BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524734.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 = 1,161,660 number of mapped reads = 1,061,703 (91.4%) number of supplementary alignments = 3,984 (0.34%) number of secondary alignments = 0 number of mapped bases = 60,685,996 bp number of sequenced bases = 60,667,058 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 38,730 duplication rate = 2.84% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.576 >>>>>>> ACTG content number of A's = 14,069,761 bp (23.19%) number of C's = 10,677,876 bp (17.6%) number of T's = 20,246,148 bp (33.37%) number of G's = 15,666,222 bp (25.82%) number of N's = 7,051 bp (0.01%) GC percentage = 43.42% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 305,870 number of insertions = 4,248 mapped reads with insertion percentage = 0.4% number of deletions = 11,688 mapped reads with deletion percentage = 1.09% homopolymer indels = 43.15% >>>>>>> Coverage mean coverageData = 0.0196X std coverageData = 0.1931X There is a 1.78% of reference with a coverageData >= 1X There is a 0.13% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 4871143 0.01954315291354881 0.2576359260091414 chr2 243199373 5093848 0.020945152683432288 0.2940231235160657 chr3 198022430 3961337 0.02000448636045927 0.15511762105711813 chr4 191154276 3885610 0.02032708909948737 0.17289815105993653 chr5 180915260 3603889 0.019920315179603975 0.15238295060867676 chr6 171115067 3481285 0.020344701732197552 0.16520639033991938 chr7 159138663 3338937 0.020981306095301303 0.21857684930947222 chr8 146364022 3053191 0.020860256217883927 0.18724504814244805 chr9 141213431 2550755 0.018063118939444223 0.16998247651833903 chr10 135534747 2948113 0.02175171360300691 0.22689133512402987 chr11 135006516 2747294 0.02034934373093518 0.17405057765692541 chr12 133851895 2722150 0.020337029968832344 0.15504948431278123 chr13 115169878 1877902 0.016305496129812695 0.1387511295184138 chr14 107349540 1804237 0.016807123719393673 0.14479253591281743 chr15 102531392 1766033 0.017224315066355484 0.14312533769721242 chr16 90354753 1866257 0.020654773966345744 0.16921553615131252 chr17 81195210 1722917 0.021219441393156076 0.1618076710008438 chr18 78077248 1561495 0.019999360120889507 0.2392720125160885 chr19 59128983 1324534 0.022400757340947333 0.2174243283166554 chr20 63025520 1330997 0.021118381887210134 0.16575642511961397 chr21 48129895 802771 0.01667925932520734 0.15439165581620778 chr22 51304566 756729 0.014749739818479315 0.1321727306010124 chrMT 16571 19941 1.2033673284653914 1.2089340228771503 chrX 155270560 3379928 0.02176799001690984 0.16801899936430081 chrY 59373566 214703 0.003616137861754842 0.10662848386103109