BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751168.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 = 5,666,128 number of mapped reads = 5,058,061 (89.27%) number of supplementary alignments = 294,521 (5.2%) number of secondary alignments = 0 number of mapped bases = 495,467,524 bp number of sequenced bases = 495,294,348 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 213,314 duplication rate = 2.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.893 >>>>>>> ACTG content number of A's = 145,631,319 bp (29.4%) number of C's = 101,752,177 bp (20.54%) number of T's = 146,507,588 bp (29.58%) number of G's = 101,400,519 bp (20.47%) number of N's = 2,745 bp (0%) GC percentage = 41.02% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 2,086,108 number of insertions = 439,175 mapped reads with insertion percentage = 8.26% number of deletions = 78,970 mapped reads with deletion percentage = 1.53% homopolymer indels = 53.73% >>>>>>> Coverage mean coverageData = 0.1601X std coverageData = 1.7612X There is a 11.94% of reference with a coverageData >= 1X There is a 2.59% of reference with a coverageData >= 2X There is a 0.68% of reference with a coverageData >= 3X There is a 0.21% of reference with a coverageData >= 4X There is a 0.08% of reference with a coverageData >= 5X There is a 0.04% of reference with a coverageData >= 6X There is a 0.02% 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 0.01% of reference with a coverageData >= 14X There is a 0.01% of reference with a coverageData >= 15X There is a 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% 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 58986558 0.23665561098040352 4.8196061486487425 chr2 243199373 38669453 0.15900309496274895 0.7471395543678006 chr3 198022430 33036874 0.1668339995625748 0.6372884836496349 chr4 191154276 23002915 0.1203369104858528 0.5814611818634378 chr5 180915260 40518389 0.22396335720933658 0.5856628634785082 chr6 171115067 28812006 0.16837796054511084 1.0858610373264634 chr7 159138663 27671269 0.1738814972952236 1.059022921476193 chr8 146364022 24615271 0.16817842707274058 0.6538302633359551 chr9 141213431 17694536 0.1253034918470326 0.7817564546009159 chr10 135534747 25602521 0.18890005379948804 2.9590233952853624 chr11 135006516 22568516 0.16716612404100556 0.8766585957163622 chr12 133851895 26052410 0.19463609387076664 0.5486049108115939 chr13 115169878 14490204 0.12581591863803138 0.4316510390287678 chr14 107349540 10410443 0.09697706203491882 0.4143709093303662 chr15 102531392 11872442 0.11579323920619355 0.4141338312638906 chr16 90354753 13955759 0.15445517293373598 1.2916570145391273 chr17 81195210 13533257 0.1666755588168317 0.771548812378522 chr18 78077248 10503059 0.13452137811004813 1.8159664584077921 chr19 59128983 9023184 0.152601711414519 3.2336913820694413 chr20 63025520 9295615 0.14748969941065143 2.326746841852001 chr21 48129895 6302765 0.13095322564073741 0.5289581600100003 chr22 51304566 5437939 0.105993275530291 0.4062178990961185 chrMT 16571 310630 18.745398587894513 8.68649127928463 chrX 155270560 21693745 0.13971576453385626 0.5538111332739192 chrY 59373566 1407764 0.02371028211443456 0.9547346883994758