BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751233.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 9,585,809 number of mapped reads = 9,540,115 (99.52%) number of supplementary alignments = 64,728 (0.68%) number of secondary alignments = 0 number of mapped bases = 1,239,111,225 bp number of sequenced bases = 1,238,734,323 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,762,979 duplication rate = 16.7% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.572 >>>>>>> ACTG content number of A's = 373,598,496 bp (30.16%) number of C's = 248,521,855 bp (20.06%) number of T's = 376,123,405 bp (30.36%) number of G's = 240,452,995 bp (19.41%) number of N's = 37,572 bp (0%) GC percentage = 39.47% >>>>>>> Mismatches and indels general error rate = 0.0159 number of mismatches = 19,511,503 number of insertions = 136,918 mapped reads with insertion percentage = 1.41% number of deletions = 226,580 mapped reads with deletion percentage = 2.3% homopolymer indels = 40.93% >>>>>>> Coverage mean coverageData = 0.4003X std coverageData = 2.2541X There is a 12.55% of reference with a coverageData >= 1X There is a 6.58% of reference with a coverageData >= 2X There is a 4.06% of reference with a coverageData >= 3X There is a 2.79% of reference with a coverageData >= 4X There is a 2.05% of reference with a coverageData >= 5X There is a 1.58% of reference with a coverageData >= 6X There is a 1.26% of reference with a coverageData >= 7X There is a 1.03% of reference with a coverageData >= 8X There is a 0.86% of reference with a coverageData >= 9X There is a 0.72% of reference with a coverageData >= 10X There is a 0.62% of reference with a coverageData >= 11X There is a 0.53% of reference with a coverageData >= 12X There is a 0.47% of reference with a coverageData >= 13X There is a 0.41% of reference with a coverageData >= 14X There is a 0.36% of reference with a coverageData >= 15X There is a 0.32% of reference with a coverageData >= 16X There is a 0.29% of reference with a coverageData >= 17X There is a 0.26% of reference with a coverageData >= 18X There is a 0.23% of reference with a coverageData >= 19X There is a 0.21% of reference with a coverageData >= 20X There is a 0.19% of reference with a coverageData >= 21X There is a 0.17% of reference with a coverageData >= 22X There is a 0.16% of reference with a coverageData >= 23X There is a 0.14% of reference with a coverageData >= 24X There is a 0.13% of reference with a coverageData >= 25X There is a 0.12% of reference with a coverageData >= 26X There is a 0.11% of reference with a coverageData >= 27X There is a 0.1% of reference with a coverageData >= 28X There is a 0.1% of reference with a coverageData >= 29X There is a 0.09% of reference with a coverageData >= 30X There is a 0.08% of reference with a coverageData >= 31X There is a 0.08% of reference with a coverageData >= 32X There is a 0.07% of reference with a coverageData >= 33X There is a 0.07% of reference with a coverageData >= 34X There is a 0.06% of reference with a coverageData >= 35X There is a 0.06% of reference with a coverageData >= 36X There is a 0.05% of reference with a coverageData >= 37X There is a 0.05% of reference with a coverageData >= 38X There is a 0.05% of reference with a coverageData >= 39X There is a 0.04% of reference with a coverageData >= 40X There is a 0.04% of reference with a coverageData >= 41X There is a 0.04% of reference with a coverageData >= 42X There is a 0.04% of reference with a coverageData >= 43X There is a 0.03% of reference with a coverageData >= 44X There is a 0.03% of reference with a coverageData >= 45X There is a 0.03% of reference with a coverageData >= 46X There is a 0.03% of reference with a coverageData >= 47X There is a 0.03% of reference with a coverageData >= 48X There is a 0.03% of reference with a coverageData >= 49X There is a 0.02% of reference with a coverageData >= 50X There is a 0.02% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 135423670 0.5433233002857795 2.2706009190123186 chr2 243199373 82150805 0.33779200985028857 1.942078042135122 chr3 198022430 75242383 0.37996899139153073 1.8927562349919385 chr4 191154276 78626576 0.41132522716886544 2.0768620876339363 chr5 180915260 117564852 0.6498338061698057 4.246388587257379 chr6 171115067 62166495 0.36330228594072317 1.7856523128598547 chr7 159138663 80388649 0.5051484503171929 2.7870062149485566 chr8 146364022 68049502 0.46493326071621616 1.9544073436388534 chr9 141213431 44548529 0.3154694895841742 1.7275615928538803 chr10 135534747 52772736 0.38936683889630164 2.792146500604531 chr11 135006516 43737442 0.3239654151211487 1.6186018214959266 chr12 133851895 55535437 0.4149021349305514 1.981154793614613 chr13 115169878 61150180 0.5309563669069789 2.845187588656695 chr14 107349540 84948492 0.7913260923148809 3.118729846336853 chr15 102531392 25017130 0.2439948342845087 1.5235534981796488 chr16 90354753 14354336 0.15886641846057617 0.98253237293794 chr17 81195210 13638827 0.16797575866852243 1.1681193893261306 chr18 78077248 40516140 0.5189237714935855 2.2622815701971977 chr19 59128983 2659061 0.04497051809600716 0.3710801126846677 chr20 63025520 10713185 0.16998169947665645 1.301056534251888 chr21 48129895 14665252 0.3047015165937927 1.870400587377398 chr22 51304566 3946080 0.07691479156065759 0.7840398574292475 chrMT 16571 1732 0.10451994448132279 0.37311847343444754 chrX 155270560 70382101 0.45328683686076743 2.2981735287825678 chrY 59373566 911633 0.015354189775294952 0.3140368585719976