BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524894.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 = 2,427,178 number of mapped reads = 2,242,707 (92.4%) number of supplementary alignments = 8,096 (0.33%) number of secondary alignments = 0 number of mapped bases = 130,858,529 bp number of sequenced bases = 130,819,350 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 114,192 duplication rate = 3.76% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1499 >>>>>>> ACTG content number of A's = 31,556,584 bp (24.12%) number of C's = 26,287,304 bp (20.09%) number of T's = 42,251,125 bp (32.3%) number of G's = 30,707,062 bp (23.47%) number of N's = 17,275 bp (0.01%) GC percentage = 43.57% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 644,119 number of insertions = 9,303 mapped reads with insertion percentage = 0.41% number of deletions = 24,868 mapped reads with deletion percentage = 1.1% homopolymer indels = 43.65% >>>>>>> Coverage mean coverageData = 0.0423X std coverageData = 0.404X There is a 3.69% of reference with a coverageData >= 1X There is a 0.38% of reference with a coverageData >= 2X There is a 0.06% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 10472676 0.04201664957938059 0.837125146694027 chr2 243199373 11037442 0.045384335756490625 0.4253324101760373 chr3 198022430 8716226 0.044016357136916255 0.2339191835877122 chr4 191154276 8458008 0.044247024848138895 0.26385377820455996 chr5 180915260 7880822 0.04356084721653663 0.23611456868647143 chr6 171115067 7508956 0.04388249457892565 0.2627593906810242 chr7 159138663 7196987 0.04522462903939315 0.5534979785656586 chr8 146364022 6780815 0.0463284276241056 0.3849653249763297 chr9 141213431 5525744 0.039130442202767526 0.35186436069406374 chr10 135534747 6250798 0.046119523873829935 0.3697498287536912 chr11 135006516 6006684 0.04449180808428536 0.3659008111135964 chr12 133851895 5833200 0.04357951002486741 0.24312319676481556 chr13 115169878 4145702 0.03599640871374371 0.21253130547634136 chr14 107349540 3972311 0.037003521393757254 0.23187998695945183 chr15 102531392 3708518 0.0361695859937218 0.2124506163206489 chr16 90354753 3793636 0.04198601483643035 0.25492325913005975 chr17 81195210 3518249 0.04333074574226731 0.260431587804654 chr18 78077248 3515174 0.04502174564349399 0.7144063113940806 chr19 59128983 2585161 0.043720707998647634 0.550262467965069 chr20 63025520 2794067 0.04433231173657909 0.24196416226901216 chr21 48129895 1735204 0.03605251995667142 0.24163245490760818 chr22 51304566 1584754 0.03088914152397274 0.1960691571390373 chrMT 16571 33849 2.042664896505944 1.7859504605597585 chrX 155270560 7417116 0.04776897822742444 0.291636301726505 chrY 59373566 386430 0.006508451926232627 0.16152890562198322