BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751174.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 = 4,611,037 number of mapped reads = 3,982,049 (86.36%) number of supplementary alignments = 173,044 (3.75%) number of secondary alignments = 0 number of mapped bases = 391,106,680 bp number of sequenced bases = 390,983,340 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 129,898 duplication rate = 1.68% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.1444 >>>>>>> ACTG content number of A's = 114,525,674 bp (29.29%) number of C's = 80,955,713 bp (20.71%) number of T's = 115,042,193 bp (29.42%) number of G's = 80,457,576 bp (20.58%) number of N's = 2,184 bp (0%) GC percentage = 41.28% >>>>>>> Mismatches and indels general error rate = 0.0044 number of mismatches = 1,515,481 number of insertions = 144,481 mapped reads with insertion percentage = 3.53% number of deletions = 55,536 mapped reads with deletion percentage = 1.37% homopolymer indels = 50.54% >>>>>>> Coverage mean coverageData = 0.1263X std coverageData = 1.3609X There is a 10.09% of reference with a coverageData >= 1X There is a 1.73% of reference with a coverageData >= 2X There is a 0.35% of reference with a coverageData >= 3X There is a 0.09% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% 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 46930344 0.1882857655949431 3.9055803542126957 chr2 243199373 29142248 0.11982863130161113 0.5494181666437912 chr3 198022430 25677449 0.1296693965426038 0.47009440124576307 chr4 191154276 18069133 0.09452643894819282 0.44166034129718773 chr5 180915260 32129630 0.1775949137734429 0.4972951468882282 chr6 171115067 22266267 0.13012452608863484 0.8635594012059493 chr7 159138663 21944307 0.13789425263677124 0.7824927871178619 chr8 146364022 19133883 0.1307280487277126 0.5024843026440512 chr9 141213431 16821801 0.11912323693912656 0.6435003887508027 chr10 135534747 19884450 0.1467110865673435 1.8817202220560187 chr11 135006516 17482271 0.12949205355391882 0.692671247002022 chr12 133851895 20508090 0.1532147901230685 0.46384900332209084 chr13 115169878 11339883 0.09846222985492786 0.36002908001670514 chr14 107349540 8167025 0.07607880760364692 0.3370979910142406 chr15 102531392 9474365 0.09240452914167009 0.3503699395853722 chr16 90354753 11234370 0.1243362371872125 0.8670730073222375 chr17 81195210 10734722 0.1322088088693902 0.672880801680562 chr18 78077248 8020134 0.1027205005996113 1.3191671793765336 chr19 59128983 7471271 0.12635547951162968 2.6944381357084937 chr20 63025520 6875177 0.10908560532305009 0.3946905809517914 chr21 48129895 5025353 0.10441229925808065 0.42985824598274114 chr22 51304566 4419963 0.08615145482372856 0.3418995394332486 chrMT 16571 765612 46.20191901514694 18.844931008083336 chrX 155270560 16593430 0.10686784410386618 0.44639500449429614 chrY 59373566 995502 0.01676675441727721 0.6944520104170915