BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714211.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 124,278 number of mapped reads = 17,248 (13.88%) number of supplementary alignments = 443 (0.36%) number of secondary alignments = 0 number of mapped bases = 1,818,111 bp number of sequenced bases = 1,805,794 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,834 duplication rate = 37.05% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 13.3687 >>>>>>> ACTG content number of A's = 146,281 bp (8.1%) number of C's = 94,646 bp (5.24%) number of T's = 114,655 bp (6.35%) number of G's = 1,450,136 bp (80.3%) number of N's = 76 bp (0%) GC percentage = 85.55% >>>>>>> Mismatches and indels general error rate = 0.0329 number of mismatches = 49,729 number of insertions = 1,638 mapped reads with insertion percentage = 6.48% number of deletions = 1,780 mapped reads with deletion percentage = 9.97% homopolymer indels = 48.89% >>>>>>> Coverage mean coverageData = 0.0006X std coverageData = 1.752X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 3817 1.531390367127711E-5 0.005288819496195405 chr2 243199373 1375808 0.005657119847920003 6.244492077389219 chr3 198022430 24857 1.2552618407924798E-4 0.08185234373785436 chr4 191154276 15341 8.025454790244922E-5 0.04842012978324107 chr5 180915260 14592 8.06565460536607E-5 0.04909670782888383 chr6 171115067 7431 4.342691809833438E-5 0.037228015848261325 chr7 159138663 27323 1.7169303477182035E-4 0.1304638114424391 chr8 146364022 15709 1.073282886418631E-4 0.0777534121909955 chr9 141213431 2516 1.7817002123544466E-5 0.01505041407333639 chr10 135534747 2659 1.961858533590652E-5 0.0056443429372999 chr11 135006516 11839 8.769206369268872E-5 0.05112047836986426 chr12 133851895 6475 4.837436182730174E-5 0.026689366481271567 chr13 115169878 1667 1.447427078111518E-5 0.006958729307531798 chr14 107349540 10209 9.510054724035147E-5 0.042222584335606 chr15 102531392 13835 1.3493428432143005E-4 0.08352981672819175 chr16 90354753 2798 3.096682694711146E-5 0.013148125362861827 chr17 81195210 14272 1.7577391572729475E-4 0.058591436971568385 chr18 78077248 7545 9.663506582609059E-5 0.05501008277297381 chr19 59128983 924 1.562685426197843E-5 0.0040814523846471875 chr20 63025520 2747 4.358551900880786E-5 0.018840947111682153 chr21 48129895 635 1.3193463231116543E-5 0.004894469411799763 chr22 51304566 10636 2.0731098280804092E-4 0.10153891387772535 chrMT 16571 0 0.0 0.0 chrX 155270560 239305 0.0015412129640029635 0.2617356678043242 chrY 59373566 5171 8.709262974031239E-5 0.015788020646887124