BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524756.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 = 1,119,030 number of mapped reads = 1,016,737 (90.86%) number of supplementary alignments = 3,355 (0.3%) number of secondary alignments = 0 number of mapped bases = 58,445,119 bp number of sequenced bases = 58,426,120 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 27,598 duplication rate = 2.05% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.4862 >>>>>>> ACTG content number of A's = 14,526,833 bp (24.86%) number of C's = 11,914,554 bp (20.39%) number of T's = 17,761,151 bp (30.4%) number of G's = 14,216,314 bp (24.33%) number of N's = 7,268 bp (0.01%) GC percentage = 44.72% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 292,344 number of insertions = 3,566 mapped reads with insertion percentage = 0.35% number of deletions = 11,561 mapped reads with deletion percentage = 1.13% homopolymer indels = 44.53% >>>>>>> Coverage mean coverageData = 0.0189X std coverageData = 0.1798X There is a 1.73% of reference with a coverageData >= 1X There is a 0.11% 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 4667117 0.01872459527392712 0.21332545805708492 chr2 243199373 4975740 0.020459509984016282 0.26709634588559483 chr3 198022430 3802278 0.01920124907062296 0.1498381607706136 chr4 191154276 3671573 0.019207380953382387 0.16481859850917896 chr5 180915260 3469249 0.019176099351707533 0.14810037032624912 chr6 171115067 3272562 0.019124920191861305 0.15582316646915223 chr7 159138663 3179757 0.019981046340699745 0.21386421153727458 chr8 146364022 2918418 0.019939449327239723 0.16584354219009068 chr9 141213431 2486701 0.0176095218591495 0.16202399659319508 chr10 135534747 2842592 0.02097316048407867 0.21431228224954482 chr11 135006516 2654362 0.019660991770204632 0.16856252280388856 chr12 133851895 2651798 0.01981143412276681 0.1512180854693922 chr13 115169878 1799620 0.015625787152435813 0.1334338880979896 chr14 107349540 1757677 0.016373400389046847 0.13930919730745706 chr15 102531392 1708195 0.016660214658940745 0.1384595229161254 chr16 90354753 1812178 0.020056255369321856 0.16368770253876533 chr17 81195210 1703667 0.02098235844208051 0.158998506758525 chr18 78077248 1532824 0.019632146870750364 0.237229346084131 chr19 59128983 1315134 0.022241782849537595 0.19856268545969236 chr20 63025520 1291315 0.020488763916584902 0.15954712878311908 chr21 48129895 759993 0.015790456222686544 0.1457068133017082 chr22 51304566 771587 0.01503934367167242 0.13117269255583366 chrMT 16571 6745 0.407036388872126 0.6792418410236987 chrX 155270560 3199691 0.02060719688265438 0.16148405936491075 chrY 59373566 194346 0.003273274844229501 0.0973436824256641