BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751200.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 = 7,519,300 number of mapped reads = 7,392,962 (98.32%) number of supplementary alignments = 100,647 (1.34%) number of secondary alignments = 0 number of mapped bases = 1,074,042,092 bp number of sequenced bases = 1,073,718,951 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,078,978 duplication rate = 14.14% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.7586 >>>>>>> ACTG content number of A's = 296,707,845 bp (27.63%) number of C's = 240,404,544 bp (22.39%) number of T's = 299,574,459 bp (27.9%) number of G's = 237,021,849 bp (22.07%) number of N's = 10,254 bp (0%) GC percentage = 44.46% >>>>>>> Mismatches and indels general error rate = 0.0077 number of mismatches = 7,958,502 number of insertions = 132,068 mapped reads with insertion percentage = 1.74% number of deletions = 125,627 mapped reads with deletion percentage = 1.66% homopolymer indels = 47.36% >>>>>>> Coverage mean coverageData = 0.3469X std coverageData = 1.3108X There is a 20.57% of reference with a coverageData >= 1X There is a 7.87% of reference with a coverageData >= 2X There is a 3.19% of reference with a coverageData >= 3X There is a 1.39% of reference with a coverageData >= 4X There is a 0.65% of reference with a coverageData >= 5X There is a 0.33% of reference with a coverageData >= 6X There is a 0.18% of reference with a coverageData >= 7X There is a 0.1% of reference with a coverageData >= 8X There is a 0.06% of reference with a coverageData >= 9X There is a 0.04% of reference with a coverageData >= 10X There is a 0.03% of reference with a coverageData >= 11X There is a 0.02% 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% 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 125807710 0.504743817669365 2.92626955226559 chr2 243199373 77401587 0.318263924964971 1.0260837112653611 chr3 198022430 66908298 0.33788242069345376 0.8368740124397338 chr4 191154276 41734896 0.21833095692821436 0.6905508811680972 chr5 180915260 83273188 0.4602883582070412 1.0361529485543983 chr6 171115067 58356160 0.34103460918494105 1.0729924737443473 chr7 159138663 61573955 0.3869201477456173 1.0177881951967815 chr8 146364022 50935753 0.3480073333868893 0.8710029875487522 chr9 141213431 47159969 0.3339623480998773 0.9789924344333057 chr10 135534747 51957325 0.38335058831813806 1.4812248376627886 chr11 135006516 47587550 0.35248335717366414 1.0820826292482972 chr12 133851895 58409662 0.43637530869473307 1.0020140732754859 chr13 115169878 28771548 0.24981834225786018 0.7245677387943253 chr14 107349540 23026144 0.21449690422520673 0.6858366853026306 chr15 102531392 28637413 0.2793038545697302 0.7979248083632394 chr16 90354753 33976790 0.3760376612395808 0.9187817560995043 chr17 81195210 40793218 0.5024091692108439 1.2865825625607759 chr18 78077248 20895604 0.26762731186427063 1.185166280880785 chr19 59128983 28536149 0.48260848660292366 2.01231112113015 chr20 63025520 23291088 0.36955011239891394 0.9076927069686178 chr21 48129895 14473404 0.3007154700836144 0.9101286887116331 chr22 51304566 17877165 0.3484517342959299 0.9023487482091697 chrMT 16571 1981146 119.55500573290689 57.78674462588898 chrX 155270560 39063818 0.25158547763336464 0.7523378124835822 chrY 59373566 1612552 0.027159426469348328 0.7148841663419507