BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524986.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 919,346 number of mapped reads = 848,920 (92.34%) number of supplementary alignments = 2,251 (0.24%) number of secondary alignments = 0 number of mapped bases = 50,152,833 bp number of sequenced bases = 50,137,053 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,845 duplication rate = 1.83% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.0605 >>>>>>> ACTG content number of A's = 12,844,029 bp (25.62%) number of C's = 8,909,281 bp (17.77%) number of T's = 16,326,958 bp (32.56%) number of G's = 12,056,107 bp (24.05%) number of N's = 678 bp (0%) GC percentage = 41.82% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 238,915 number of insertions = 3,173 mapped reads with insertion percentage = 0.37% number of deletions = 9,201 mapped reads with deletion percentage = 1.08% homopolymer indels = 43.07% >>>>>>> Coverage mean coverageData = 0.0162X std coverageData = 0.1678X There is a 1.51% of reference with a coverageData >= 1X There is a 0.08% of reference with a coverageData >= 2X There is a 0.01% 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 3907075 0.015675286923357356 0.26448037091124604 chr2 243199373 4316685 0.017749572898775524 0.18064832484089766 chr3 198022430 3340693 0.0168702757561353 0.13692691057702794 chr4 191154276 3291957 0.01722146670681853 0.1492936337466377 chr5 180915260 2969506 0.016413795055209825 0.13540034629739728 chr6 171115067 2968491 0.01734792296227193 0.16101889589548854 chr7 159138663 2749660 0.017278390732741043 0.1927624756705253 chr8 146364022 2623573 0.017924985690814098 0.18831875437593779 chr9 141213431 2051389 0.014526868906683529 0.14662822518843227 chr10 135534747 2437370 0.017983358909431542 0.17250505983984601 chr11 135006516 2345748 0.017375072474279687 0.1684358857294803 chr12 133851895 2217194 0.016564532015030494 0.13655157482702873 chr13 115169878 1598361 0.013878290293925639 0.1246032575746273 chr14 107349540 1515902 0.014121178348784727 0.12790202981326623 chr15 102531392 1463182 0.01427057578619434 0.1276945508022739 chr16 90354753 1419520 0.01571051829448308 0.1353286185699078 chr17 81195210 1317491 0.016226215807558106 0.14205919582938373 chr18 78077248 1357866 0.01739131481683371 0.2255554155782318 chr19 59128983 966943 0.01635311400502187 0.20431946245724092 chr20 63025520 1054231 0.01672704961418803 0.13909983961140274 chr21 48129895 672985 0.01398268165762672 0.13090957798129943 chr22 51304566 592654 0.01155168138446001 0.1128354851517518 chrMT 16571 1133 0.06837245790839418 0.2734031931468758 chrX 155270560 2823851 0.018186647874523027 0.15082012711159934 chrY 59373566 149373 0.002515816550415719 0.07908281029793407