BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6432719.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP127755/SRP127755.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 = 382,970,880 number of mapped reads = 382,837,886 (99.97%) number of supplementary alignments = 161,075 (0.04%) number of secondary alignments = 0 number of mapped paired reads (first in pair) = 191,422,159 number of mapped paired reads (second in pair) = 191,415,727 number of mapped paired reads (both in pair) = 382,789,018 number of mapped paired reads (singletons) = 48,868 number of mapped bases = 52,785,915,093 bp number of sequenced bases = 52,734,270,220 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 184,752,394 duplication rate = 31.84% >>>>>>> Insert size mean insert size = 72,594.0644 std insert size = 2,724,582.5896 median insert size = 307 >>>>>>> Mapping quality mean mapping quality = 55.4715 >>>>>>> ACTG content number of A's = 14,462,318,217 bp (27.42%) number of C's = 11,405,623,235 bp (21.63%) number of T's = 14,266,570,868 bp (27.05%) number of G's = 12,596,865,324 bp (23.89%) number of N's = 2,892,576 bp (0.01%) GC percentage = 45.52% >>>>>>> Mismatches and indels general error rate = 0.0092 number of mismatches = 467,630,699 number of insertions = 10,718,717 mapped reads with insertion percentage = 2.74% number of deletions = 35,805,678 mapped reads with deletion percentage = 8.92% homopolymer indels = 51.87% >>>>>>> Coverage mean coverageData = 17.0514X std coverageData = 48.8972X There is a 60.37% of reference with a coverageData >= 1X There is a 52.24% of reference with a coverageData >= 2X There is a 46.77% of reference with a coverageData >= 3X There is a 42.63% of reference with a coverageData >= 4X There is a 39.32% of reference with a coverageData >= 5X There is a 36.57% of reference with a coverageData >= 6X There is a 34.23% of reference with a coverageData >= 7X There is a 32.2% of reference with a coverageData >= 8X There is a 30.43% of reference with a coverageData >= 9X There is a 28.85% of reference with a coverageData >= 10X There is a 27.43% of reference with a coverageData >= 11X There is a 26.16% of reference with a coverageData >= 12X There is a 24.99% of reference with a coverageData >= 13X There is a 23.93% of reference with a coverageData >= 14X There is a 22.96% of reference with a coverageData >= 15X There is a 22.05% of reference with a coverageData >= 16X There is a 21.22% of reference with a coverageData >= 17X There is a 20.44% of reference with a coverageData >= 18X There is a 19.72% of reference with a coverageData >= 19X There is a 19.04% of reference with a coverageData >= 20X There is a 18.4% of reference with a coverageData >= 21X There is a 17.81% of reference with a coverageData >= 22X There is a 17.24% of reference with a coverageData >= 23X There is a 16.71% of reference with a coverageData >= 24X There is a 16.21% of reference with a coverageData >= 25X There is a 15.73% of reference with a coverageData >= 26X There is a 15.28% of reference with a coverageData >= 27X There is a 14.85% of reference with a coverageData >= 28X There is a 14.44% of reference with a coverageData >= 29X There is a 14.05% of reference with a coverageData >= 30X There is a 13.68% of reference with a coverageData >= 31X There is a 13.33% of reference with a coverageData >= 32X There is a 12.99% of reference with a coverageData >= 33X There is a 12.66% of reference with a coverageData >= 34X There is a 12.35% of reference with a coverageData >= 35X There is a 12.05% of reference with a coverageData >= 36X There is a 11.77% of reference with a coverageData >= 37X There is a 11.49% of reference with a coverageData >= 38X There is a 11.22% of reference with a coverageData >= 39X There is a 10.97% of reference with a coverageData >= 40X There is a 10.72% of reference with a coverageData >= 41X There is a 10.49% of reference with a coverageData >= 42X There is a 10.26% of reference with a coverageData >= 43X There is a 10.04% of reference with a coverageData >= 44X There is a 9.82% of reference with a coverageData >= 45X There is a 9.62% of reference with a coverageData >= 46X There is a 9.42% of reference with a coverageData >= 47X There is a 9.22% of reference with a coverageData >= 48X There is a 9.04% of reference with a coverageData >= 49X There is a 8.86% of reference with a coverageData >= 50X There is a 8.68% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 4843914891 19.43391302924778 53.94518736529475 chr2 243199373 4634721064 19.057290349181944 54.07886536379632 chr3 198022430 3354252357 16.93874960023468 45.17953005848876 chr4 191154276 2449809247 12.815874686475755 37.77614910733712 chr5 180915260 2908902389 16.078811643639128 44.200452261331 chr6 171115067 2907349594 16.990611317704712 46.59829287305233 chr7 159138663 3589362553 22.554937218493535 58.71320637162366 chr8 146364022 3553884418 24.28113391144717 65.30137535269769 chr9 141213431 1877267124 13.29382843194285 44.28727602386182 chr10 135534747 2461129117 18.158657993436915 47.415927550330665 chr11 135006516 2641927044 19.568885430685434 51.7118940846776 chr12 133851895 2516529427 18.80085020088808 50.19101349797156 chr13 115169878 934073065 8.110393804532814 27.26797313273282 chr14 107349540 1586934193 14.782869055610298 43.12901704271477 chr15 102531392 1820404846 17.75460969065942 51.04593338353213 chr16 90354753 1242470538 13.751025781676367 44.327125031754036 chr17 81195210 1525538055 18.788522808180435 49.31885038021665 chr18 78077248 1685363608 21.585848005298548 58.34558992037104 chr19 59128983 1138584032 19.255938022813616 53.48351058526969 chr20 63025520 1666765667 26.445885206500478 63.677854295869146 chr21 48129895 657436623 13.659631358015636 48.49139567323458 chr22 51304566 877662585 17.106909841124082 50.42812593550139 chrMT 16571 5205735 314.1473055337638 573.4845504522187 chrX 155270560 1730907267 11.1476848347813 31.945608034253826 chrY 59373566 175519654 2.9561918851227498 20.669635122544797