (A > thres_corr) + A <- ifelse(A == TRUE, 1, 0) + + if (network_modules == "input"){ + + if (length(cluster_label_vector) == 0){ + cluster_vector <- as.character(cluster_vector$Cluster) + }else{ + mm <- match(cluster_vector$Cluster, cluster_label_vector$Cluster) + cluster_vector <- cluster_label_vector$label[mm] + } + + tmp <- unique(cluster_vector) + if (length(tmp) != 1) { + cpy <- rainbow(length(tmp)) + names(cpy) <- tmp + } else { + cpy <- "Set2" + } + + } + if (network_modules == "louvain"){ + # community detection + tmp <- igraph::graph_from_adjacency_matrix(A, mode="undirected") + com <- igraph::cluster_louvain(tmp, weights = NULL) + cluster_vector <- as.character(igraph::membership(com)) + degree_vector <- igraph::degree(tmp) + + tmp <- unique(cluster_vector) + if (length(tmp) != 1) { + cpy <- rainbow(length(tmp)) + names(cpy) <- tmp + } else { + cpy <- "Set2" + } + } + + + #' Generate network + net <- network::network(A, directed = FALSE) + net %v% "Label" <- cluster_vector + + #' Remove communities of size 1 + if (network_modules == "louvain"){ + net <- delete.vertices(net, which(degree_vector == 0)); + } + + net_p <- GGally::ggnet2(net, + mode = "fruchtermanreingold", + color = "Label", + palette = cpy, + edge.alpha = 0.5, size = 2, + color.legend = "Modules", + legend.size = 10, + legend.position = "right" + ) + + #' network edge list + net <- as.matrix(net, matrix.type = "edgelist")[,1:2]; + net[,] <- cbind(as.character(data$Line[net[,1]]), as.character(data$Line[net[,2]])) + + #' Impact and betweenness + btw <- sna::betweenness(A) # or use 'net' instead of 'A' + impact <- apply(mat, 1, norm, type = "2") # L2 norm + + df.res <- data.frame( + Line = data$Line, + impact = round(impact, 3), + betweenness = round(btw, 3), + log.betweenness = round(log(btw + 1), 3), + pos = factor(ifelse((impact < quantile(impact, .75)) & (log(btw + 1) < quantile(log(btw + 1), .75)), 1, + ifelse((impact < quantile(impact, .75)) & (log(btw + 1) > quantile(log(btw + 1), .75)), 2, + ifelse((impact > quantile(impact, .75)) & (log(btw + 1) < quantile(log(btw + 1), .75)), 3, 4) + ) + )), + pos.label = factor(ifelse((impact < quantile(impact, .75)) & (log(btw + 1) < quantile(log(btw + 1), .75)), "Low impact, low betweenness", + ifelse((impact < quantile(impact, .75)) & (log(btw + 1) > quantile(log(btw + 1), .75)), "Low impact, high betweenness", + ifelse((impact > quantile(impact, .75)) & (log(btw + 1) < quantile(log(btw + 1), .75)), "High impact, low betweenness", "High impact, high betweenness") + ) + )) + ) + rownames(df.res) <- data$Line[] + + q1 <- row.names(subset(df.res, (impact < quantile(impact, .75)) & (log.betweenness < quantile(log.betweenness, .75)))) + q2 <- row.names(subset(df.res, (impact < quantile(impact, .75)) & (log.betweenness > quantile(log.betweenness, .75)))) + q3 <- row.names(subset(df.res, (impact > quantile(impact, .75)) & (log.betweenness < quantile(log.betweenness, .75)))) + q4 <- row.names(subset(df.res, (impact > quantile(impact, .75)) & (log.betweenness > quantile(log.betweenness, .75)))) + + #' labels + N <- n_labels + lst <- list(q1, q2, q3, q4) + idx <- lapply(lst, function(x) { + if (length(x) > N){ + tmp <- df.res[x, c("betweenness","impact")]; + union(rownames(tmp)[order(tmp$betweenness, decreasing = TRUE)[1:N]], + rownames(tmp)[order(tmp$impact, decreasing = TRUE)[1:N]]) + }else{x} + }) + idx <- unique(unlist(idx)) + + df.idx <- df.res[idx, ] + + im_be_p <- + ggplot(data = df.res, aes(x = impact, y = log.betweenness)) + + geom_point(aes(col = pos.label), alpha = .3, size = 3) + + scale_color_manual(values = c( + "plum4", "palegreen4", "indianred", + "cornflowerblue" + )) + + theme_linedraw() + + theme_light() + + theme(legend.position = "bottom") + + guides(colour = guide_legend(nrow = 2)) + + theme(legend.title = element_blank()) + + geom_text_repel(data = df.idx, aes(label = Line), size = 3.5) + + geom_vline(xintercept = quantile(df.res$impact, .75), linetype = "dashed") + + geom_hline( + yintercept = quantile(df.res$log.betweenness, .75), + linetype = "dashed" + ) + + xlab("Impact") + + ylab("Log(betweenness+1)") + + + res <- list() + res$network <- net + res$network.modules <- cluster_vector + res$plot.network <- net_p # plot gene network with symbolic pheno + res$plot.impact_betweenness <- im_be_p # plot impact betweenees + res$stats.impact_betweenness <- df.res # impact and betweenees data + return(res) +} + + + + + +cosM <- function(x, mode = c("normal", "hybrid")) { + + #' -------------------------------------------------------------------- + #' library("pracma") + #' pinv: Pseudoinverse (Moore-Penrose Generalized Inverse) + pinv <- function (A, tol = .Machine$double.eps^(2/3)) { + stopifnot(is.numeric(A), length(dim(A)) == 2, is.matrix(A)) + s <- svd(A) + p <- (s$d > max(tol * s$d[1], 0)) + if (all(p)) { + mp <- s$v %*% (1/s$d * t(s$u)) + } else if (any(p)) { + mp <- s$v[, p, drop=FALSE] %*% (1/s$d[p] * t(s$u[, p, drop=FALSE])) + } else { + mp <- matrix(0, nrow=ncol(A), ncol=nrow(A)) + } + return(mp) + } + + mldivide <- function(A, B, pinv = TRUE) { + stopifnot( is.numeric(A) || is.complex(A), is.numeric(B) || is.complex(B)) + if (is.vector(A)) A <- as.matrix(A) + if (is.vector(B)) B <- as.matrix(B) + if (nrow(A) != nrow(B)) { + stop("Matrices 'A' and 'B' must have the same number of rows.") + } + if (pinv) { + pinv(t(A) %*% A) %*% t(A) %*% B + } else { + qr.solve(A, B) + } + } + + mrdivide <- function(A, B, pinv = TRUE) { + stopifnot( is.numeric(A) || is.complex(A), is.numeric(B) || is.complex(B)) + if (is.vector(A)) A <- t(A) + if (is.vector(B)) B <- t(B) + if (ncol(A) != ncol(B)) { + stop("Matrices 'A' and 'B' must have the same number of columns.") + } + t(mldivide(t(B), t(A), pinv = pinv)) + } + + #' -------------------------------------------------------------------- + + #' compute covariance + Cov <- cov(x, use = "pairwise.complete.obs") + n <- dim(x)[1] + m <- dim(x)[2] + + #' compute eigenvalues + Eig <- eigen(Cov) + score <- mrdivide(as.matrix(x), t(Eig$vectors)) + + #' wl-25-10-2020, Sun: n must be larger than m othwise this script fails. + if (any(Eig$values < 0)) { + stop("Cov Not Positive SemiDefinite !") + } + + #' compute pairwise cosine similarity + C <- rep(0, n * (n - 1) / 2) + d <- 0 + for (i in 1:(n - 1)) { + for (j in (i + 1):n) { + d <- d + 1 + #' inner product and norms + inner <- 0 + normx1 <- 0 + normy1 <- 0 + for (l in 1:m) { + if (mode == "normal") { + inner <- inner + score[i, l] * score[j, l] / Eig$values[l] + } else if (mode == "hybrid") { + inner <- inner + score[i, l] * score[j, l] + } + normx1 <- normx1 + (score[i, l] * score[i, l] / Eig$values[l]) + normy1 <- normy1 + (score[j, l] * score[j, l] / Eig$values[l]) + } + C[d] <- inner / (sqrt(normx1) * sqrt(normy1)) + } + } + + #' wl-25-10-2020, Sun: convert to symmetric matrix + if (T) { + #' wl's implementation + #' mat <- matrix(1, n, n) + #' mat[lower.tri(mat, diag = F)] <- C + #' mat[which(lower.tri(t(mat)), arr.ind = T)[, c(2,1)]] <- C + + #' ji's implemetation + mat <- matrix(0, n, n) + mat[lower.tri(mat, diag = F)] <- C + mat <- mat + t(mat) + diag(mat) <- 1 + + dimnames(mat) <- list(rownames(x), rownames(x)) + return(mat) + } else { + return(C) + } + +} +#' +#' ======================================================================= +#' From R package "lsa" +#' x <- iris[, -5] +#' cosine(as.matrix(x)) +#' cosine(as.matrix(t(x))) +#' +cosine <- function(x, y = NULL) { + if (is.matrix(x) && is.null(y)) { + co <- array(0, c(ncol(x), ncol(x))) + f <- colnames(x) + dimnames(co) <- list(f, f) + for (i in 2:ncol(x)) { + for (j in 1:(i - 1)) { + co[i, j] <- cosine(x[, i], x[, j]) + } + } + co <- co + t(co) + diag(co) <- 1 + return(as.matrix(co)) + } else if (is.vector(x) && is.vector(y)) { + return(crossprod(x, y) / sqrt(crossprod(x) * crossprod(y))) + } else if (is.vector(x) && is.matrix(y)) { + co <- vector(mode = "numeric", length = ncol(y)) + names(co) <- colnames(y) + for (i in 1:ncol(y)) { + co[i] <- cosine(x, y[, i]) + } + return(co) + } else { + stop("argument mismatch. Either one matrix or two vectors needed as input.") + } +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ionflow/macros.xml Mon Aug 09 09:41:22 2021 +0000 @@ -0,0 +1,44 @@ +<macros> + <xml name="requirements"> + <requirements> + <requirement type="package" version="1.6.6">r-optparse</requirement> + <requirement type="package" version="1.4.4">r-reshape2</requirement> + <requirement type="package" version="1.8.6">r-plyr</requirement> + <requirement type="package" version="1.0.6">r-dplyr</requirement> + <requirement type="package" version="1.1.3">r-tidyr</requirement> + <requirement type="package" version="3.3.3">r-ggplot2</requirement> + <requirement type="package" version="0.9.1">r-ggrepel</requirement> + <requirement type="package" version="0.89">r-corrplot</requirement> + <requirement type="package" version="3.1.1">r-gplots</requirement> + <requirement type="package" version="1.16.1">r-network</requirement> + <requirement type="package" version="2.6">r-sna</requirement> + <requirement type="package" version="2.1.1">r-ggally</requirement> + <requirement type="package" version="3.13.0">bioconductor-go.db</requirement> + <requirement type="package" version="2.58.0">bioconductor-gostats</requirement> + <requirement type="package" version="1.0.12">r-pheatmap</requirement> + <requirement type="package" version="1.2.6">r-igraph</requirement> + <requirement type="package" version="3.2.4">bioconductor-kegg.db</requirement> + <requirement type="package" version="3.13.0">bioconductor-org.sc.sgd.db</requirement> + <requirement type="package" version="3.13.0">bioconductor-org.hs.eg.db</requirement> + </requirements> + </xml> + <xml name="stdio"> + <stdio> + <regex match="Execution halted" + source="both" + level="fatal" + description="Execution halted." /> + <regex match="Error in" + source="both" + level="fatal" + description="An undefined error occurred, please check your input + carefully and contact your administrator." /> + <regex match="Fatal error" + source="both" + level="fatal" + description="An undefined error occurred, please check your input + carefully and contact your administrator." /> + </stdio> + </xml> + +</macros>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ionflow/test-data/Dataset_IonFlow_Ionome_KO_short.csv Mon Aug 09 09:41:22 2021 +0000 @@ -0,0 +1,2823 @@ +"orf_id","plate_id","trays_id","batch_id","Ca","Cd","Co","Cu","Fe","K","Mg","Mn","Mo","Na","Ni","P","S","Zn" +"1","BY4741",11,88,1,118.01855,0.83536,0.17545,2.20607,8.67336,3224.25138,523.76232,1.33972,1.75765,147.79554,1.58683,4036.94219,653.02571,19.16301 +"2","BY4741",23,88,1,39.93342,0.84135,0.16781,1.84792,8.66908,2991.78134,437.37788,1.27339,1.85148,121.7359,1.20679,3673.13953,476.36643,15.98715 +"3","BY4741",35,88,1,17.5135,0.76082,0.14513,1.58885,4.91347,2219.52564,256.25412,0.89513,1.73904,79.56759,1.10363,2138.09998,279.43642,12.55235 +"4","BY4741",47,88,1,30.34089,0.84361,0.16709,2.44383,8.57787,2851.1804,361.87374,1.19424,1.89345,90.5466,1.22088,3220.96622,355.06658,15.27348 +"5","BY4741",59,88,1,28.5296,0.8598,0.16399,1.77133,5.90262,2807.72266,360.63154,1.12887,2.01328,97.90982,1.0611,3238.62113,371.25657,14.84949 +"6","BY4741",71,88,1,44.54168,0.83439,0.1599,1.74531,7.205,2414.25673,293.36174,1.00249,1.81015,67.27554,1.00818,2605.85501,231.38444,14.77511 +"7","BY4741",83,88,1,35.23599,0.83168,0.15839,1.78133,6.06207,2651.64347,325.70903,1.06596,1.79324,77.92219,1.10725,2851.15068,256.74484,15.08956 +"8","BY4741",95,88,1,36.80574,0.78151,0.14613,1.91171,7.82979,2288.65034,264.74517,0.95363,1.84724,83.05214,2.75398,2377.86942,180.37451,15.06511 +"9","BY4741",11,89,1,49.87643,0.89098,0.17937,2.02641,6.95042,3499.59617,532.82025,1.4143,2.00943,127.72827,1.27413,4179.98499,680.93403,16.96328 +"10","BY4741",23,89,1,55.66239,0.84234,0.17031,1.90232,17.79881,3018.39171,455.35255,1.29596,2.00459,125.4246,1.16272,3653.58444,469.18262,18.37319 +"11","BY4741",35,89,1,22.4409,0.79005,0.18657,1.85378,5.69795,2684.23431,332.23097,1.06787,1.99871,85.98306,0.99115,2778.50149,334.74153,13.00427 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+"1912","YBR213W",94,104,5,11.95368,0.96641,0.1587,1.21266,3.65492,3018.57868,277.08978,1.23131,0.33919,23.77836,0.64677,2191.4478,139.54026,13.47455 +"1913","YBR214W",2,105,5,26.7784,0.94838,0.17784,1.33212,3.24672,3563.14307,611.66295,1.42395,0.56783,101.3368,0.80266,3985.01768,494.92394,16.21261 +"1914","YBR214W",14,105,5,13.32256,0.94842,0.17425,1.2858,2.17344,3162.01769,501.75858,1.26581,0.92261,79.09281,0.83425,3319.06147,363.19973,15.08451 +"1915","YBR214W",26,105,5,18.77033,0.96526,0.17485,1.29237,2.52999,3197.33199,481.1937,1.2914,0.53008,81.84336,0.85508,3150.75251,353.20891,16.58147 +"1916","YBR214W",38,105,5,19.5528,1.03235,0.18373,1.42384,3.05048,3311.92227,466.45724,1.34421,0.84772,74.88928,1.00541,3357.94188,385.67121,16.67519 +"1917","YBR214W",50,105,5,13.6475,1.00073,0.17552,1.31365,4.06756,3008.31872,434.53944,1.21729,0.76145,62.89524,0.81229,3060.39059,356.37746,15.003 +"1918","YBR214W",62,105,5,14.13904,0.9793,0.17459,1.35703,2.83693,3046.83243,430.09711,1.19068,0.60788,80.63597,0.82518,3192.65764,326.1347,15.11759 +"1919","YBR214W",74,105,5,14.6469,1.00008,0.172,1.28998,2.72964,2853.75628,372.3005,1.22066,0.51613,56.71997,0.80982,2651.37976,320.52991,14.62901 +"1920","YBR214W",86,105,5,19.43716,1.00832,0.16925,1.29668,2.92091,2829.33915,360.51599,1.18773,0.55131,51.22631,0.75652,2419.99973,331.98901,14.94658 +"1921","YBR215W",3,105,5,14.68697,0.88536,0.17487,1.29155,2.26539,3031.95827,468.2308,1.20165,0.54649,143.33979,0.71234,3134.5975,463.90705,15.97836 +"1922","YBR215W",15,105,5,14.95938,0.8882,0.1751,1.33555,1.65057,3023.17995,442.72048,1.168,0.51806,133.3177,0.74031,3062.06089,330.11497,16.89249 +"1923","YBR215W",27,105,5,8.82434,0.93316,0.17787,1.32884,3.72151,3120.25312,417.46187,1.16136,0.59951,117.39153,0.70383,2980.41947,339.46509,16.08087 +"1924","YBR215W",39,105,5,9.45314,0.88549,0.17111,1.27742,2.02153,2857.36759,383.81399,1.12089,0.49145,106.03743,0.69494,2752.61324,294.52877,15.07055 +"1925","YBR215W",51,105,5,7.95617,0.95175,0.1709,1.33035,1.9235,2806.75036,343.63527,1.10294,0.68084,86.22597,0.68686,2455.34613,219.76546,16.21891 +"1926","YBR215W",63,105,5,10.63327,0.95711,0.18165,1.3662,3.45171,3011.95729,393.40705,1.20338,0.57439,103.18494,0.76469,2872.00001,345.73921,16.2442 +"1927","YBR215W",75,105,5,6.8887,0.95172,0.16635,1.31452,1.47122,2549.03015,297.74837,1.07331,0.61215,75.52999,0.6799,2205.09208,243.82532,14.63714 +"1928","YBR215W",87,105,5,14.09053,1.01576,0.17386,1.39146,2.61139,2677.0054,328.57088,1.12732,0.72499,79.18862,0.73994,2289.35252,272.64011,16.22578 +"1929","YBR216C",4,105,5,29.12087,0.9164,0.18408,1.38477,23.78294,3114.72517,505.86562,1.39922,0.6543,151.00625,1.30742,3518.79637,419.29438,18.93741 +"1930","YBR216C",16,105,5,11.31005,0.94014,0.17649,1.24866,2.5398,2988.82596,419.94,1.27281,0.52945,111.34354,0.8156,2959.6356,305.2793,15.11172 +"1931","YBR216C",28,105,5,14.05109,0.92456,0.17487,1.26011,4.15563,2848.48886,457.0987,1.25291,0.71386,152.92815,0.93994,3257.27291,365.80197,14.8421 +"1932","YBR216C",40,105,5,12.09809,0.93212,0.16962,1.27343,2.1289,2712.91228,384.20416,1.20323,0.56854,118.73762,0.96578,2786.20877,284.16691,14.80502 +"1933","YBR216C",52,105,5,9.82322,1.01337,0.17453,1.30845,3.00221,2633.42632,355.69685,1.17781,0.53971,102.29069,0.94114,2628.00788,273.19616,14.58061 +"1934","YBR216C",64,105,5,17.3442,1.04011,0.18754,1.43943,2.6351,3267.70063,460.63668,1.38558,0.53443,126.16297,0.92877,3597.61434,388.9166,16.83619 +"1935","YBR216C",76,105,5,11.42639,1.05001,0.17587,1.33282,1.98386,2769.72117,300.00578,1.20028,0.56542,66.70405,0.81654,2323.81993,209.08096,15.779 +"1936","YBR216C",88,105,5,15.77072,1.04016,0.17192,1.28821,2.87593,2650.94261,305.64711,1.15275,0.77647,72.08436,0.80507,2282.45019,207.72384,14.85081 +"1937","YBR217W",5,105,5,20.08257,0.92835,0.17914,1.26401,2.86361,2683.59363,529.20016,1.26377,0.7875,317.21328,0.89008,3325.1089,452.23271,17.89475 +"1938","YBR217W",17,105,5,6.29136,0.91038,0.17898,1.19794,2.92119,2661.49856,510.91131,1.1989,0.72038,279.15746,0.74343,3298.02568,371.55439,15.62811 +"1939","YBR217W",29,105,5,10.24143,0.95238,0.17452,1.24141,2.64835,2571.79162,471.54388,1.20909,0.51155,263.77434,0.75862,3028.33154,375.42008,15.66498 +"1940","YBR217W",41,105,5,4.40107,0.98094,0.17626,1.24582,2.63159,2322.06811,397.52239,1.13509,0.74434,210.63742,0.89411,2649.95787,313.4652,15.08228 +"1941","YBR217W",53,105,5,4.26306,0.98051,0.17427,1.28071,2.87191,2257.62916,368.05157,1.0848,1.09919,194.95123,0.75487,2468.47584,234.28945,15.02447 +"1942","YBR217W",65,105,5,5.85927,0.9692,0.17353,1.20475,2.02823,2234.06245,352.95818,1.05053,0.52072,200.57345,0.72059,2548.18791,237.87012,14.55731 +"1943","YBR217W",89,105,5,14.58243,0.98594,0.16992,1.29118,2.75307,2101.67835,309.33631,1.04909,0.60407,186.20552,0.75784,2234.75103,268.91359,15.32181 +"1944","YBR218C",7,105,5,17.27289,0.89081,0.1727,1.3284,2.14055,3146.54905,542.20043,1.34566,0.58538,171.11175,0.76999,3626.12395,404.40517,14.95162 +"1945","YBR218C",19,105,5,12.57354,0.93215,0.17339,1.34411,2.14249,2928.7589,476.59953,1.28209,0.6925,154.22299,0.72322,3414.20562,349.45194,14.8323 +"1946","YBR218C",31,105,5,20.43774,0.93907,0.17872,1.3599,6.16549,3110.89136,512.24484,1.2965,0.49715,157.9707,0.76295,3526.54327,431.16077,17.15058 +"1947","YBR218C",43,105,5,11.39098,0.93455,0.17377,1.34504,2.67585,2568.94041,402.9631,1.15064,0.559,147.38777,0.80837,2866.18553,291.9105,14.81353 +"1948","YBR218C",55,105,5,10.41667,0.95445,0.16754,1.3208,2.56717,2583.94502,369.22921,1.13192,0.53368,114.65673,0.76564,2593.0202,264.22482,14.66164 +"1949","YBR218C",67,105,5,9.93749,0.93119,0.16727,1.30831,2.40537,2462.66313,366.04011,1.07279,0.96035,111.65383,0.73826,2657.80698,223.82377,14.33094 +"1950","YBR218C",79,105,5,8.06537,1.01264,0.17402,1.36828,2.33487,2382.2038,343.7933,1.13529,0.46698,90.14009,0.73467,2419.03651,230.00931,14.87964 +"1951","YBR218C",91,105,5,7.47038,1.0084,0.16678,1.28884,1.80341,2182.0712,273.90756,1.00593,0.55853,93.41775,0.95812,1963.63676,197.42451,14.3739 +"1952","YBR219C",8,105,5,16.48914,0.94645,0.17479,1.31715,2.53497,2583.9639,518.70423,1.25405,0.56351,193.41041,0.75598,3594.69552,395.39481,14.92976 +"1953","YBR219C",20,105,5,15.29248,0.95566,0.1702,1.33454,2.90916,2504.22403,461.35738,1.24971,0.98205,159.07314,0.72672,3191.61473,330.01461,14.02867 +"1954","YBR219C",32,105,5,15.459,0.97418,0.17548,1.34079,2.72167,2502.11248,465.72943,1.22107,0.53275,168.84832,0.77547,3195.75516,353.12453,14.46929 +"1955","YBR219C",44,105,5,13.59623,0.98993,0.17029,1.3051,2.72132,2391.79387,416.82414,1.15649,0.74369,136.48207,0.7672,2895.19747,304.52224,14.06501 +"1956","YBR219C",56,105,5,13.28971,1.04929,0.1844,1.40405,8.57858,2338.00668,411.32077,1.11269,0.5774,171.34398,0.8936,2988.64376,332.82402,15.0085 +"1957","YBR219C",68,105,5,11.26598,1.02024,0.16951,1.37643,2.04917,2203.01072,355.81121,1.07475,0.51385,120.47145,0.78814,2657.14676,245.53232,14.45316 +"1958","YBR219C",80,105,5,11.67124,1.06856,0.17934,1.37913,2.79864,2286.74016,357.85705,1.09906,0.52701,116.82863,0.76733,2588.11618,256.05475,15.042 +"1959","YBR219C",92,105,5,11.82972,1.06886,0.16965,1.33565,1.17422,1993.78788,287.08384,1.02114,0.48752,94.27029,0.86603,2029.51281,157.23881,14.78584 +"1960","YBR220C",9,105,5,12.92763,0.88678,0.17095,1.28575,1.97,2744.18419,516.56059,1.16719,0.6759,188.48964,0.77733,3304.24036,352.30007,15.00585 +"1961","YBR220C",21,105,5,11.27079,0.93898,0.1702,1.34961,3.0868,2809.29156,483.03393,1.15544,0.76091,153.96759,0.74267,3324.70238,355.09654,14.70365 +"1962","YBR220C",33,105,5,14.67717,0.94318,0.18222,1.41236,4.76698,2825.22572,501.47811,1.12764,0.6149,170.13032,0.83692,3583.09304,378.6079,15.64852 +"1963","YBR220C",45,105,5,10.03376,0.9312,0.17077,1.32878,3.37213,2594.87081,390.87581,1.13448,0.58782,114.40777,0.73465,2744.36653,293.67367,14.20941 +"1964","YBR220C",57,105,5,15.06405,0.95458,0.17345,1.3611,2.62375,2469.91249,384.7241,1.07604,0.65346,133.20687,0.75239,3047.1995,250.24435,14.64012 +"1965","YBR220C",69,105,5,9.58223,0.96045,0.16647,1.26963,3.05596,2330.17319,344.92186,0.98896,0.54502,112.91582,0.75514,2507.11459,241.49671,14.20379 +"1966","YBR220C",81,105,5,13.61064,1.0174,0.17102,1.32032,2.01645,2172.45933,342.26152,0.95814,0.51142,119.57125,0.80932,2464.95717,224.87184,15.08498 +"1967","YBR220C",93,105,5,25.62372,0.95326,0.16197,1.27795,1.71532,2108.75442,297.57103,0.90974,0.46437,96.71007,0.85213,2087.50081,184.31185,16.71347 +"1968","YBR221C",10,105,5,15.41703,1.06034,0.20478,1.5251,3.09296,2338.20493,498.51361,0.74545,0.33325,158.60492,1.0423,3284.52845,470.16857,16.1124 +"1969","YBR221C",22,105,5,14.25906,1.07873,0.20612,1.54796,3.23648,2407.48278,511.15351,0.77777,0.32426,153.60045,1.13048,3431.89399,423.7694,16.45103 +"1970","YBR221C",34,105,5,15.09583,1.05414,0.19872,1.52313,4.50792,2226.25161,452.1282,0.72705,0.36005,136.33936,1.0107,2931.9923,365.2079,15.72034 +"1971","YBR221C",46,105,5,13.21153,1.12752,0.20944,1.55459,4.03682,2282.79599,451.21436,0.75549,0.36858,136.75126,1.03882,3130.67875,397.81856,16.04693 +"1972","YBR221C",58,105,5,8.7997,1.12309,0.20546,1.49412,3.25331,2212.68203,412.8371,0.71363,0.2338,118.13972,0.99494,2815.18555,286.9633,15.90159 +"1973","YBR221C",70,105,5,11.88987,1.15064,0.19318,1.52555,3.46822,2072.25177,354.06285,0.69328,0.1996,105.60266,0.96032,2422.20905,317.65242,15.88736 +"1974","YBR221C",82,105,5,8.30715,1.17877,0.19924,1.51051,2.69017,1923.02724,325.49406,0.64564,0.22341,93.48448,1.07197,2263.43366,252.23321,15.38333 +"1975","YBR221C",94,105,5,9.59426,1.17488,0.19503,1.53559,2.95227,1885.80861,308.47095,0.62151,0.4211,99.43696,0.94537,2275.29884,265.18817,16.35444 +"1980","YBR222C",2,106,6,24.04391,0.66716,0.13162,0.95777,3.1663,2255.29794,417.22204,0.89312,0.41229,131.38511,0.53653,2735.49441,303.92788,11.03392 +"1981","YBR222C",14,106,6,19.97809,0.67153,0.15743,0.98916,2.75186,2104.38452,385.60819,0.81938,0.35838,125.07197,0.50638,2595.77233,314.48714,10.34578 +"1982","YBR222C",26,106,6,18.4472,0.68785,0.12712,1.0358,1.66226,1950.0215,348.32333,0.7665,0.37093,109.54444,0.49583,2217.44507,257.5749,11.31417 +"1983","YBR222C",38,106,6,16.63039,0.69207,0.12481,0.91825,1.68725,1945.52873,321.54169,0.74058,0.34857,98.12028,0.48504,2150.57084,255.43031,10.4322 +"1984","YBR222C",50,106,6,13.22618,0.66651,0.11779,0.78767,1.25157,1693.57983,254.85256,0.65558,0.43809,78.79594,0.42899,1681.93697,158.86781,9.96813 +"1985","YBR222C",62,106,6,12.09693,0.67927,0.11917,0.88248,2.25055,1739.74135,273.58558,0.6493,0.41542,73.94831,0.42402,1822.57413,164.16961,10.1486 +"1986","YBR222C",74,106,6,11.67875,0.69349,0.12386,0.88903,1.61755,1623.02911,257.66681,0.63801,0.39823,75.76887,0.47411,1661.40804,104.68541,10.48761 +"1987","YBR222C",86,106,6,21.49413,0.71275,0.12574,0.84814,1.22971,1681.50651,267.18287,0.64637,0.42754,70.61217,0.48694,1704.92138,94.32422,11.15991 +"1988","YBR223C",3,106,6,25.4103,0.7481,0.13565,1.0248,2.73878,2350.02358,391.37656,0.91635,0.36644,86.82075,0.57431,2590.40503,362.35368,11.70941 +"1989","YBR223C",15,106,6,18.73805,0.73842,0.13066,0.93309,2.15885,1911.74386,342.68332,0.80415,0.5373,81.02379,0.49605,2248.94039,324.055,10.8263 +"1990","YBR223C",27,106,6,19.67361,0.74967,0.13318,1.11042,2.45505,2096.16016,360.69465,0.82582,0.40347,79.03043,0.54833,2412.97658,273.47692,11.40543 +"1991","YBR223C",39,106,6,16.12284,0.71727,0.12725,0.86232,2.62608,1914.32528,326.90667,0.75374,0.4463,66.94996,0.48111,2138.87247,254.04463,10.68366 +"1992","YBR223C",51,106,6,11.78102,0.75004,0.12661,0.81291,2.1847,1719.35543,260.77473,0.68208,0.47882,48.93896,0.45589,1671.5151,150.23404,9.909 +"1993","YBR223C",63,106,6,10.97068,0.74492,0.12152,0.82415,24.32893,1569.08116,255.09547,0.666,0.35819,48.46979,0.44426,1613.84902,131.098,10.28537 +"1994","YBR223C",75,106,6,12.62194,0.74258,0.12268,0.82157,3.43207,1551.58106,247.30444,0.61963,0.88907,53.22564,0.49612,1588.61307,137.28565,10.2967 +"1995","YBR224W",4,106,6,32.46648,1.12003,0.14895,1.07136,3.41531,2174.17795,410.65686,1.35199,0.52026,17.81397,0.78146,2784.76487,359.11085,11.38758 +"1996","YBR224W",16,106,6,28.83356,1.06407,0.14213,1.04872,4.09118,1959.75596,382.20694,1.22403,0.49046,23.88235,0.74966,2594.24217,293.09292,10.79004 +"1997","YBR224W",28,106,6,30.42608,1.11086,0.14792,1.06085,3.07615,2087.5197,389.40011,1.25418,0.55101,20.50338,0.72204,2575.61865,334.41993,11.0188 +"1998","YBR224W",40,106,6,24.82149,1.07067,0.14135,0.89166,2.33221,1746.77673,323.94241,1.07193,0.48365,21.13599,0.69961,2331.2743,319.8382,10.53683 +"1999","YBR224W",52,106,6,16.52298,1.08513,0.13263,0.8686,1.80353,1533.84877,262.33796,0.94936,0.53036,3.59262,0.65637,1782.5225,121.52725,10.80081 +"2000","YBR224W",64,106,6,18.41803,1.09149,0.13408,0.89771,2.39995,1504.53983,258.43142,0.96894,1.0457,4.2851,0.65302,1749.35974,151.25339,10.48583 +"2001","YBR224W",76,106,6,38.39566,1.06656,0.13465,0.98603,1.89114,1598.53936,304.58705,0.99481,0.51785,27.71658,0.95431,2059.20753,181.3317,11.94596 +"2002","YBR225W",5,106,6,23.77356,0.68758,0.12769,1.0665,3.19052,2281.54684,340.37583,0.85498,0.34908,79.11255,0.44551,2452.57821,343.85657,11.54102 +"2003","YBR225W",17,106,6,19.54608,0.65491,0.1151,0.93147,2.22624,2066.72369,310.7758,0.76176,0.42828,63.91949,0.36876,2230.58064,242.84052,10.9307 +"2004","YBR225W",29,106,6,14.79529,0.67646,0.12011,0.92496,2.05064,1970.12021,286.06247,0.7261,0.32907,61.97769,0.39088,1918.59684,244.98655,10.5778 +"2005","YBR225W",41,106,6,16.08476,0.66973,0.1209,0.96954,2.2809,1820.83212,279.3578,0.71273,0.31194,71.51383,0.40569,1938.43323,256.27071,10.72133 +"2006","YBR225W",53,106,6,12.50186,0.66851,0.11089,1.70496,1.85832,1559.64993,252.53143,0.62719,0.38267,49.41472,0.36736,1717.24737,149.27407,11.31494 +"2007","YBR225W",65,106,6,11.105,0.70077,0.11478,0.8952,2.7711,1696.20622,228.01722,0.6427,0.54973,44.37213,0.35927,1545.33081,126.75681,10.50015 +"2008","YBR225W",77,106,6,14.28256,0.68847,0.11473,0.84254,2.5268,1689.52627,229.2339,0.61202,0.51932,53.97047,0.34595,1525.13874,129.13763,11.66468 +"2009","YBR225W",89,106,6,12.08106,0.68292,0.11367,0.75561,2.23606,1667.76269,208.25283,0.59777,0.40694,36.49031,0.31215,1412.5572,96.11331,10.35993 +"2010","YBR226C",7,106,6,22.9578,0.78983,0.14318,1.06583,2.98307,2146.67034,384.54504,0.81839,0.49194,73.8321,0.57061,2518.6286,319.84148,11.38413 +"2011","YBR226C",19,106,6,24.10135,0.76556,0.13732,1.02666,2.78968,1923.49419,353.04991,0.80347,0.48968,77.72862,0.63876,2231.28303,326.02858,11.27799 +"2012","YBR226C",31,106,6,19.29734,0.76256,0.131,1.25415,2.10414,1852.62423,325.97562,0.7071,0.30047,71.40373,0.7955,2142.34524,236.1356,11.61789 +"2013","YBR226C",43,106,6,17.01663,0.7682,0.12795,1.14131,9.28126,1662.61382,275.10706,0.65149,0.37557,57.07584,0.57488,1786.7255,205.37314,10.54949 +"2014","YBR226C",55,106,6,15.52454,0.76587,0.12877,0.93745,1.77831,1658.73293,326.87715,0.63951,0.38899,62.38168,0.50564,1926.18369,173.14542,10.64381 +"2015","YBR226C",67,106,6,15.98064,0.79109,0.12494,1.07934,2.79479,1481.53141,241.37237,0.57003,0.38763,45.77112,0.52796,1495.76084,134.05929,12.05285 +"2016","YBR226C",79,106,6,14.03553,0.75482,0.12908,0.98896,2.34517,1643.32514,287.2131,0.60284,0.74316,66.99976,0.53506,1872.26483,152.2228,11.02344 +"2017","YBR226C",91,106,6,12.849,0.76118,0.13048,0.85287,1.66613,1583.69705,260.86264,0.58358,0.43054,56.43256,0.47065,1751.95361,100.12886,10.66175 +"2018","YBR227C",8,106,6,28.0911,0.87167,0.1568,1.11605,3.21626,1840.81358,392.61901,0.68679,0.39032,110.05334,0.89225,2566.49688,314.25175,11.63761 +"2019","YBR227C",20,106,6,24.37816,0.89065,0.14822,1.14545,2.93915,2006.79565,413.73184,0.68099,0.33556,128.67763,0.9004,2934.00911,358.12445,11.48589 +"2020","YBR227C",32,106,6,21.53894,0.82629,0.13992,1.23847,2.22415,1502.72205,299.91353,0.51926,0.34318,111.47285,1.17899,2101.30167,319.67166,11.07624 +"2021","YBR227C",44,106,6,20.50705,0.88754,0.1367,1.17581,2.85699,1563.99901,302.36885,0.57263,0.35034,87.06054,0.92758,1911.6545,270.78982,11.132 +"2022","YBR227C",56,106,6,20.21947,0.89463,0.13562,1.01333,2.21081,1485.19812,310.43152,0.52659,0.28378,90.55981,0.84954,1947.28996,212.25292,10.88084 +"2023","YBR227C",68,106,6,12.79562,0.89449,0.13381,0.93112,1.82188,1394.16733,254.68417,0.47046,0.32092,71.37122,0.76973,1588.71751,91.38132,10.95802 +"2024","YBR227C",80,106,6,14.1542,0.89205,0.13765,0.97598,1.96404,1434.80565,285.87802,0.45836,0.34062,84.60024,0.77288,1886.83889,130.7815,11.16065 +"2025","YBR227C",92,106,6,12.07903,0.87702,0.13592,0.89062,1.78478,1376.38613,283.40812,0.43475,0.36251,76.64087,0.80284,1764.40313,112.39831,10.47688 +"2026","YBR228W",9,106,6,19.67373,0.65943,0.129,0.93921,2.6321,2151.96619,332.99935,0.83483,0.47532,108.84044,0.52206,2283.24621,277.05947,10.86435 +"2027","YBR228W",21,106,6,23.14465,0.68443,0.14012,1.07335,3.07319,2270.22334,428.36694,0.91714,0.38362,145.06448,0.6423,2950.8299,389.57008,11.57093 +"2028","YBR228W",33,106,6,20.30578,0.68567,0.13541,1.02695,3.15236,2066.51987,349.1113,0.81558,0.53188,117.63244,0.5759,2303.37887,251.81121,11.01851 +"2029","YBR228W",45,106,6,17.6736,0.68049,0.12833,0.98399,2.42785,1941.06712,345.34516,0.77872,0.43482,85.08428,0.56763,2243.90387,201.8212,11.17806 +"2030","YBR228W",57,106,6,19.03898,0.72444,0.13198,0.97131,3.51358,2008.86503,307.75525,0.80728,0.48269,100.64176,0.553,1953.79729,231.24829,10.85885 +"2031","YBR228W",69,106,6,12.28161,0.66095,0.12325,0.92586,5.18006,1632.7018,253.59058,0.63927,0.35942,82.98993,0.51268,1745.27981,139.73623,10.42913 +"2032","YBR228W",81,106,6,13.07825,0.68364,0.12966,0.92907,2.04709,1700.23364,290.90552,0.67117,0.44616,91.09682,0.52503,1971.6606,149.7089,10.90485 +"2033","YBR228W",93,106,6,10.62915,0.67144,0.12555,0.81641,1.27787,1585.04428,264.38224,0.61314,0.3878,89.5415,0.46846,1735.0561,95.42225,10.16347 +"2034","YBR229C",10,106,6,22.39167,0.68553,0.10659,0.9026,3.15708,1808.83721,288.14924,0.85916,0.3475,50.21818,0.30303,2054.47333,310.40988,11.13025 +"2035","YBR229C",22,106,6,30.34762,0.69365,0.11247,1.03606,3.16157,2015.29174,309.50812,0.93866,0.32154,48.52301,0.34049,2205.12028,280.62326,13.47588 +"2036","YBR229C",34,106,6,23.82202,0.69065,0.11379,1.02468,3.09051,1991.11917,297.24621,0.9085,0.34616,70.39208,0.31654,2036.42521,369.77619,10.89094 +"2037","YBR229C",46,106,6,16.97628,0.69981,0.10268,0.95465,2.09312,1692.90913,231.18423,0.78297,0.3462,37.23486,0.27815,1681.62856,230.77975,10.50149 +"2038","YBR229C",58,106,6,17.79709,0.67001,0.10603,0.90763,2.32928,1494.17116,208.96329,0.72337,0.36227,37.43686,0.29702,1447.04303,181.66749,10.33776 +"2039","YBR229C",70,106,6,16.51085,0.68259,0.10211,0.92348,1.91445,1592.58349,213.66585,0.75826,0.45388,38.41376,0.28822,1519.84356,152.61944,10.09546 +"2040","YBR229C",82,106,6,17.63594,0.7179,0.11216,0.94626,2.67599,1701.85984,245.723,0.78231,0.40932,34.43267,0.28239,1669.89499,155.92402,10.96886 +"2041","YBR229C",94,106,6,14.34838,0.67712,0.10332,0.80924,2.50139,1547.29451,218.73114,0.70242,0.32626,39.38056,0.24401,1519.89718,97.52323,10.37543 +"2042","YBR230C",2,107,6,23.09337,0.79389,0.14758,0.98898,3.24717,2510.79902,460.83844,1.0788,0.2976,119.32223,0.61056,3101.49109,402.39249,11.98597 +"2043","YBR230C",14,107,6,16.28802,0.79731,0.13652,0.94686,3.22605,2101.85768,382.57876,0.92775,0.3767,80.09376,0.56631,2381.96484,354.06078,11.01546 +"2044","YBR230C",26,107,6,11.75746,0.77196,0.13082,0.92016,1.25094,2002.66296,348.38626,0.84678,0.44056,77.16676,0.47479,2356.43166,226.22073,11.14474 +"2045","YBR230C",38,107,6,17.00608,0.7871,0.13426,0.89077,2.55282,1821.17307,331.01941,0.80971,0.31597,80.09723,0.59937,2259.86214,263.4427,13.20959 +"2046","YBR230C",50,107,6,9.4605,0.78924,0.12686,0.78429,1.45116,1790.02646,303.23473,0.7866,0.31581,53.0962,0.44111,1852.33515,160.20635,10.08814 +"2047","YBR230C",62,107,6,5.42377,0.79102,0.12838,0.8377,1.35951,1522.75267,262.20111,0.69365,0.35234,66.22566,0.51155,1676.96966,169.79678,10.169 +"2048","YBR230C",74,107,6,10.09478,0.8151,0.13192,0.9534,1.92913,1790.58002,279.86543,0.8061,0.34366,53.59509,0.47402,1837.32452,149.97135,10.72029 +"2049","YBR230C",86,107,6,9.06524,0.8301,0.13317,0.86821,1.56651,1671.61558,281.06284,0.74807,0.37834,60.74786,0.46821,1921.15578,129.6626,10.81532 +"2050","YBR231C",3,107,6,25.29295,0.77922,0.12986,0.91333,3.05522,2504.27268,538.76981,0.77461,0.35828,185.81299,0.50073,3338.74402,391.83137,12.52432 +"2051","YBR231C",15,107,6,18.7996,0.76123,0.13114,0.9041,2.7274,2262.31891,410.61149,0.68957,0.29241,157.06518,0.44216,2726.41875,317.46525,11.97525 +"2052","YBR231C",27,107,6,17.35506,0.77774,0.1313,0.87238,3.2307,2315.89246,465.61542,0.70517,0.32634,140.04283,0.44771,2863.42402,284.87144,11.57535 +"2053","YBR231C",39,107,6,20.29154,0.77863,0.13208,0.91987,3.25807,2276.74842,460.94355,0.69778,0.35461,138.17293,0.50906,2834.64272,271.7954,12.81076 +"2054","YBR231C",51,107,6,14.29254,0.80617,0.1233,0.77806,1.99729,1939.2501,357.72964,0.5873,0.3402,98.18412,0.43126,2123.40988,189.67825,11.64575 +"2055","YBR231C",63,107,6,12.304,0.8264,0.13169,0.86368,1.58326,2003.97456,379.31174,0.60576,0.41538,108.80266,0.45079,2439.66116,155.37962,11.85751 +"2056","YBR231C",75,107,6,14.17018,0.78238,0.11979,0.78015,2.48321,2020.9482,321.19747,0.59562,0.58184,93.93098,0.39546,2142.60883,142.79492,11.44159 +"2057","YBR231C",87,107,6,11.91997,0.85406,0.13299,0.7673,1.22594,1977.75387,355.61444,0.60644,0.3473,92.34625,0.71146,2176.16469,110.71278,12.45608 +"2058","YBR233W",4,107,6,21.19022,0.73952,0.13555,1.06867,3.3035,2555.16764,435.33195,0.95968,0.30985,94.44143,0.53379,2880.13139,361.39004,12.06623 +"2059","YBR233W",16,107,6,14.68978,0.74797,0.12948,0.97215,2.47634,2211.86689,353.86252,0.8519,0.33309,75.0126,0.4849,2392.75264,305.89167,11.3271 +"2060","YBR233W",28,107,6,12.97687,0.73987,0.13512,0.96766,2.12043,2193.56848,342.28615,0.82914,0.33153,90.17788,0.49813,2437.32708,285.15455,11.0609 +"2061","YBR233W",40,107,6,12.84627,0.72325,0.12627,0.91485,2.48964,2074.54046,327.57176,0.76564,0.37071,69.72516,0.46038,2158.55495,255.05598,10.92034 +"2062","YBR233W",52,107,6,8.67464,0.72203,0.11916,0.8123,2.71124,1713.07304,264.90004,0.66717,0.41572,61.45449,0.42785,1812.04808,167.60829,10.70089 +"2063","YBR233W",64,107,6,6.92875,0.75968,0.11948,0.89299,1.39605,1786.06156,262.58613,0.68007,0.31953,48.02536,0.41913,1748.12925,134.02092,10.73706 +"2064","YBR233W",76,107,6,5.6044,0.7496,0.11987,0.84476,1.87328,1867.5088,248.06989,0.69471,0.45556,42.24847,0.38978,1744.4538,128.53153,10.27189 +"2065","YBR233W",88,107,6,4.6046,0.74102,0.12003,0.83467,1.59201,1761.53328,234.78991,0.64947,0.43457,35.87618,0.37721,1590.21369,81.99073,10.91578 +"2066","YBR235W",5,107,6,27.87056,0.71527,0.12855,0.97337,3.53904,3142.11638,378.42774,0.9273,0.29226,116.10303,0.59852,3045.55934,315.72122,12.25056 +"2067","YBR235W",17,107,6,24.05348,0.68775,0.12896,0.95808,8.29015,3203.0468,382.39136,0.9793,0.28883,105.72511,0.50164,3066.67815,329.67549,11.58547 +"2068","YBR235W",29,107,6,13.34329,0.68062,0.1154,0.80502,1.33949,2643.70401,300.75591,0.78568,0.27442,94.45531,0.42262,2415.40962,249.66274,9.98129 +"2069","YBR235W",41,107,6,15.67675,0.69386,0.12659,0.87236,9.04082,2790.3536,327.66811,0.82343,0.32513,97.2843,0.49982,2521.561,261.61327,10.51208 +"2070","YBR235W",53,107,6,11.93912,0.714,0.11691,0.86524,1.5091,2442.93138,288.16843,0.7174,0.33789,87.29645,0.43675,2112.11451,199.48245,10.71627 +"2071","YBR235W",65,107,6,4.60766,0.70142,0.11083,0.70282,0.34111,2272.82668,250.4784,0.62498,0.29379,63.04751,0.34195,1937.71978,60.14905,9.61569 +"2072","YBR235W",77,107,6,9.73878,0.72577,0.12531,0.83724,1.78371,2432.33495,265.73802,0.74044,0.33524,63.14175,0.41001,2181.08643,122.83462,10.43681 +"2073","YBR235W",89,107,6,8.93049,0.7533,0.12466,0.79276,2.13582,2380.20508,240.19235,0.70841,0.42191,61.88637,0.37747,1933.19113,125.37382,10.42921 +"2074","YBR238C",7,107,6,18.94424,0.66574,0.12915,1.07478,7.94952,2366.18239,398.22128,0.93396,0.58086,139.98633,0.48172,2889.04686,423.35373,12.88461 +"2075","YBR238C",19,107,6,12.54453,0.65242,0.11714,0.86233,2.5862,1803.02428,294.24759,0.73785,0.35225,70.88979,0.39912,1870.50211,302.62305,10.84638 +"2076","YBR238C",31,107,6,14.61874,0.65239,0.11823,1.00298,3.89694,2008.80938,313.38565,0.78503,0.41924,81.16198,0.42663,1955.9975,281.20971,11.93572 +"2077","YBR238C",43,107,6,12.66379,0.64075,0.11621,0.92208,3.57858,1805.96074,278.93966,0.72284,0.3803,70.09705,0.34713,1930.27556,226.77854,11.4516 +"2078","YBR238C",55,107,6,6.74893,0.65681,0.10922,0.89868,2.3888,1853.63248,270.87114,0.72584,0.3713,71.39268,0.34235,1779.41526,213.45131,10.81859 +"2079","YBR238C",67,107,6,13.549,0.64406,0.11733,1.28487,4.51979,1764.34957,251.45322,0.71455,0.79085,74.91603,0.35325,1807.39033,160.12854,11.7569 +"2080","YBR238C",79,107,6,11.07438,0.67484,0.12235,1.02241,3.19596,2014.22825,290.38438,0.75682,0.4854,73.90334,0.38385,1969.71297,180.6296,12.43599 +"2081","YBR238C",91,107,6,8.85417,0.65435,0.10981,0.8427,2.12826,1806.6088,245.37125,0.67755,0.50957,52.44342,0.31724,1722.57334,104.69302,12.78371 +"2082","YBR239C",8,107,6,20.71728,0.7796,0.14255,0.99637,3.98308,2117.55995,397.5737,0.83385,0.38466,100.79775,0.59385,2697.26209,298.2103,12.32863 +"2083","YBR239C",20,107,6,17.07494,0.79266,0.13733,1.0037,3.41814,2081.492,410.6922,0.82373,0.34034,90.25441,0.53639,2664.68808,310.5344,11.35627 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+"2686","YDL227C",6,100,4,49.59243,0.70558,0.13563,1.32919,4.74125,2426.28873,429.44154,1.16213,0.53018,181.23741,0.68121,2844.37303,453.1281,14.37933 +"2687","YDL227C",13,100,4,48.27406,0.74492,0.14763,1.53722,7.28611,2587.13666,418.64971,1.24042,0.66448,169.15407,0.75481,2911.93909,542.74309,15.04336 +"2688","YDL227C",18,100,4,48.56144,0.73238,0.14319,1.36848,23.94141,2418.6898,378.13265,1.25249,0.66036,154.72252,0.68144,2691.5645,530.25514,14.86291 +"2689","YDL227C",25,100,4,43.50996,0.73922,0.1413,1.34864,5.16144,2403.28493,390.04452,1.13301,0.59028,171.47171,0.62404,2794.65091,484.90991,13.93287 +"2690","YDL227C",30,100,4,48.29275,0.75241,0.14174,1.36916,6.26922,2392.27873,390.17203,1.14754,0.63496,162.48806,0.75259,2746.81631,484.76475,15.03627 +"2691","YDL227C",37,100,4,42.38978,0.82615,0.15072,1.56663,6.43387,2420.41224,355.52571,1.16827,0.92562,140.85715,2.2206,2603.49747,444.01595,15.59392 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+"2710","YDL227C",54,101,4,33.5898,0.85755,0.15075,1.42368,5.32345,2084.2401,319.78616,1.10688,0.65462,139.79053,0.80269,2347.28955,392.77795,14.81041 +"2711","YDL227C",61,101,4,36.39418,0.7232,0.12201,1.23614,4.71863,1765.41248,242.68191,0.89798,0.57706,101.92729,0.62053,1831.55978,305.25099,12.54045 +"2712","YDL227C",66,101,4,34.8478,0.75456,0.13378,1.3264,5.58562,1995.64184,328.19447,1.0201,0.78649,138.25184,0.68564,2460.91356,413.99097,13.48347 +"2713","YDL227C",73,101,4,35.23483,0.76195,0.12399,1.31482,4.01807,1708.39889,235.4912,0.89496,0.54342,103.2074,0.74897,1741.88193,275.11506,13.05077 +"2714","YDL227C",78,101,4,36.20316,0.79202,0.13348,1.35172,5.99011,1838.02338,280.08301,0.97047,0.59767,121.32993,0.66959,2161.05675,354.26102,14.09438 +"2715","YDL227C",85,101,4,35.09352,0.78723,0.12379,1.36405,5.45051,1558.28677,204.27089,0.84742,0.57603,87.5884,0.78,1593.2678,229.22968,13.04576 +"2716","YDL227C",90,101,4,32.02039,0.76182,0.1153,1.17275,4.27074,1480.41396,184.47115,0.79995,0.77605,76.94119,0.55308,1438.82803,185.7596,13.48747 +"2717","YDL227C",1,102,4,51.20374,0.46795,0.08995,0.93543,3.10155,1771.32161,341.84782,0.85975,0.34701,157.73028,0.44867,2212.26659,334.72822,9.99765 +"2718","YDL227C",6,102,4,115.71571,0.73131,0.1475,2.82276,5.59828,2741.59734,454.71711,1.4806,0.46392,193.59054,2.06926,2964.11545,485.47474,18.87829 +"2719","YDL227C",13,102,4,49.11476,0.70346,0.13727,1.35068,5.15619,2568.50357,428.09275,1.20397,0.52573,179.40789,0.59924,3005.18346,560.71585,13.95211 +"2720","YDL227C",18,102,4,65.20212,0.73203,0.13512,1.74814,5.32724,2260.98378,357.23621,1.11134,0.52823,146.95126,0.84886,2534.50106,491.51521,14.95996 +"2721","YDL227C",25,102,4,48.06146,0.70796,0.13328,1.23516,5.0529,2351.12999,392.91014,1.15081,0.51912,157.75348,0.5781,2745.24968,477.88581,13.71789 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+"2728","YDL227C",66,102,4,41.46089,0.74587,0.12609,1.37055,3.98489,1741.34262,238.15718,0.90867,0.48779,102.32806,0.60303,1833.11666,312.90399,13.10675 +"2729","YDL227C",73,102,4,37.06074,0.76089,0.12018,1.43879,3.82365,1729.72691,223.33464,0.92509,0.52411,98.50779,0.4955,1714.87566,295.49258,13.25818 +"2730","YDL227C",78,102,4,30.20401,0.73277,0.11452,1.27858,4.13689,1535.74919,204.05629,0.82274,0.52806,83.57978,0.5109,1534.02357,239.7684,12.15413 +"2731","YDL227C",85,102,4,44.94697,0.72927,0.11505,1.35792,4.01752,1286.79225,171.4375,0.80656,0.58294,79.39036,0.59687,1259.55936,181.8176,12.7325 +"2732","YDL227C",90,102,4,35.82569,0.78843,0.12146,1.35318,7.01722,1499.8977,173.40905,0.84673,1.18895,77.27285,0.57594,1335.66985,207.30924,13.45248 +"2733","YDL227C",1,103,5,61.58806,0.8245,0.15996,1.55972,2.88417,2738.11756,527.09534,1.34452,0.89187,235.8102,0.6526,3552.85543,473.47853,21.41252 +"2734","YDL227C",6,103,5,34.01275,0.84597,0.16684,1.4996,3.19019,2985.24842,605.34846,1.42826,0.6652,245.89225,0.89017,4061.69181,462.98456,17.94772 +"2735","YDL227C",13,103,5,23.142,0.804,0.15738,1.50398,2.01187,2454.69429,471.40272,1.2264,0.62006,207.76246,0.67363,3280.85723,354.21049,15.6605 +"2736","YDL227C",18,103,5,23.14921,0.84737,0.16787,1.49857,3.30135,2809.3566,549.77776,1.3783,0.62394,227.13057,0.71778,3777.75825,408.73067,16.61635 +"2737","YDL227C",25,103,5,22.80089,0.80485,0.15811,1.46449,2.44971,2561.19072,483.08605,1.23757,0.71525,226.44401,0.69031,3360.14103,356.12346,15.20062 +"2738","YDL227C",30,103,5,20.23299,0.84382,0.16193,1.47075,3.7694,2768.36759,479.70973,1.33342,0.77202,195.37377,0.69211,3308.30095,347.61685,15.73301 +"2739","YDL227C",37,103,5,25.47472,0.87026,0.16362,1.56646,2.57181,2533.12085,458.7085,1.26573,0.51147,203.25796,0.71921,3151.50227,335.28628,16.19195 +"2740","YDL227C",42,103,5,19.21321,0.83932,0.15719,1.42847,3.29002,2451.13399,403.53048,1.19054,0.6361,174.27959,0.7415,2967.33032,297.57986,15.19581 +"2741","YDL227C",49,103,5,25.88321,0.93388,0.16871,1.62252,4.35041,2704.22667,468.17249,1.30585,0.60294,189.07245,0.74958,3204.46136,396.80353,16.96249 +"2742","YDL227C",54,103,5,14.1343,0.8644,0.15368,1.35454,4.69175,2085.80815,320.5872,1.13026,1.75462,134.88616,0.60441,2291.01345,234.11763,15.61013 +"2743","YDL227C",61,103,5,41.43874,0.91007,0.16661,1.64747,3.64654,2404.59499,389.15466,1.23779,0.87492,173.51033,0.74029,2772.43861,295.81778,17.36965 +"2744","YDL227C",66,103,5,19.45016,0.88038,0.15787,1.48311,4.19104,2488.50578,382.01172,1.23112,0.80848,163.73047,0.69901,2650.4898,270.93799,16.42738 +"2745","YDL227C",73,103,5,11.0052,0.86763,0.14402,2.65084,4.04555,2142.55698,295.54521,1.10857,0.6037,119.11305,0.61096,2117.49474,139.70498,15.32242 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+"2752","YDL227C",18,104,5,19.9529,0.86376,0.1621,1.50647,2.20658,2840.55452,521.64827,1.34891,0.46463,195.13647,0.6726,3568.58715,320.40355,16.47031 +"2753","YDL227C",25,104,5,25.21995,0.9165,0.17152,1.51489,2.61655,2955.34535,519.26551,1.38462,0.55898,218.18996,0.676,3657.2668,428.22074,16.72558 +"2754","YDL227C",30,104,5,28.158,0.89584,0.1696,1.45172,2.308,2826.28993,490.80098,1.35634,0.47374,199.33483,0.72245,3409.75187,379.06394,18.07432 +"2755","YDL227C",37,104,5,21.79819,0.87793,0.16299,1.41851,2.28285,2536.52271,423.60013,1.28677,0.53518,171.35725,0.61712,2921.10234,336.68772,15.64203 +"2756","YDL227C",42,104,5,21.14663,0.91825,0.16674,1.53539,2.94416,2747.14722,435.85039,1.37422,0.55505,172.84672,0.7159,3087.25133,315.69654,17.85299 +"2757","YDL227C",49,104,5,22.12405,0.89573,0.16218,1.4415,2.02528,2527.53585,419.50781,1.24571,0.55705,183.93359,0.67116,2992.58136,288.66661,15.51116 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+"2764","YDL227C",90,104,5,26.12387,0.92497,0.1499,1.4018,21.74658,2155.92155,269.55438,1.12609,0.49473,99.93977,3.37396,1978.89268,186.6749,15.70186 +"2765","YDL227C",1,105,5,39.32982,0.90265,0.1784,1.47822,1.78153,2960.19064,600.88989,1.47798,0.50254,278.57416,0.74949,4044.03211,564.07008,17.98806 +"2766","YDL227C",6,105,5,19.20766,0.83238,0.1646,1.36237,2.17169,2594.70058,536.95347,1.27367,0.6845,219.49512,0.66267,3568.44698,395.64906,16.26617 +"2767","YDL227C",13,105,5,23.52398,0.89726,0.17456,1.38822,1.77826,3026.98797,548.68613,1.41649,0.4845,221.28794,0.62919,3724.78808,422.00173,16.89055 +"2768","YDL227C",18,105,5,11.92778,0.87836,0.16362,1.39209,6.45659,2588.40269,480.48849,1.27068,0.59144,191.5286,0.62853,3269.32381,323.70701,15.15465 +"2769","YDL227C",25,105,5,21.48032,0.88391,0.16378,1.36501,1.86452,2777.22994,528.08955,1.35994,0.4881,214.29401,0.62781,3719.86492,355.69006,16.14078 +"2770","YDL227C",30,105,5,17.55405,0.84589,0.16202,1.37634,4.22405,2621.85753,487.7974,1.26584,0.59545,180.45014,0.668,3354.573,382.13807,15.33522 +"2771","YDL227C",37,105,5,20.33589,0.87771,0.16587,1.38096,3.16372,2510.48328,450.00947,1.28304,0.93032,173.07107,0.65001,3135.51479,311.74448,17.14191 +"2772","YDL227C",42,105,5,14.69676,0.88049,0.16032,1.42964,2.09999,2576.80499,443.32042,1.26477,0.51578,170.61144,0.6386,3104.48513,314.22658,15.38167 +"2773","YDL227C",49,105,5,21.95913,0.93287,0.16877,1.50568,4.37877,2840.12379,460.89517,1.39848,1.03739,171.53687,0.66464,3179.17462,338.54142,17.61587 +"2774","YDL227C",54,105,5,15.98743,0.93972,0.1647,1.47584,3.9531,2636.34975,422.13315,1.26994,0.93946,160.12845,0.68972,3047.65826,296.2751,16.16874 +"2775","YDL227C",61,105,5,23.21821,0.96801,0.1695,1.53432,10.20646,2978.70043,481.35564,1.43382,0.63975,168.89933,0.68619,3364.65653,343.65851,18.8164 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+"2782","YDL227C",6,106,6,30.01614,0.68869,0.13183,1.22607,2.93999,2045.20691,390.09337,0.91178,0.42067,146.60668,0.50393,2676.31519,328.23807,12.5281 +"2783","YDL227C",13,106,6,29.55516,0.69686,0.1299,1.30227,2.70849,2042.36363,373.69458,0.92157,0.53934,143.82343,0.44418,2580.903,314.2419,11.92665 +"2784","YDL227C",18,106,6,26.38406,0.65632,0.11818,1.07717,2.35391,1968.18743,373.44778,0.83844,0.47367,132.4838,0.488,2399.70295,294.04958,11.93646 +"2785","YDL227C",25,106,6,30.02227,0.67127,0.11837,1.20219,2.3635,1849.60382,355.18444,0.85093,0.42943,132.82912,0.40685,2334.03064,281.47284,13.26112 +"2786","YDL227C",30,106,6,23.79866,0.64616,0.11695,1.44038,1.79993,1780.01606,341.40634,0.80253,0.39512,117.87278,0.45898,2149.43507,248.02572,11.97723 +"2787","YDL227C",37,106,6,26.44933,0.67627,0.11915,1.1445,2.61872,1830.70982,326.19946,0.83406,0.40551,119.93377,0.44635,2169.30718,285.86023,11.48393 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+"2794","YDL227C",78,106,6,18.70657,0.67031,0.11174,1.92287,2.0963,1610.554,275.61319,0.73208,1.08342,81.69666,0.46183,1753.06086,99.4143,13.88892 +"2795","YDL227C",85,106,6,34.50052,0.6655,0.11568,0.97453,3.88781,1545.52091,257.75626,0.73221,0.65527,85.19294,0.40282,1767.77062,122.71001,12.60171 +"2796","YDL227C",90,106,6,20.35374,0.66613,0.10991,0.88567,1.502,1441.81565,264.75095,0.67977,0.43534,76.35861,0.31475,1693.46774,61.27353,12.21695 +"2797","YDL227C",1,107,6,30.53368,0.6694,0.13697,1.1469,2.99604,2362.17635,516.96965,1.08036,0.35538,205.28387,0.52917,3381.27087,435.70752,12.96626 +"2798","YDL227C",6,107,6,29.18733,0.69895,0.13331,1.10551,3.35955,2232.62448,445.27086,0.97561,0.38121,172.8984,0.57219,2998.9408,388.24397,13.93365 +"2799","YDL227C",13,107,6,18.64256,0.65213,0.12481,0.99948,2.55098,1877.26689,398.14952,0.8805,0.32923,161.34295,0.41088,2621.70296,314.55927,11.43845 +"2800","YDL227C",18,107,6,21.03041,0.69265,0.1221,1.00109,2.21146,1915.94755,383.2751,0.88233,0.33538,132.30673,0.44176,2442.30708,287.59542,12.49663 +"2801","YDL227C",25,107,6,17.57012,0.62999,0.11353,0.85016,1.78045,1874.73721,382.80067,0.83624,0.53419,141.67302,0.42771,2364.78712,286.65729,11.54534 +"2802","YDL227C",30,107,6,16.43519,0.66737,0.11842,0.93819,1.80094,1739.08323,323.69922,0.78278,0.35878,113.97117,0.38028,2047.18928,305.40324,11.39036 +"2803","YDL227C",37,107,6,20.58027,0.70674,0.1308,0.98986,2.17317,1928.54643,368.41544,0.89656,0.33458,138.31365,0.54737,2440.33441,328.12255,13.37889 +"2804","YDL227C",42,107,6,19.29621,0.74299,0.12998,1.05921,2.41348,2009.0142,375.86427,0.88304,0.45843,128.46023,0.44661,2432.34574,297.51264,12.71656 +"2805","YDL227C",49,107,6,13.60069,0.70934,0.12062,0.98226,1.60277,1767.75761,295.93595,0.7998,0.3827,103.39655,0.56907,1926.61151,191.25871,12.0954 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+"2812","YDL227C",90,107,6,8.47246,0.69242,0.11494,0.84479,1.46865,1575.21235,249.86712,0.68566,0.40395,69.25305,0.32388,1565.83618,61.76738,11.41069 +"2813","YDL227C",1,108,6,27.60541,0.6686,0.12527,1.07576,3.56744,2176.99988,425.65023,0.99715,0.38172,156.98358,0.5049,2885.09232,391.0294,12.34885 +"2814","YDL227C",6,108,6,27.50003,0.66984,0.12779,1.06785,1.80925,1966.06834,390.05906,0.87202,0.32954,144.34453,0.41132,2457.52557,326.65703,13.1324 +"2815","YDL227C",13,108,6,21.93033,0.65553,0.12597,1.03924,2.34036,1832.76008,389.76702,0.89032,0.38663,144.08864,0.46557,2459.22103,329.77427,11.8484 +"2816","YDL227C",18,108,6,21.84928,0.70508,0.1318,0.94698,2.41566,1906.58357,402.5916,0.87923,0.43706,147.49516,0.44149,2665.66189,331.60097,13.75332 +"2817","YDL227C",25,108,6,23.83581,0.65399,0.12065,0.90825,2.31407,1716.24447,327.35549,0.82634,0.44297,144.88225,0.4372,2164.05451,300.38398,11.33598 +"2818","YDL227C",30,108,6,17.98714,0.66644,0.12409,0.87082,2.13643,1808.95033,359.86239,0.84564,0.50119,123.12458,0.40611,2359.5628,269.57551,13.33674 +"2819","YDL227C",37,108,6,22.12361,0.69481,0.12525,0.93585,2.21526,1815.88688,334.16209,0.87728,0.39182,122.06307,0.39113,2165.65249,275.12998,12.00375 +"2820","YDL227C",42,108,6,15.75431,0.66879,0.11821,0.8579,2.12542,1575.95518,345.21208,0.76998,0.552,99.58875,0.41914,1973.99591,246.63351,11.58332 +"2821","YDL227C",49,108,6,16.14023,0.66415,0.11352,0.78952,2.19869,1487.5676,289.18651,0.7329,0.45842,108.95246,0.35112,1882.46582,195.55191,10.37178 +"2822","YDL227C",54,108,6,10.8931,0.68413,0.12092,0.79328,1.51719,1526.04892,280.08235,0.70846,0.39341,92.30813,0.34718,1813.02276,187.20624,11.42011 +"2823","YDL227C",61,108,6,24.4742,0.66858,0.11051,0.80842,3.35036,1487.91912,258.60481,0.7268,0.42722,94.73429,0.3618,1748.82204,191.55912,10.5935 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+"2830","YDL227C",6,109,7,40.13948,0.79199,0.15294,1.50622,2.86218,2328.78064,532.27802,1.15414,0.47291,211.42674,0.72599,3287.14564,476.13272,17.64315 +"2831","YDL227C",13,109,7,36.59757,0.81792,0.1569,1.62642,3.50042,2147.26838,446.38526,1.09955,0.49367,213.03522,0.7912,2892.73718,465.14441,16.63652 +"2832","YDL227C",18,109,7,47.60864,0.84083,0.16868,1.60689,4.33956,2501.73903,596.71897,1.21194,0.59081,258.34844,0.79887,4027.32854,589.30119,19.3072 +"2833","YDL227C",25,109,7,33.73821,0.78054,0.15342,1.40571,3.57332,2122.83014,481.27432,1.09254,0.96249,204.09718,0.74148,3057.80005,459.63563,15.10465 +"2834","YDL227C",30,109,7,53.61171,0.80726,0.16441,1.56445,4.91982,2261.10421,431.82539,1.14216,0.6426,192.45231,0.79681,2812.4408,431.65566,18.28998 +"2835","YDL227C",37,109,7,37.39905,0.8208,0.16337,1.5655,3.86106,2192.64338,447.77606,1.13433,0.49418,197.30738,0.75513,2990.88202,445.94371,16.89249 +"2836","YDL227C",42,109,7,39.82491,0.78939,0.15135,1.50109,3.82735,2055.16293,410.59849,1.06467,0.45851,171.91847,0.75369,2648.00846,397.92726,18.64982 +"2837","YDL227C",49,109,7,34.09711,0.81634,0.15875,1.37687,3.47519,2002.31657,421.96335,1.05066,0.50513,193.43851,0.73318,2755.89984,405.27802,15.80276 +"2838","YDL227C",54,109,7,37.48693,0.82775,0.16144,1.50496,3.3903,2052.94812,389.21231,1.06459,0.49549,165.93635,0.7495,2532.20329,362.28496,18.81042 +"2839","YDL227C",61,109,7,43.78928,0.90328,0.18038,1.57229,4.50347,2624.50742,572.27955,1.27648,0.44784,248.90425,0.85684,3749.73639,605.54893,18.8049 +"2840","YDL227C",66,109,7,59.27052,0.80442,0.16643,1.5789,4.3044,2270.71169,458.86607,1.1435,0.59558,188.25473,0.80682,2879.00832,388.31879,21.59488 +"2841","YDL227C",73,109,7,64.90008,0.9589,0.18957,1.69918,5.74065,2964.08997,724.42073,1.41358,0.58513,322.08494,0.97527,4541.05881,767.53844,23.62677 +"2842","YDL227C",78,109,7,51.77944,0.82421,0.16268,1.48538,3.6161,2353.33845,456.80433,1.161,0.52358,189.1056,0.96788,2872.73973,458.52081,17.96686 +"2843","YDL227C",85,109,7,42.85014,0.87231,0.1719,1.56693,6.23719,2532.49248,455.76337,1.26209,0.73245,184.26261,0.87993,3016.28669,483.75227,18.50176 +"2844","YDL227C",90,109,7,41.76436,0.80879,0.16878,1.45058,5.28817,2306.23521,444.98382,1.15949,0.71051,185.53324,0.75172,2940.48689,455.42667,18.50964 +"2845","YDL227C",1,110,7,39.19981,0.78526,0.15845,1.43781,4.64914,2320.2748,556.08408,1.16649,0.89537,259.22667,0.76691,3509.76551,506.41947,17.38461 +"2846","YDL227C",6,110,7,42.11859,0.76317,0.14878,1.547,5.24777,2216.04714,495.79645,1.09544,0.70464,204.31803,0.73968,3200.98249,427.03234,21.8077 +"2847","YDL227C",13,110,7,42.21056,0.78399,0.15907,1.55361,3.60662,2164.31989,486.52122,1.15252,0.44449,210.00539,0.74344,3111.55119,434.5548,21.02897 +"2848","YDL227C",18,110,7,41.09967,0.89081,0.17565,1.66667,3.99106,2838.81427,688.65041,1.31728,0.54007,294.40613,0.86489,4514.87835,683.9928,20.9277 +"2849","YDL227C",25,110,7,67.61906,0.88719,0.18497,1.69772,5.36385,2710.28026,624.10238,1.36437,0.53774,273.38965,0.94627,3969.15279,613.6553,28.90456 +"2850","YDL227C",30,110,7,40.53937,0.84917,0.16938,1.60973,5.76825,2675.84916,581.02481,1.25645,0.92917,243.83535,0.88728,3914.60243,600.32264,18.74606 +"2851","YDL227C",37,110,7,39.30833,0.78272,0.1614,1.3662,4.2522,2107.76309,432.81141,1.09852,0.54564,181.7748,0.74029,2717.25211,378.24149,19.45777 +"2852","YDL227C",42,110,7,37.24048,0.87193,0.17628,1.7323,3.94228,2539.08076,521.76254,1.53671,0.46946,203.65519,0.81494,3314.83844,496.01476,17.98149 +"2853","YDL227C",49,110,7,35.46303,0.87914,0.17547,1.4909,3.40067,2410.4356,496.24002,1.21051,0.50361,207.3658,0.87365,3274.87715,443.61903,17.78644 +"2854","YDL227C",54,110,7,42.4634,0.82187,0.16149,1.49578,6.30725,2086.80189,441.10117,1.11329,0.89962,172.31978,0.77005,2784.58773,392.63624,17.25383 +"2855","YDL227C",61,110,7,36.04568,0.83298,0.16587,1.45516,4.78701,2283.09964,457.79794,1.14043,0.55872,193.2098,0.80051,2891.55937,414.21142,17.18815 +"2856","YDL227C",66,110,7,40.96845,0.84979,0.17548,1.60224,4.96034,2401.35328,538.16121,1.15949,0.76143,218.29029,0.83338,3498.88836,472.91427,18.71357 +"2857","YDL227C",73,110,7,103.59123,0.88864,0.18704,1.68427,5.38358,2700.88796,630.65941,1.44117,0.74283,269.95096,1.09903,4064.86214,589.37962,35.37293 +"2858","YDL227C",78,110,7,39.329,0.84079,0.16715,1.53722,5.26496,2384.77645,477.5718,1.14318,0.68307,197.50962,0.80914,3163.76283,453.91952,17.96007 +"2859","YDL227C",85,110,7,75.57357,0.93335,0.18037,1.73126,6.8166,2826.1103,661.45763,1.43324,0.62182,261.89145,0.94422,4207.24765,629.57582,28.64901 +"2860","YDL227C",90,110,7,56.16862,0.82898,0.16447,1.50593,4.17263,2361.24772,497.69309,1.17053,0.49135,196.93948,0.82744,3117.91727,499.36977,23.58383 +"2861","YDL227C",1,111,7,46.99408,0.77426,0.15346,1.4972,16.88329,2498.78846,525.96326,1.23455,0.5355,220.98129,0.77935,3392.43654,507.84028,18.83599 +"2862","YDL227C",6,111,7,38.96231,0.83674,0.15849,1.48825,3.01054,2367.69763,481.69024,1.16981,0.49532,198.9182,0.69461,3012.32402,463.48802,18.76386 +"2863","YDL227C",13,111,7,39.07299,0.76424,0.14711,2.63857,3.10287,2140.58756,439.95915,1.1461,0.5102,196.62153,0.71183,2859.88233,434.99187,18.11579 +"2864","YDL227C",18,111,7,42.07344,0.8118,0.16304,1.51874,8.23629,2491.64031,573.74217,1.2396,0.47568,247.33059,2.5881,3675.71986,588.61588,19.15026 +"2865","YDL227C",25,111,7,48.40054,0.85632,0.1657,1.52669,4.38023,2727.65556,589.20266,1.49658,0.57776,250.41986,0.91367,3932.67453,644.80495,20.41638 +"2866","YDL227C",30,111,7,34.93762,0.77599,0.15602,1.45683,3.84526,2244.80899,441.44101,1.13014,0.49357,186.07464,0.68092,2949.96379,382.92799,17.30916 +"2867","YDL227C",37,111,7,35.99852,0.7401,0.1487,1.39952,4.49352,1993.45238,382.70097,1.22613,0.64122,184.60214,0.76319,2581.3324,428.14717,16.67393 +"2868","YDL227C",42,111,7,37.6317,0.76915,0.14728,1.34155,2.93841,2004.10865,382.97022,1.0604,0.48091,166.40478,0.65403,2583.53519,413.58989,18.01448 +"2869","YDL227C",49,111,7,35.15093,0.77891,0.1518,1.33116,3.98559,1998.69984,378.71834,1.04521,0.6432,163.14479,0.75048,2492.20694,344.30364,17.17445 +"2870","YDL227C",54,111,7,39.93899,0.77348,0.15426,1.37663,2.93545,2059.91747,423.37032,1.08337,0.48148,184.88125,0.70781,2763.16242,396.83716,21.31008 +"2871","YDL227C",61,111,7,33.7578,0.76802,0.15639,1.41111,6.04602,2167.21291,452.46765,1.13117,1.15472,184.81923,0.76244,2840.18121,437.26721,16.82081 +"2872","YDL227C",66,111,7,38.12217,0.83113,0.16596,1.52912,25.17782,2389.41283,534.38258,1.19072,1.25665,220.38806,1.36201,3508.9637,539.86305,19.07789 +"2873","YDL227C",73,111,7,32.95967,0.78196,0.15599,1.42396,4.57781,2164.97479,442.83745,1.09779,0.61938,202.65695,0.78234,2902.86348,428.79589,15.71522 +"2874","YDL227C",78,111,7,32.64775,0.76728,0.15379,1.35126,4.72654,2125.15882,422.91169,1.08323,0.53327,169.90081,0.72267,2678.80874,383.02769,17.18737 +"2875","YDL227C",85,111,7,40.52839,0.78935,0.15488,1.3858,4.88387,2149.53297,421.61527,1.1254,0.59423,185.7871,0.88839,2701.65983,452.78451,17.38387 +"2876","YDL227C",90,111,7,34.94001,0.78822,0.1585,1.39208,6.03565,2239.56924,500.91724,1.13258,0.56738,204.23072,0.79064,3309.77961,537.76156,17.38583 +"2877","YDL227C",1,112,8,79.95928,0.59866,0.164,1.6496,11.05948,2501.12923,431.14849,1.22644,0.56977,167.7756,1.6326,3071.1617,441.68163,19.0199 +"2878","YDL227C",6,112,8,49.43739,0.58717,0.1637,1.78979,7.17545,2308.10074,381.09735,1.11698,0.59491,155.59162,1.49143,2793.57173,395.24476,16.8355 +"2879","YDL227C",13,112,8,50.12198,0.59938,0.1663,1.5158,7.30983,2283.13691,391.83555,1.09457,0.44996,158.98003,1.56778,2928.30262,395.16298,17.36013 +"2880","YDL227C",18,112,8,43.14854,0.58473,0.15916,1.47135,7.23051,2184.08197,342.52277,1.06542,0.61516,135.67557,1.16118,2633.46772,373.71948,16.07361 +"2881","YDL227C",25,112,8,47.09956,0.60932,0.16852,1.46557,7.11006,2382.91899,379.08041,1.13805,0.6099,146.66713,1.15963,2933.8135,369.04203,16.97892 +"2882","YDL227C",30,112,8,58.35841,0.60328,0.16171,1.59876,7.72663,2218.59104,351.54616,1.0842,0.70764,138.08456,1.40999,2670.39059,362.50379,17.09035 +"2883","YDL227C",37,112,8,42.9143,0.59449,0.15708,1.36177,6.90829,2215.93124,345.12925,1.09208,0.46733,141.59738,1.15587,2681.84662,332.92463,16.50239 +"2884","YDL227C",42,112,8,52.74939,0.59401,0.17218,1.59842,8.81444,2264.68561,362.78737,1.09418,0.57369,141.95364,1.73811,2753.36849,381.93361,16.8763 +"2885","YDL227C",49,112,8,44.3512,0.60051,0.15849,1.9544,6.78816,2313.75513,346.17398,1.11105,0.50488,130.15488,1.09175,2679.9931,316.30125,16.23663 +"2886","YDL227C",54,112,8,43.55896,0.58405,0.15487,23.7003,12.25119,2128.34561,337.19909,1.05405,1.75736,133.47075,1.21877,2566.02688,359.91608,31.93004 +"2887","YDL227C",61,112,8,42.03546,0.5896,0.15625,1.40456,6.04977,2207.21539,330.15841,1.06701,0.5202,129.00781,1.27577,2537.38166,305.64166,16.13718 +"2888","YDL227C",66,112,8,41.51499,0.58374,0.15744,1.51385,7.25169,2104.24043,322.45156,1.02904,0.63553,131.44879,1.13924,2454.34561,330.90661,15.88336 +"2889","YDL227C",73,112,8,60.29773,0.64853,0.17086,1.52648,7.77559,2567.77286,414.45632,1.23706,0.48855,160.13485,1.34718,3235.4881,416.78547,19.61348 +"2890","YDL227C",78,112,8,38.77538,0.58977,0.15601,1.42406,7.4958,2215.49798,322.05871,1.07766,0.64643,124.25648,1.07657,2426.17705,334.52274,16.08736 +"2891","YDL227C",85,112,8,67.09209,0.66431,0.18861,1.59828,7.948,2584.22788,428.80353,1.23949,0.50086,163.31507,1.48972,3292.13592,431.91637,19.61094 +"2892","YDL227C",90,112,8,47.41086,0.59419,0.15339,1.41843,6.99179,2250.77481,321.21814,1.08635,0.51189,124.14327,1.10372,2440.03533,306.47581,17.25469 +"2893","YDL227C",1,113,8,53.04247,0.60119,0.15493,1.42245,8.75239,2592.4541,405.42031,1.18899,0.50306,152.8335,1.10317,2956.4452,445.91896,16.21769 +"2894","YDL227C",6,113,8,77.63397,0.65929,0.16454,1.55156,7.25897,2531.90921,469.34826,1.27301,0.53478,186.37675,1.18757,3513.82525,517.4852,21.07474 +"2895","YDL227C",13,113,8,38.93447,0.59946,0.16713,1.41604,6.14564,2245.17651,389.17917,1.12886,0.54809,158.26835,1.0654,2906.48706,383.11709,15.80003 +"2896","YDL227C",18,113,8,74.79981,0.58519,0.15768,1.37823,7.47685,2227.0922,357.20646,1.12759,0.60682,144.27075,1.03095,2776.33362,410.65949,19.66674 +"2897","YDL227C",25,113,8,33.18198,0.56655,0.15302,1.42266,10.18731,2165.77299,320.96754,1.11134,0.77824,131.29519,0.98588,2513.97793,327.22874,16.23716 +"2898","YDL227C",30,113,8,37.3243,0.59391,0.15569,1.36605,7.58449,2218.67543,368.32727,1.14036,0.77247,147.67907,0.9912,2829.03933,373.85651,16.45966 +"2899","YDL227C",37,113,8,39.19028,0.57694,0.15705,1.39848,12.43409,2169.32935,342.36395,1.13518,0.60202,141.38046,1.16481,2655.08027,332.51306,16.05451 +"2900","YDL227C",42,113,8,42.46498,0.61103,0.16666,1.43798,6.71528,2291.72693,381.03306,1.18991,0.48842,158.60425,1.12755,2938.23366,409.47809,16.85016 +"2901","YDL227C",49,113,8,36.64034,0.57323,0.15692,1.39858,7.0075,2158.64947,332.46692,1.10176,0.52203,134.86972,1.13434,2567.52034,351.27393,15.74591 +"2902","YDL227C",54,113,8,34.68611,0.59075,0.15413,1.36784,7.30465,2194.97315,341.26388,1.10751,0.65555,133.98198,1.06093,2599.59469,361.99058,15.9963 +"2903","YDL227C",61,113,8,37.84514,0.59157,0.15695,1.35477,6.43825,2071.57854,327.75868,1.06663,0.5021,140.32136,1.08627,2477.29709,293.82716,15.51258 +"2904","YDL227C",66,113,8,40.0216,0.57924,0.15335,1.32601,6.16235,2141.03114,325.5031,1.07809,0.54769,133.91564,1.01196,2501.65033,335.16985,16.22586 +"2905","YDL227C",73,113,8,38.39257,0.66408,0.16122,1.59481,10.53459,2544.81651,438.03228,1.26851,0.5731,169.90978,1.23021,3430.24202,458.41976,17.10061 +"2906","YDL227C",78,113,8,47.51023,0.57266,0.14888,1.29167,20.2165,2129.04129,309.40384,1.06811,0.50598,121.79935,1.28311,2429.17077,298.41819,15.54162 +"2907","YDL227C",85,113,8,41.31981,0.6201,0.15798,1.46033,11.46684,2396.9827,359.25006,1.19846,0.52351,143.68184,1.24708,2807.59218,367.16281,17.45073 +"2908","YDL227C",90,113,8,63.75472,0.56824,0.15247,1.67536,7.85272,2150.90886,311.06223,1.09768,0.57972,127.62959,1.76386,2429.3233,307.32318,16.21646 +"2909","YDL227C",1,114,8,44.56479,0.57666,0.14976,1.39956,7.78195,2255.82641,392.15635,1.11912,0.48936,162.62644,1.09254,2828.77541,402.60943,15.62833 +"2910","YDL227C",6,114,8,84.73336,0.54876,0.14281,1.36757,6.85393,2102.87539,364.35988,1.05247,0.96713,151.63752,1.10852,2734.0022,369.07959,20.14479 +"2911","YDL227C",13,114,8,31.71439,0.5286,0.13595,1.21838,6.05961,2080.19376,316.0731,1.0131,0.48611,121.94396,2.25973,2393.00885,320.02981,14.41653 +"2912","YDL227C",18,114,8,40.69115,0.56121,0.14316,1.29586,9.21921,2117.25225,328.2239,1.05241,0.47245,131.08417,0.95474,2533.35204,328.86477,15.58386 +"2913","YDL227C",25,114,8,30.70055,0.54104,0.14154,3.18462,5.52517,2150.04303,297.95915,0.99194,0.51859,109.05881,0.86076,2309.88059,267.20451,15.16719 +"2914","YDL227C",30,114,8,35.40839,0.536,0.14281,1.31239,5.09808,2013.62085,303.00852,1.01032,0.47583,119.92199,0.85168,2342.9591,295.82124,14.79461 +"2915","YDL227C",37,114,8,37.23705,0.54123,0.14399,1.33019,10.49371,2065.15302,320.17448,1.00528,0.47513,127.84052,0.84599,2441.85246,310.4744,15.1297 +"2916","YDL227C",42,114,8,33.81598,0.55693,0.14663,1.39696,4.96217,2194.19015,337.70396,1.06717,0.47513,129.78611,1.04512,2575.99314,353.47977,15.4866 +"2917","YDL227C",49,114,8,33.00645,0.55434,0.1398,1.23012,14.83797,2009.58499,313.32978,1.00139,0.52286,125.28263,0.82464,2414.25003,306.33271,14.46683 +"2918","YDL227C",54,114,8,39.47489,0.61688,0.15518,1.40109,4.82988,2341.10611,351.14716,1.133,0.53062,132.33579,1.02683,2772.4711,407.50448,17.54498 +"2919","YDL227C",61,114,8,35.98835,0.53714,0.14123,1.35205,11.38222,2040.27071,285.45373,1.00764,0.50049,110.93137,3.51468,2214.55154,260.8627,14.84897 +"2920","YDL227C",66,114,8,39.22325,0.55575,0.14536,1.34995,3.85469,2063.08281,309.28948,1.04534,0.52573,125.11009,0.92774,2350.47399,322.90962,16.44333 +"2921","YDL227C",73,114,8,36.24195,0.55228,0.14896,1.41003,8.71981,2128.19973,317.25477,1.06841,0.50194,131.17411,1.13401,2452.13027,310.12961,15.32527 +"2922","YDL227C",78,114,8,33.67787,0.55017,0.1432,1.33719,14.27633,2141.52112,311.00275,1.06002,0.43827,124.25405,2.26601,2457.67048,323.28753,15.39203 +"2923","YDL227C",85,114,8,43.03727,0.57214,0.15123,1.41331,52.90632,2115.47401,313.1264,1.14974,0.49308,128.75783,0.98797,2440.35974,320.49633,15.76145 +"2924","YDL227C",90,114,8,40.60191,0.5932,0.1539,1.41419,6.23484,2232.96464,314.7876,1.18592,0.61765,122.36009,0.96312,2440.60559,318.58394,16.64005 +"2925","YDL227C",1,115,9,39.11736,0.75292,0.18731,1.79369,7.14155,2906.12231,544.20966,1.45002,0.61956,280.91016,1.39278,3465.34835,499.00169,15.73953 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+"2938","YDL227C",78,115,9,29.13775,0.79018,0.19315,1.72814,6.31443,2815.50363,468.44875,1.3409,1.08088,234.30405,1.16903,2905.04852,474.58789,15.53581 +"2939","YDL227C",85,115,9,48.02943,0.77951,0.19367,2.32901,10.22385,3146.79174,509.29343,1.45619,0.58217,251.42729,1.71369,3297.88654,562.44692,16.79557 +"2940","YDL227C",90,115,9,46.88071,0.84122,0.20356,2.19574,7.34546,3410.45904,622.4077,1.55798,0.59495,294.98152,1.40614,3905.85224,704.67887,18.63303 +"2941","YDL227C",1,116,9,89.50095,0.79405,0.19339,2.78668,11.2121,3276.64789,539.29082,1.61307,0.8877,248.70578,2.81327,3510.95511,503.00469,19.26276 +"2942","YDL227C",6,116,9,84.48516,0.82013,0.20331,2.10087,7.08699,3274.38836,597.18552,1.58522,0.59556,257.54216,1.35059,3810.72426,562.5039,29.21928 +"2943","YDL227C",13,116,9,38.34575,0.75805,0.18231,1.89947,5.75849,2801.95841,475.67045,1.47834,0.4657,232.05895,1.66176,3177.65737,461.28719,16.10444 +"2944","YDL227C",18,116,9,50.56385,0.82684,0.19564,3.0392,6.74645,3031.5393,489.73413,1.45613,0.72803,226.24243,1.4201,3104.38366,468.17675,17.8565 +"2945","YDL227C",25,116,9,36.23593,0.74666,0.1828,1.91507,6.23597,2800.46829,435.14549,1.34519,0.49126,203.11364,1.3013,2763.57341,379.72201,15.25433 +"2946","YDL227C",30,116,9,31.58275,0.796,0.18987,1.95756,5.62742,2841.34052,429.08793,1.33352,0.5309,193.84456,1.45853,2747.69207,382.10117,16.51827 +"2947","YDL227C",37,116,9,31.08568,0.8042,0.19081,2.34958,7.356,2914.46087,450.27425,1.4093,0.74267,213.44825,1.75547,3072.67931,425.87774,16.47996 +"2948","YDL227C",42,116,9,32.18541,0.77546,0.18572,1.58729,4.25198,2631.16153,397.80361,1.27079,0.46283,173.65567,1.04521,2459.7908,277.76959,15.66569 +"2949","YDL227C",49,116,9,32.30555,0.7755,0.18152,2.06368,6.79791,2743.30987,405.64014,1.33042,0.7994,187.41874,1.34886,2694.70299,350.67516,15.70528 +"2950","YDL227C",54,116,9,25.94914,0.75802,0.17765,1.88637,4.99902,2474.02865,369.98906,1.21943,0.53943,168.3922,1.46488,2320.98924,262.60098,15.24102 +"2951","YDL227C",61,116,9,22.51945,0.82978,0.18915,2.11988,6.76687,2736.51469,373.80729,1.32241,0.61087,169.24444,1.25528,2448.25342,256.26683,15.08257 +"2952","YDL227C",66,116,9,27.33418,0.79089,0.18881,1.88891,5.70168,2650.29712,396.47413,1.30642,0.5673,175.21057,2.10074,2477.56801,322.99533,16.42362 +"2953","YDL227C",73,116,9,31.57294,0.83371,0.19476,1.87661,7.15428,3085.90976,491.99155,1.43977,0.58706,217.74805,1.67433,3122.92376,448.70028,15.9105 +"2954","YDL227C",78,116,9,31.5256,0.76719,0.19297,1.85925,7.43389,2957.82911,477.59831,1.35978,0.57756,210.87292,1.52188,2989.72785,472.32389,16.27778 +"2955","YDL227C",85,116,9,35.23553,0.83046,0.20197,1.99949,6.42722,3247.25673,537.32618,1.5072,0.50912,274.89867,1.55585,3407.91928,593.2987,16.96878 +"2956","YDL227C",90,116,9,44.96161,0.83431,0.19589,2.59529,7.72933,3478.38001,590.79194,1.58781,0.68408,263.54178,2.13318,3927.58246,662.19264,18.68123 +"2957","YDL227C",1,117,9,45.33797,0.7965,0.19944,1.83585,6.0628,3148.89938,553.14954,1.55669,0.50719,265.31801,1.42369,3654.41605,499.05313,17.74595 +"2958","YDL227C",6,117,9,34.63511,0.74396,0.18166,1.74775,5.08917,2834.95356,520.79192,1.39831,0.4741,246.07522,1.12037,3375.86068,491.18186,17.38863 +"2959","YDL227C",13,117,9,35.16922,0.80287,0.19409,1.83888,4.9252,3074.01914,499.15747,1.47212,0.55373,217.80821,1.18941,3112.75914,482.46202,16.18341 +"2960","YDL227C",18,117,9,27.07761,0.75773,0.18415,1.8541,5.14014,2747.32345,470.83557,1.3466,0.55909,218.4134,1.76701,3013.53696,415.36703,15.36104 +"2961","YDL227C",25,117,9,28.48034,0.77066,0.1889,1.74393,5.08901,2824.83835,450.80921,1.36595,0.51425,214.1051,1.13586,2874.17472,410.89093,15.06063 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+"2968","YDL227C",66,117,9,22.91374,0.78512,0.18126,1.72578,6.48234,2667.05451,403.05267,1.31977,0.46845,173.22719,1.0262,2589.65114,329.78529,15.43588 +"2969","YDL227C",73,117,9,30.8161,0.79854,0.19023,1.93489,7.30024,3073.65894,454.40813,1.45005,0.50192,212.36657,1.17861,3001.72417,433.04729,15.47938 +"2970","YDL227C",78,117,9,28.92491,0.77597,0.1878,2.73855,4.57423,3087.62251,487.72778,1.44419,0.47362,206.71677,1.01679,3124.41255,474.88012,16.40598 +"2971","YDL227C",85,117,9,41.18907,0.7977,0.1923,1.97641,6.16626,3384.96849,526.23454,1.54028,0.47763,240.3019,1.26932,3440.55329,591.0274,17.31372 +"2972","YDL227C",90,117,9,43.24108,0.84248,0.20039,2.34676,6.98355,3558.16838,561.50943,1.58236,0.49417,245.70375,1.27144,3680.15792,645.63313,16.74391 +"2973","YDL227C",1,118,10,54.27972,0.84352,0.19086,8.32415,15.88768,3116.39933,616.02935,1.83854,0.68212,192.03619,16.6271,4160.05041,388.18342,22.0563 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+"9477","YLR396C",12,94,2,22.11733,0.78506,0.18696,1.72615,11.2021,1679.26554,378.81432,0.61783,0.72838,75.77686,1.43017,2519.598,414.2888,12.97233 +"9478","YLR396C",24,94,2,19.55794,0.80284,0.18647,1.76065,14.84424,1711.85822,379.96652,0.61666,0.79925,76.48118,1.45214,2635.22852,359.08845,14.06221 +"9479","YLR396C",36,94,2,6.34659,0.75626,0.16459,1.628,8.97822,1389.57483,262.19377,0.49563,0.65753,52.72934,1.17797,1965.52193,189.77196,11.99579 +"9480","YLR396C",48,94,2,0.44872,0.73926,0.16327,1.58866,9.1507,1254.83202,222.07392,0.3806,0.61928,40.22071,1.05318,1581.8848,129.46545,10.50636 +"9481","YLR396C",12,95,2,21.16406,0.77385,0.18526,1.66912,11.8555,1675.40064,399.20729,0.63367,0.71524,79.19949,2.79675,2622.30554,411.69778,13.37669 +"9482","YLR396C",24,95,2,22.04339,0.81468,0.18612,1.72638,10.66501,1767.03832,436.08822,0.65053,0.69711,90.6704,1.30049,2926.27824,468.26159,13.87521 +"9483","YLR396C",36,95,2,10.255,0.79208,0.17372,1.52218,9.28307,1467.84187,277.19099,0.509,0.83035,46.36942,1.15254,1975.23455,161.55444,12.17589 +"9484","YLR396C",48,95,2,5.38339,0.74179,0.16381,1.41282,8.62044,1285.13808,208.45941,0.39889,0.7256,38.63759,1.04814,1556.35229,103.8959,10.74843 +"9485","YLR396C",12,96,2,47.08061,0.7741,0.18663,2.39198,22.37433,1599.94054,340.75491,0.68399,0.62942,68.59254,32.57835,2280.20849,347.65418,19.89059 +"9486","YLR396C",24,96,2,38.9824,0.76484,0.17547,1.73833,10.85297,1546.76244,376.00855,0.61101,0.70416,75.41535,1.51756,2620.66564,343.32144,13.87956 +"9487","YLR396C",36,96,2,10.22426,0.75667,0.16504,1.48424,9.5886,1262.90683,236.19191,0.45247,0.64669,42.48238,1.54398,1772.97108,114.80275,12.5678 +"9488","YLR396C",48,96,2,12.75523,0.74134,0.16351,1.58304,10.85393,1294.53572,243.6141,0.41349,0.60098,43.43225,1.09449,1713.64786,169.87681,11.15152 +"9489","YLR396C",12,97,3,59.64558,0.86794,0.20022,2.07334,12.61273,1806.27616,543.4794,0.77941,0.68485,119.08795,2.40861,3854.21161,506.32337,20.3705 +"9490","YLR396C",24,97,3,55.31347,0.93666,0.21415,2.17619,12.04073,2055.7876,687.3555,0.86132,0.78819,131.93089,2.91046,4437.33961,591.47292,20.27717 +"9491","YLR396C",36,97,3,34.83029,0.87402,0.19607,2.04495,11.03419,1764.7442,497.91775,0.73464,0.68833,90.74168,2.71354,3553.4442,376.61427,18.34434 +"9492","YLR396C",48,97,3,38.05903,0.94745,0.20817,2.18872,11.1378,1861.91765,510.65345,0.77378,0.67706,106.54184,2.39536,3887.97129,457.60235,18.75107 +"9493","YLR396C",12,98,3,84.28072,0.88908,0.20337,1.94116,14.20813,1839.36978,544.19435,0.82359,1.05636,106.84574,1.69487,3798.32707,537.50314,20.46512 +"9494","YLR396C",24,98,3,41.42107,0.95335,0.21372,2.019,13.51204,2108.23581,688.69037,0.86486,0.86337,138.54121,1.64941,4507.23713,658.34962,18.73987 +"9495","YLR396C",36,98,3,34.22782,0.90231,0.19903,1.91723,11.0193,1755.62917,495.02747,0.7062,0.6665,93.3752,1.4902,3386.95306,379.93541,16.68615 +"9496","YLR396C",48,98,3,32.11863,0.90669,0.201,1.89897,11.99009,1799.60099,484.17318,0.7231,0.7725,100.53394,1.54863,3527.39203,395.38996,17.74939 +"9497","YLR396C",12,99,3,40.09154,0.87782,0.19872,1.89698,11.0012,1795.41906,529.53499,0.77342,0.6654,104.33032,1.57525,3713.70501,477.05023,17.17296 +"9498","YLR396C",24,99,3,40.01765,0.90683,0.20606,1.87446,13.37629,1927.1051,575.31391,0.82378,0.8616,108.99748,2.19404,3883.86937,561.29995,18.25522 +"9499","YLR396C",36,99,3,27.96728,0.88763,0.19937,1.85701,12.63085,1833.86046,534.74937,0.75163,0.8218,103.88259,1.43453,3700.99806,454.73952,16.63858 +"9500","YLR396C",48,99,3,27.95341,0.93399,0.20241,1.87314,11.15927,1744.9706,458.0824,0.7072,0.91705,101.86975,1.49011,3467.10705,497.19508,16.60263 +"9501","YLR396C",12,100,4,81.48002,0.90461,0.18269,1.4831,6.86355,1508.23248,495.69757,0.78078,0.41834,90.66817,1.24229,3034.9486,717.79847,17.11951 +"9502","YLR396C",24,100,4,49.44383,0.85727,0.16417,1.22986,5.3642,1307.62592,392.5882,0.695,0.37291,73.01832,0.92087,2605.76155,570.30782,14.30333 +"9503","YLR396C",36,100,4,55.06086,0.91663,0.17467,1.63984,7.59964,1263.20537,332.06983,0.68372,0.39774,63.27292,1.22381,2205.7496,528.29965,15.28135 +"9504","YLR396C",48,100,4,60.65032,0.9709,0.18768,1.41443,5.94926,1512.82098,498.01703,0.7708,0.5098,95.37536,1.37345,3240.71282,707.53765,16.93151 +"9505","YLR396C",12,101,4,67.31725,0.89154,0.17651,1.3247,5.97147,1462.51835,463.2302,0.75189,0.31311,83.55616,1.236,2818.69523,681.25367,14.5099 +"9506","YLR396C",24,101,4,43.679,0.88283,0.17394,1.23345,6.20515,1409.78714,442.03374,0.7292,0.35488,82.44286,1.12319,2899.12592,636.61031,13.64388 +"9507","YLR396C",36,101,4,37.45506,0.89316,0.16718,1.22232,5.88738,1289.25287,346.11845,0.65403,0.38114,64.70256,0.9531,2346.30447,526.62101,13.49196 +"9508","YLR396C",48,101,4,43.1221,0.94959,0.181,1.35331,5.95425,1404.33897,380.47923,0.68272,0.37621,72.95942,1.06981,2626.47256,605.45016,14.29879 +"9509","YLR396C",12,102,4,65.88562,0.88037,0.17489,1.35441,5.86893,1347.22417,421.85736,0.96245,0.39671,79.47546,1.30259,2603.53353,638.85659,15.92062 +"9510","YLR396C",24,102,4,45.25537,0.83775,0.16573,1.16641,6.20684,1315.48869,388.16378,0.80646,0.37735,64.64446,1.07637,2525.86684,529.34638,15.45621 +"9511","YLR396C",36,102,4,40.93343,0.87618,0.1625,1.27086,5.86844,1234.31169,350.28355,1.12179,0.49191,63.00646,1.5744,2363.97905,530.62669,14.66298 +"9512","YLR396C",48,102,4,34.72022,0.88227,0.1573,1.06431,5.20013,1097.84664,274.71776,0.6734,0.43183,53.34986,1.01212,2065.70504,475.10719,12.96474 +"9513","YLR396C",12,103,5,30.98206,1.02785,0.20016,1.2839,3.28464,1748.65496,548.97412,0.79371,0.57752,80.39517,1.03856,3397.06698,496.19432,15.90595 +"9514","YLR396C",24,103,5,13.57353,0.9819,0.18862,1.2394,3.33048,1483.85873,474.33109,0.66737,0.54224,66.98617,0.89944,2944.8363,401.29413,14.31383 +"9515","YLR396C",36,103,5,18.5275,1.02806,0.1926,1.28591,2.85215,1614.81337,474.55576,0.71606,0.45437,70.75703,0.98001,3194.82128,450.2866,15.56525 +"9516","YLR396C",48,103,5,17.22089,1.04614,0.1926,1.27505,4.08962,1594.80954,430.565,0.73393,0.5671,64.19388,1.01189,2814.29723,415.47128,15.25576 +"9517","YLR396C",12,104,5,14.82151,1.01459,0.19746,1.25464,1.10038,1718.87952,522.79407,0.73479,0.46502,74.54505,0.92907,3251.96201,445.4672,14.8659 +"9518","YLR396C",24,104,5,12.98675,1.03854,0.20192,1.29829,2.59085,1688.75993,489.19731,0.73646,0.40031,70.97919,0.97106,3212.22338,408.65418,15.7732 +"9519","YLR396C",36,104,5,15.45417,1.03462,0.20034,1.26308,2.62897,1798.93616,519.94153,0.78715,0.418,79.54034,1.00599,3395.33871,492.96887,15.52158 +"9520","YLR396C",48,104,5,18.26711,1.0535,0.20245,1.32253,3.33586,1705.94571,510.06018,0.76829,0.41727,73.19019,1.06949,3279.98588,481.9625,15.70392 +"9521","YLR396C",12,105,5,21.27171,0.98657,0.19676,1.49208,2.51377,1715.35141,513.28766,0.73461,0.40802,78.31884,1.02327,3273.23779,505.08913,16.01047 +"9522","YLR396C",24,105,5,18.95153,0.99461,0.19151,1.22356,2.2878,1577.52209,455.4815,0.66774,0.38284,66.50226,0.90048,2913.406,407.90595,14.28682 +"9523","YLR396C",36,105,5,14.20856,1.02784,0.19594,1.27356,3.30088,1656.43641,486.71025,0.72619,0.48743,71.70848,1.10461,3104.65766,440.7757,15.25534 +"9524","YLR396C",48,105,5,13.51955,1.06903,0.19906,1.28493,3.22309,1648.97414,468.82148,0.73496,0.47512,65.05263,0.96076,3039.95772,395.87712,15.74366 +"9525","YLR396C",12,106,6,26.12424,0.79044,0.15303,1.05972,3.27031,1313.6815,437.99438,0.49858,0.4692,45.49873,1.00876,2791.71862,374.26025,13.53822 +"9526","YLR396C",24,106,6,18.82492,0.80471,0.14916,0.96446,86.70845,1233.26065,383.47841,0.65805,0.33965,37.28199,0.73022,2372.93188,345.68384,13.91472 +"9527","YLR396C",36,106,6,19.50199,0.80881,0.15415,0.86416,6.48784,1246.55606,400.94479,0.4706,0.53919,41.04647,0.68778,2452.90392,325.32482,11.58274 +"9528","YLR396C",48,106,6,12.34237,0.81193,0.14635,0.71257,2.58083,1115.4376,335.23158,0.42732,0.51662,28.16941,0.57994,2027.69377,253.97679,10.65702 +"9529","YLR396C",12,107,6,30.84472,0.78008,0.15199,1.2431,3.80315,1299.78493,424.45222,0.48924,0.36781,51.65647,0.64799,2629.29318,430.79826,12.03435 +"9530","YLR396C",24,107,6,16.07532,0.81012,0.15258,0.77893,3.90976,1248.03277,397.50804,0.48331,0.4691,42.32267,0.69001,2479.23369,389.04655,11.85665 +"9531","YLR396C",36,107,6,22.34708,0.86202,0.17173,0.8973,5.39419,1457.96033,484.91006,0.54999,0.97913,55.79919,1.05523,3008.09496,463.53924,13.81454 +"9532","YLR396C",48,107,6,16.39651,0.86012,0.15803,0.79496,4.08611,1246.44523,380.84388,0.47274,0.42324,37.19491,0.81499,2311.57507,310.92498,14.48727 +"9533","YLR396C",12,108,6,22.98517,0.79018,0.15618,0.84499,3.05512,1285.67671,429.87296,0.52596,0.35215,52.08139,0.83351,2598.33902,440.68346,13.20147 +"9534","YLR396C",24,108,6,14.88319,0.79406,0.14773,0.67838,3.39421,1194.18165,369.85732,0.47973,0.28873,43.46431,0.83172,2395.4812,341.40181,11.62691 +"9535","YLR396C",36,108,6,17.20516,0.77931,0.1432,0.70582,2.45705,1122.88341,369.35598,0.46,0.30732,36.63618,0.67089,2220.23166,358.80577,12.59097 +"9536","YLR396C",48,108,6,15.66882,0.7855,0.1408,0.62068,1.74687,987.29645,318.90734,0.36275,0.36027,20.20787,0.59622,1846.23896,241.01126,11.62563 +"9537","YLR396C",12,109,7,40.47236,0.89707,0.18841,1.32701,2.87386,1466.19269,476.02475,0.68097,0.48811,77.0258,1.04621,2845.97349,534.44011,19.39939 +"9538","YLR396C",24,109,7,43.39469,0.9104,0.18959,1.26842,4.76435,1508.42326,518.89063,0.69539,0.4865,83.69391,1.03967,3210.27697,586.24976,22.3208 +"9539","YLR396C",36,109,7,33.59842,0.93848,0.19031,1.25947,3.61848,1607.43272,518.38791,0.6947,0.5506,83.0066,2.54598,3212.14086,569.8682,16.80495 +"9540","YLR396C",48,109,7,33.29463,0.9545,0.19785,1.26676,3.73846,1640.47651,542.16301,0.71708,0.46391,85.63601,1.03983,3261.75746,565.37625,17.34148 +"9541","YLR396C",12,110,7,34.19411,0.98103,0.20304,1.30053,4.52538,1633.01491,583.58257,0.72383,0.73956,93.16995,1.11502,3337.32617,629.54996,17.04077 +"9542","YLR396C",24,110,7,32.04764,0.97346,0.19842,1.2661,3.8171,1659.21389,555.63259,0.71025,0.35318,90.09729,1.06183,3476.60003,651.60879,16.3377 +"9543","YLR396C",36,110,7,31.03645,0.95472,0.1956,1.18715,4.54921,1518.3567,479.82097,0.68304,0.49437,81.9688,1.03083,3004.56876,563.3383,15.99746 +"9544","YLR396C",48,110,7,28.71627,1.00828,0.20149,1.35449,3.57665,1539.84694,482.46081,0.70347,0.46448,78.69681,1.11274,2913.61767,495.37499,17.03438 +"9545","YLR396C",12,111,7,32.81522,0.93315,0.18407,1.20695,3.88113,1469.79623,471.33349,0.67952,0.46663,77.67183,0.99024,2800.44557,529.8848,15.44317 +"9546","YLR396C",24,111,7,32.19905,0.94952,0.18971,1.18909,5.35204,1567.82202,497.15209,0.69319,0.57102,79.29273,0.97475,3028.06794,568.27922,15.79554 +"9547","YLR396C",36,111,7,39.00749,0.91284,0.18585,1.14472,4.14226,1442.10196,446.62361,0.66143,0.56351,75.59485,1.11759,2735.03371,522.90149,17.70971 +"9548","YLR396C",48,111,7,31.18283,0.94372,0.19047,1.1504,3.26498,1519.83606,479.51101,0.66788,0.38569,79.247,0.98525,2868.29732,556.89119,16.73596 +"9549","YLR396C",12,112,8,39.31999,0.72152,0.18995,1.2041,7.84574,1241.23942,396.23625,0.66343,0.36282,72.09553,1.39907,2770.73921,527.89393,15.12302 +"9550","YLR396C",24,112,8,33.52679,0.68051,0.1846,1.13783,7.38591,1190.85615,330.32751,0.62183,0.3657,57.96666,1.33144,2346.10454,411.49317,14.4381 +"9551","YLR396C",36,112,8,33.76629,0.68411,0.18181,1.34246,8.19493,1212.61098,333.67687,0.5995,0.46161,59.15467,1.40627,2408.35473,431.30793,14.79304 +"9552","YLR396C",48,112,8,35.60586,0.70386,0.18347,1.13414,7.06797,1260.1511,355.74702,0.61415,0.3752,66.48454,1.34329,2493.55031,464.3582,15.30102 +"9553","YLR396C",12,113,8,43.14113,0.69554,0.18392,1.12699,6.67723,1183.17821,348.98008,0.67313,0.45347,63.80102,2.20606,2431.02953,464.36523,16.85745 +"9554","YLR396C",24,113,8,36.47217,0.74628,0.18504,1.15383,7.00412,1298.07012,414.60166,0.70385,0.39381,75.73285,1.41756,2941.30421,528.28879,15.39639 +"9555","YLR396C",36,113,8,33.80054,0.70383,0.18481,1.10486,12.68883,1203.57021,348.66248,0.66737,0.30989,64.83757,1.35879,2492.61485,443.64185,14.94868 +"9556","YLR396C",48,113,8,31.0419,0.7098,0.18519,1.14156,6.66129,1225.68657,358.61631,0.6503,0.39949,65.77008,1.33312,2532.34517,421.79497,14.55842 +"9557","YLR396C",12,114,8,31.46947,0.67125,0.17732,1.02409,6.53438,1170.75951,357.22808,0.61899,0.39698,65.46285,1.17505,2506.44602,456.4462,14.22515 +"9558","YLR396C",24,114,8,36.17561,0.70427,0.18104,1.09995,6.99425,1250.3394,397.80379,0.63537,0.45809,70.40169,1.6413,2827.96047,499.57875,15.64373 +"9559","YLR396C",36,114,8,29.15741,0.65471,0.17943,0.99059,9.35029,1146.93174,336.93442,0.60583,0.39889,60.59113,1.39938,2379.06729,407.36587,14.36372 +"9560","YLR396C",48,114,8,32.37829,0.68028,0.17978,1.06255,6.62367,1181.88467,341.89161,0.61272,0.52883,61.07162,1.18605,2399.07709,434.02326,14.58025 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+"9579","YLR396C",36,119,10,11.24843,0.81927,0.21007,1.48472,7.33929,1593.62791,419.221,0.67548,0.36884,38.24112,2.58253,2971.81031,323.33124,13.88152 +"9580","YLR396C",48,119,10,8.65762,0.86714,0.22013,1.44206,5.54786,1610.92814,411.12766,0.68531,0.39691,34.30497,1.67336,2952.67226,351.32222,14.74383 +"9581","YLR396C",12,120,10,6.80139,0.83209,0.20685,1.51396,5.50182,1598.38733,447.02287,0.67032,0.50628,39.0511,1.58212,2900.38887,365.20646,13.80335 +"9582","YLR396C",24,120,10,8.17454,0.80009,0.21184,3.48907,5.7279,1509.10399,405.06484,0.67083,0.43733,33.39239,2.49679,2812.94055,347.82402,14.09171 +"9583","YLR396C",36,120,10,9.57401,0.82945,0.2123,6.32744,7.59645,1585.40881,411.98515,0.72506,0.50267,36.84669,4.03262,2851.76353,341.1382,14.15079 +"9584","YLR396C",48,120,10,8.42892,0.83809,0.2134,1.41164,10.93038,1567.80189,405.80702,0.76455,0.50032,36.62881,1.51156,2841.17808,376.11606,14.06821 +"11627","YPL092W",10,100,4,59.54384,1.07718,0.17561,1.41187,9.85736,2272.77544,428.11591,1.21222,0.62118,144.10466,1.17246,2883.71592,600.65025,14.42769 +"11628","YPL092W",22,100,4,47.61818,1.08576,0.17156,1.30431,6.00691,2515.69124,413.90971,1.24454,0.66443,101.03167,0.9812,2926.68466,563.38745,14.05234 +"11629","YPL092W",34,100,4,44.23071,1.14564,0.17167,1.2888,6.23236,2321.31131,382.36268,1.19426,0.62006,93.17996,0.97619,2692.26206,470.01564,14.02926 +"11630","YPL092W",46,100,4,40.64527,1.13005,0.16718,1.25604,5.88766,2133.08636,340.28633,1.13684,0.61829,97.39429,1.82202,2515.05914,471.09034,13.66824 +"11631","YPL092W",58,100,4,38.56373,1.10636,0.15491,1.18061,5.1807,1790.13885,267.4203,0.99672,0.6263,80.68314,0.96537,2030.47659,370.30201,13.28165 +"11632","YPL092W",70,100,4,43.75852,1.25356,0.18057,1.39798,5.41575,2337.75331,330.31685,1.23232,0.64015,85.2905,1.09043,2602.07333,419.01699,15.56781 +"11633","YPL092W",82,100,4,33.04429,1.19687,0.15588,1.3207,4.58478,1608.22873,210.34629,0.90115,0.77212,71.59738,1.35332,1633.29498,317.04637,13.15033 +"11634","YPL092W",94,100,4,36.73374,1.19851,0.15557,1.20558,5.27571,1693.77443,203.97441,0.95865,0.65965,50.69996,0.96943,1527.81533,228.30026,13.53028 +"11635","YPL095C",9,100,4,49.30754,0.78318,0.16165,1.27197,6.6576,2801.75654,475.22663,1.14735,0.58393,153.27856,0.99049,3174.18388,629.8984,14.14766 +"11636","YPL095C",21,100,4,45.59218,0.83198,0.16107,1.32638,6.64615,2836.30849,440.32073,1.16561,0.54499,144.80709,0.8607,2971.42277,575.94038,14.63234 +"11637","YPL095C",33,100,4,35.9864,0.81451,0.14992,1.22206,4.96362,2145.87475,322.62093,0.94386,0.53897,117.62698,0.79856,2237.06386,403.13336,13.25079 +"11638","YPL095C",45,100,4,32.61011,0.84815,0.14871,1.26815,6.24848,2125.08015,275.39043,0.93985,0.87831,100.56359,0.74903,2095.06736,369.2808,13.52681 +"11639","YPL095C",57,100,4,42.30494,0.87547,0.15889,1.27801,5.7107,2420.06539,384.40201,1.02767,0.6316,132.42654,0.83994,2769.68262,477.15274,15.2374 +"11640","YPL095C",69,100,4,33.31996,0.85763,0.14275,1.12572,5.28989,1881.10379,233.20182,0.84493,0.7338,80.25738,0.68838,1777.82707,290.14963,13.50237 +"11641","YPL095C",81,100,4,26.90748,0.86143,0.1397,1.11172,4.02911,1738.51093,236.70451,0.79484,0.61129,89.84123,0.72215,1817.83222,244.54898,12.45831 +"11642","YPL095C",93,100,4,31.08523,0.88264,0.13555,1.13909,6.71472,1633.63705,186.76962,0.77189,0.76708,78.22955,0.75615,1410.67637,259.25341,12.56331 +"11643","YPL096W",8,100,4,49.66505,0.83317,0.16873,1.35169,7.13018,2969.27482,521.43605,1.33248,0.72817,153.8127,0.96163,3430.03725,636.8828,14.37087 +"11644","YPL096W",20,100,4,47.87807,0.9068,0.17245,1.42231,5.76272,2995.8815,486.53673,1.32843,0.63239,125.64217,0.97456,3190.28333,583.88061,15.16651 +"11645","YPL096W",32,100,4,37.01987,0.82006,0.14219,1.23139,4.36111,2263.75089,337.97832,1.06459,0.59562,87.0073,0.77374,2269.03172,410.79935,13.17853 +"11646","YPL096W",44,100,4,38.48277,0.87606,0.14995,1.3248,5.55745,2139.1476,305.77925,1.01479,0.76868,96.63067,0.90583,2208.60978,389.20886,13.74557 +"11647","YPL096W",56,100,4,50.16008,0.86204,0.15237,1.21903,4.97539,2115.0351,315.40529,0.98913,0.75705,97.43407,0.83732,2371.68917,382.83855,14.7393 +"11648","YPL096W",68,100,4,31.77798,0.80017,0.13097,1.113,4.0744,1660.97283,217.83672,0.8037,0.66425,77.04748,0.77248,1654.3364,281.26405,12.3111 +"11649","YPL096W",80,100,4,32.25291,0.90724,0.14869,1.19494,4.24826,1836.26443,228.3753,0.89124,0.65315,75.55144,0.80214,1695.23169,251.93721,13.27362 +"11650","YPL096W",92,100,4,59.8318,0.88468,0.13838,1.75443,4.96817,1555.12306,187.71441,0.83993,0.80005,70.59366,1.24797,1400.59404,205.51437,14.6022 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+"11657","YPL097W",79,100,4,51.91785,0.71868,0.14515,1.43478,7.39267,1012.87739,420.48406,0.66557,0.97705,81.02252,1.06851,2706.6237,321.4759,16.06693 +"11658","YPL097W",91,100,4,53.97588,0.64116,0.12669,1.37558,4.28334,819.69021,311.9704,0.54997,0.51461,58.4955,1.1217,2003.75572,218.95009,14.5951 +"11659","YPL098C",5,100,4,51.57328,0.87512,0.16899,1.39735,5.88221,2680.58779,466.04701,0.92041,0.34835,151.55633,0.9545,3130.99866,532.01562,15.17166 +"11660","YPL098C",17,100,4,48.33181,0.91255,0.1739,1.32771,6.72068,2769.19908,447.69868,0.90376,0.30553,145.00911,0.8937,2999.57773,602.50551,15.13319 +"11661","YPL098C",29,100,4,45.48838,0.94694,0.17435,1.34153,6.1333,2660.54838,438.72467,0.89379,0.46536,144.15422,0.96855,3137.45076,565.35659,15.19222 +"11662","YPL098C",41,100,4,38.45556,0.86181,0.15418,1.21572,4.5879,2125.35483,311.17112,0.73237,0.2875,107.44234,1.0244,2392.10816,385.4689,13.55718 +"11663","YPL098C",53,100,4,31.35094,0.80517,0.13216,1.08663,3.91609,1595.6064,228.76093,0.57984,0.39181,75.15887,0.8055,1700.72861,254.81601,12.26543 +"11664","YPL098C",65,100,4,44.83811,0.9654,0.16933,1.34007,8.08653,2228.30648,349.82873,0.77734,0.46101,115.92987,0.87375,2556.44935,463.14973,15.50189 +"11665","YPL098C",77,100,4,29.64965,0.90956,0.14616,1.1293,5.88452,1783.61789,231.68446,0.62078,1.19687,72.00413,0.75371,1729.93147,283.89706,13.23813 +"11666","YPL098C",89,100,4,36.3856,0.94853,0.14338,1.24257,5.42939,1623.69737,201.0639,0.59544,0.68148,69.70817,1.02466,1585.58115,233.96562,14.64462 +"11667","YPL099C",4,100,4,52.301,0.97051,0.17026,1.30171,5.21981,2902.12187,515.14626,1.34422,0.63822,97.281,2.71584,3354.45455,529.6368,14.49566 +"11668","YPL099C",16,100,4,44.54736,1.03546,0.17046,1.30107,16.58685,2647.57873,379.21972,1.28346,0.6553,68.87314,0.92613,2742.35371,509.26741,13.85373 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+"11711","YPL104W",56,99,3,32.35023,0.93433,0.20716,1.92711,10.78078,1320.5467,512.73859,0.72788,0.80876,158.98687,1.40111,3806.04936,366.30954,18.68668 +"11712","YPL104W",68,99,3,28.18376,0.90732,0.19688,1.80476,10.09817,1308.96559,485.16764,0.70285,0.83974,148.43548,1.28922,3475.13659,346.14699,17.59966 +"11713","YPL104W",80,99,3,23.67017,0.91861,0.20154,1.86821,10.56483,1187.38116,410.74248,0.62731,0.87834,135.39088,1.31208,3284.8555,288.98363,16.88513 +"11714","YPL104W",92,99,3,28.14742,0.93775,0.19504,1.81175,10.4376,1239.46509,420.91404,0.63582,0.80284,135.65916,1.32397,3371.46365,233.58579,17.22797 +"11715","YPL105C",7,99,3,98.86471,0.76246,0.17296,1.9981,12.01411,3180.71879,499.76012,1.27457,0.73964,250.28277,1.20879,3869.34877,370.35675,20.97435 +"11716","YPL105C",19,99,3,35.60003,0.80871,0.18072,1.9691,10.78746,3179.0223,505.25243,1.23156,0.75289,252.45177,1.19667,4031.69247,391.79566,16.50217 +"11717","YPL105C",31,99,3,31.99221,0.8289,0.18384,1.99621,11.05198,3082.13268,526.68271,1.14518,0.71331,248.52684,1.29368,4190.18686,403.02615,16.49944 +"11718","YPL105C",43,99,3,36.65882,0.85591,0.1877,2.02967,10.87139,3113.13711,504.22398,1.17816,0.76929,245.39536,1.24129,4097.50798,349.04426,18.49824 +"11719","YPL105C",55,99,3,31.13793,0.84301,0.18775,1.98953,10.27789,2789.50142,463.28431,1.09458,0.61074,220.84481,1.30385,3771.28125,303.95844,17.66907 +"11720","YPL105C",67,99,3,30.65753,0.87637,0.19067,2.05762,10.2728,2984.55161,492.72679,1.11308,0.62617,225.98633,1.2931,4093.03368,315.00196,18.72239 +"11721","YPL105C",79,99,3,30.08388,0.87549,0.19184,1.97793,9.7611,2957.70967,474.02677,1.05617,0.61534,213.87759,1.30368,3892.68966,283.72566,18.24423 +"11722","YPL105C",91,99,3,22.44828,0.84515,0.17956,1.88305,9.43747,2632.55794,369.8629,0.96673,0.59909,170.73447,1.23584,3164.85211,182.96685,16.51002 +"11723","YPL106C",5,99,3,45.13289,0.46008,0.10721,1.96093,10.42685,2911.31383,391.16079,0.96816,0.73432,174.966,1.07961,3246.34055,457.20891,18.45382 +"11724","YPL106C",17,99,3,29.46064,0.45691,0.10703,1.8541,10.62049,2852.57344,435.29044,0.92144,0.81,195.35715,0.99848,3420.99394,433.12147,17.09749 +"11725","YPL106C",29,99,3,27.5314,0.44519,0.10331,1.78798,10.18265,2800.58329,406.73958,0.91488,0.77892,163.43227,0.9425,3270.0616,477.76322,16.68312 +"11726","YPL106C",41,99,3,25.39311,0.46612,0.10785,1.85095,12.68219,2762.77637,393.97407,0.94057,0.91685,147.01276,0.98583,3237.7296,354.38265,17.2449 +"11727","YPL106C",53,99,3,23.61182,0.48035,0.11332,1.81052,10.48993,2696.43543,342.45868,0.88819,0.97239,142.44461,0.99059,3054.44318,333.35679,17.83212 +"11728","YPL106C",65,99,3,26.6394,0.48523,0.1084,1.82528,10.40967,2852.65754,359.24311,0.94661,0.9602,140.02857,0.96322,3139.50852,353.12866,18.44905 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+"11741","YPL108W",27,99,3,29.82256,0.8988,0.18444,1.9262,11.84655,3437.94606,503.70557,1.25734,1.18815,174.86768,1.21471,3934.17328,478.54476,17.01151 +"11742","YPL108W",39,99,3,29.20692,0.91153,0.1828,1.9288,11.01164,3363.41309,491.57576,1.20832,0.86359,166.0205,1.24639,3941.4887,391.54048,17.60311 +"11743","YPL108W",51,99,3,23.16231,0.90686,0.1831,1.95058,10.99708,3078.6306,443.06291,1.12667,1.01884,152.06527,1.18818,3544.5033,344.08224,16.18804 +"11744","YPL108W",63,99,3,25.76356,0.93302,0.18683,1.89638,10.98762,3264.46911,470.95072,1.15573,0.91231,158.56204,1.2423,3823.83871,333.62401,17.35822 +"11745","YPL108W",75,99,3,25.05868,0.92477,0.18488,1.85235,13.51314,3135.49728,430.27005,1.12153,0.95569,145.7423,1.24029,3561.34025,296.47385,16.68939 +"11746","YPL108W",87,99,3,18.35324,0.941,0.17866,1.79702,10.16219,2858.50829,339.76129,1.01274,0.95493,117.29357,1.16667,2931.64264,196.90553,16.3403 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+"12133","YPL199C",64,90,1,19.18704,0.82578,0.16212,1.8112,4.86689,3055.60105,330.15588,1.02998,1.50715,60.74932,0.96094,2919.98685,313.78111,14.11556 +"12134","YPL199C",76,90,1,16.50785,0.81479,0.15694,1.69341,4.83704,2765.62967,297.33466,0.94011,1.37756,62.66137,0.96279,2736.18113,272.62124,13.76646 +"12135","YPL199C",88,90,1,18.73954,0.8186,0.16158,1.80632,6.15748,2702.0818,279.65043,0.94176,1.57953,57.72548,1.08709,2648.10208,265.54579,14.76524 +"12140","YPL200W",3,90,1,43.39099,0.82812,0.17083,1.84387,7.48137,3455.76502,502.21866,1.28205,1.26329,102.62055,1.15091,3807.9171,578.66773,15.33887 +"12141","YPL200W",15,90,1,37.03779,0.86601,0.17894,1.97992,6.3262,3490.55849,464.09138,1.24248,1.26481,105.47705,1.14843,3838.31142,527.86346,15.98765 +"12142","YPL200W",27,90,1,34.03259,0.86881,0.17255,1.82496,5.40431,3323.58429,466.87498,1.2089,1.37377,121.46904,1.14531,3847.33838,527.78108,15.88928 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+"12159","YPL201C",86,90,1,16.97469,0.83923,0.15544,1.71705,22.41921,2560.60683,289.78165,1.00163,1.90668,63.99034,3.87556,2634.05266,229.85032,13.83003 +"12164","YPL202C",10,89,1,62.38922,0.8609,0.18081,1.98787,20.78957,3546.56718,524.28436,1.41348,1.51128,128.46651,1.28882,4087.65305,600.35141,16.6325 +"12165","YPL202C",22,89,1,39.00434,0.88817,0.17268,1.85865,6.62114,3202.11989,432.91792,1.17309,1.47963,127.77995,1.2436,3710.46745,477.75005,15.88958 +"12166","YPL202C",34,89,1,56.40173,0.79552,0.15933,1.68206,6.52887,2787.80613,304.67079,0.96566,1.49713,63.23786,1.00498,2583.76241,284.09625,12.40426 +"12167","YPL202C",46,89,1,28.06305,0.88564,0.17069,1.92385,6.56532,3046.99457,385.41504,1.10382,1.40296,107.06129,1.1567,3325.39386,388.72152,15.45709 +"12168","YPL202C",58,89,1,22.6103,0.86542,0.16638,2.27422,6.56507,2852.2715,385.03075,1.07693,1.61362,95.46488,1.14286,3263.47639,358.89855,14.38872 +"12169","YPL202C",70,89,1,17.30736,0.80058,0.15856,1.62701,4.73112,2581.31779,312.20077,0.92269,1.37637,84.51725,1.15842,2805.85688,229.04227,13.06405 +"12170","YPL202C",82,89,1,19.54477,0.8214,0.16581,1.74312,5.73252,2652.07933,343.38814,0.96864,1.43977,110.15241,1.23539,2914.97089,307.63979,13.86324 +"12171","YPL202C",94,89,1,22.25688,0.82989,0.16613,1.68371,5.44527,2562.52163,286.2599,0.95208,1.44832,78.39528,1.10204,2627.77076,238.73235,15.21859 +"12176","YPL203W",9,89,1,50.03825,0.86009,0.17921,1.97007,7.50755,3651.46657,534.42975,1.34951,1.36583,113.12654,1.29666,4136.03622,596.6424,16.82737 +"12177","YPL203W",21,89,1,61.56993,0.81568,0.16774,2.0604,7.007,3319.31252,455.0082,1.22533,1.28857,113.63071,1.20265,3746.81829,468.68756,15.39408 +"12178","YPL203W",33,89,1,9.69347,0.76503,0.14821,1.54173,3.55993,2493.56538,264.43309,0.90785,1.30801,38.30138,0.92741,2226.61849,186.61219,10.83409 +"12179","YPL203W",45,89,1,41.78927,0.82369,0.17066,1.81928,11.71961,3128.79127,403.28378,1.16526,1.33309,102.53778,1.22977,3480.91192,362.19252,16.17069 +"12180","YPL203W",57,89,1,41.29066,0.80691,0.17033,1.81946,5.39209,3017.0853,382.47174,1.08759,1.30905,97.76896,1.96327,3419.26666,368.69328,20.19425 +"12181","YPL203W",69,89,1,19.39639,0.78821,0.15846,1.68906,4.4907,2745.16427,322.39264,0.9644,1.37031,86.91275,1.09759,2841.93475,239.33839,14.10208 +"12182","YPL203W",81,89,1,17.33947,0.79164,0.15803,1.63644,4.76947,2745.72611,321.75012,0.98151,1.3184,74.65154,1.04184,2832.65668,266.65176,13.53027 +"12183","YPL203W",93,89,1,23.0308,0.79177,0.15704,1.66095,4.99098,2773.19618,324.66994,0.97281,1.33132,75.23054,1.17143,2869.33954,237.63136,14.5991 +"12188","YPL205C",8,89,1,51.10396,0.80112,0.16108,1.75067,7.35394,3630.45771,549.76318,1.14531,1.50297,194.77778,1.24329,4287.13356,541.14778,15.11409 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+"12195","YPL205C",92,89,1,33.36256,0.8069,0.14858,1.55971,4.99677,2738.18263,334.44202,0.89301,1.67071,140.88797,1.13205,3017.29829,236.8437,13.49516 +"12200","YPL206C",7,89,1,49.17855,0.81819,0.17292,1.98241,7.61872,3350.98359,512.67384,1.28198,1.26463,147.81712,1.87635,3978.2407,577.18326,15.92075 +"12201","YPL206C",19,89,1,39.77036,0.82165,0.16816,1.95724,7.53489,3213.67408,449.53678,1.23269,1.38845,147.38198,1.08831,3845.9605,511.19414,15.93994 +"12202","YPL206C",31,89,1,5.10575,0.73039,0.13912,1.40059,2.67043,1977.47489,181.40201,0.72488,1.31117,48.45224,0.6931,1583.03791,83.56026,10.74289 +"12203","YPL206C",43,89,1,30.73159,0.82157,0.16403,1.76622,8.56236,2907.8779,350.99162,1.1023,1.43159,132.01131,1.00847,3267.88718,359.85705,15.2348 +"12204","YPL206C",55,89,1,29.34729,0.83453,0.16531,1.7522,6.22856,2918.36705,388.6587,1.11911,1.41253,122.88271,1.02168,3490.1961,378.74129,16.07186 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+"12277","YPL215W",68,88,1,80.75967,0.78365,0.16285,1.72631,7.24569,2931.24472,344.48337,1.03241,1.48322,95.14735,1.15446,3001.39366,377.26251,18.06381 +"12278","YPL215W",80,88,1,37.37022,0.78252,0.16201,1.75718,7.7588,2726.13623,295.38032,0.94945,1.4676,66.51341,1.18612,2620.02521,245.95358,15.18807 +"12279","YPL215W",92,88,1,51.0548,0.78784,0.16417,1.75511,7.16268,2580.85573,263.50142,0.91512,1.38507,61.67398,1.60213,2471.72863,195.61305,15.96734 +"12284","YPL216W",7,88,1,59.40585,0.89535,0.18257,1.96359,9.10135,3436.60787,525.08442,1.34411,1.55149,143.86678,1.2585,4056.56568,629.60601,17.62861 +"12285","YPL216W",19,88,1,43.96217,0.94757,0.18371,1.83625,9.07711,3379.32457,447.24794,1.26976,1.57601,112.25925,1.23809,3761.56297,524.5686,15.79125 +"12286","YPL216W",31,88,1,20.8336,0.84541,0.15988,1.58967,6.03246,2611.13354,258.60404,0.94825,1.4912,53.20181,0.99614,2279.44107,243.13295,12.79354 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+"12390","YPR065W",96,94,2,45.90346,1.5691,0.20669,2.2121,11.45637,3409.91976,337.81298,1.28959,1.66987,98.36884,5.77077,3111.21439,377.46042,17.74238 +"12391","YPR065W",60,95,2,8.34689,1.22523,0.16311,1.52458,8.14501,2641.20932,191.99935,0.8688,1.21061,46.09934,3.17098,1755.70108,134.98431,10.86001 +"12392","YPR065W",72,95,2,15.89702,1.32464,0.17177,1.59875,9.66492,2939.55825,241.39676,0.98783,1.23349,71.56567,3.55372,2278.20613,267.77326,12.7745 +"12393","YPR065W",84,95,2,17.27386,1.36603,0.1752,1.75447,9.64652,3055.86003,270.49655,1.02437,1.44482,65.62342,3.59513,2613.8561,227.03489,13.10622 +"12394","YPR065W",96,95,2,34.9634,1.50062,0.19699,1.88459,11.59566,3519.27246,391.38308,1.22366,1.62292,124.30647,4.05907,3366.38844,500.63635,15.86466 +"12395","YPR065W",60,96,2,29.46518,1.22805,0.1688,1.63718,9.53724,2737.8912,230.37031,0.89683,1.30595,60.14961,3.19511,2105.23648,196.50229,12.66664 +"12396","YPR065W",72,96,2,31.19847,1.29748,0.17445,1.69417,9.3837,2680.19553,253.52112,0.96388,1.18471,97.32741,3.82396,2227.11965,187.6741,13.96816 +"12397","YPR065W",84,96,2,30.75113,1.29059,0.17386,1.67667,12.45243,3078.79023,316.39717,1.06324,1.19377,84.01715,3.52615,2714.77721,282.75355,13.50648 +"12398","YPR065W",96,96,2,39.79285,1.40187,0.18226,1.79312,10.6961,2936.16005,322.14696,1.07081,1.46146,121.16626,3.951,2885.59886,344.0568,15.61979 +"12399","YPR065W",60,97,3,42.49388,1.52497,0.20105,2.22354,13.84561,3429.26941,393.15397,1.28117,1.35173,130.70204,4.7817,3545.23167,335.87141,18.00209 +"12400","YPR065W",72,97,3,37.32297,1.5102,0.19719,2.18478,11.25218,3461.35943,381.17806,1.22406,1.23166,105.81752,4.61077,3455.13894,289.87503,17.74914 +"12401","YPR065W",84,97,3,29.49668,1.5373,0.19386,2.15318,11.25138,3309.54952,311.39914,1.16181,1.49792,82.02577,4.67778,2960.5326,244.17604,17.68171 +"12402","YPR065W",96,97,3,43.90741,1.63141,0.21191,3.83343,12.7422,3407.20976,360.67025,1.25712,1.44775,112.66591,4.71436,3421.7759,383.91274,20.62692 +"12403","YPR065W",60,98,3,35.2565,1.51469,0.19858,2.01586,10.52025,3284.16685,338.28598,1.15562,1.4671,106.95241,4.08771,3171.47485,309.58802,16.9458 +"12404","YPR065W",72,98,3,25.70337,1.53299,0.19846,1.97364,10.71031,3323.77073,336.08925,1.15971,1.25595,96.24155,4.04008,3258.46397,303.36712,16.45043 +"12405","YPR065W",84,98,3,29.18566,1.48238,0.1858,1.82318,10.61905,3021.0071,300.89552,1.06793,1.33039,75.59213,3.85058,2806.08172,165.91435,16.799 +"12406","YPR065W",96,98,3,49.7866,1.52394,0.20558,2.09454,12.13564,3271.92665,355.945,1.18945,1.48649,103.96539,4.18337,3096.74687,275.01956,20.298 +"12407","YPR065W",60,99,3,22.4216,1.46926,0.20098,1.95104,11.22788,3310.27812,371.14204,1.18703,1.41391,110.63873,3.75174,3423.7187,280.38958,16.03202 +"12408","YPR065W",72,99,3,19.83457,1.46928,0.20042,1.90191,9.82744,3370.49485,361.37621,1.16865,1.22601,102.00636,3.80312,3338.01315,261.1667,16.17865 +"12409","YPR065W",84,99,3,19.28902,1.4845,0.19024,1.89498,10.66561,3040.24226,307.14521,1.07538,1.23889,85.96266,3.70854,2863.16053,194.9256,15.59812 +"12410","YPR065W",96,99,3,29.62981,1.5045,0.20009,2.19723,14.7198,3248.29561,344.955,1.1701,1.44314,106.2108,3.97355,3191.8462,292.06436,17.29684 +"12411","YPR065W",60,100,4,35.76718,1.37678,0.16166,1.28364,4.79481,1825.8899,226.35084,0.86854,0.78533,74.7222,2.83378,1903.16015,359.07387,14.33648 +"12412","YPR065W",72,100,4,32.05278,1.36948,0.15273,1.20487,4.79399,1810.68966,217.66558,0.84439,0.7565,63.9426,2.73801,1714.17796,290.0825,13.68789 +"12413","YPR065W",84,100,4,33.49545,1.4185,0.15515,1.25496,4.79993,1700.12229,199.80252,0.82606,0.84897,62.07449,2.77295,1562.36616,277.21136,13.75238 +"12414","YPR065W",96,100,4,34.30392,1.53897,0.1617,1.35205,5.43237,1793.53955,185.40345,0.84596,0.83674,58.12227,2.79988,1530.0323,281.93968,14.49469 +"12415","YPR065W",60,101,4,25.95496,1.33421,0.15592,1.23018,4.74228,1877.06061,232.21264,0.86122,0.69334,71.94163,2.68768,1951.86793,336.41044,12.33273 +"12416","YPR065W",72,101,4,26.80095,1.34188,0.15367,1.21352,3.99886,1749.63301,198.62814,0.81703,0.69195,63.83586,2.59343,1628.54926,310.60828,12.32039 +"12417","YPR065W",84,101,4,28.81884,1.44553,0.16832,1.31847,4.96404,1923.47628,224.84419,0.88488,0.78942,69.78429,2.86003,1919.59832,315.62098,13.45817 +"12418","YPR065W",96,101,4,31.36249,1.48757,0.15758,1.24518,4.99609,1806.50951,177.43919,0.83524,0.7179,55.97401,2.68484,1496.7819,253.40446,13.2613 +"12419","YPR065W",60,102,4,30.36655,1.34904,0.1601,1.27875,5.16655,1906.11673,228.67323,0.95322,0.74821,64.59011,2.86879,1843.08476,324.48457,13.3155 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