BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6237610.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 1,911 number of mapped reads = 790 (41.34%) number of supplementary alignments = 2 (0.1%) number of secondary alignments = 0 number of mapped bases = 50,248 bp number of sequenced bases = 50,229 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 22 duplication rate = 1.56% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 36.818 >>>>>>> ACTG content number of A's = 13,403 bp (26.68%) number of C's = 8,803 bp (17.53%) number of T's = 16,446 bp (32.74%) number of G's = 11,484 bp (22.86%) number of N's = 93 bp (0.19%) GC percentage = 40.39% >>>>>>> Mismatches and indels general error rate = 0.0093 number of mismatches = 445 number of insertions = 10 mapped reads with insertion percentage = 1.27% number of deletions = 11 mapped reads with deletion percentage = 1.39% homopolymer indels = 33.33% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.0042X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% 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 3630 1.4563654788246245E-5 0.003862708004635391 chr2 243199373 6018 2.4745129585510895E-5 0.005608481156291998 chr3 198022430 2933 1.4811453429795807E-5 0.003914885338625409 chr4 191154276 2589 1.354403392995509E-5 0.003786689811321507 chr5 180915260 2372 1.3111110693481577E-5 0.0036170847748507777 chr6 171115067 2616 1.528795824858602E-5 0.003909204610258675 chr7 159138663 2954 1.856242816367007E-5 0.004306914952762915 chr8 146364022 2948 2.0141561838195457E-5 0.004487889944693627 chr9 141213431 1714 1.2137655659680133E-5 0.003856288334917005 chr10 135534747 2717 2.0046519878773227E-5 0.005733827379321372 chr11 135006516 2734 2.0250874409647012E-5 0.0046234549738902115 chr12 133851895 3338 2.4938010776761882E-5 0.005400550261438091 chr13 115169878 1125 9.768179141424461E-6 0.0031253933710975843 chr14 107349540 2022 1.88356652483094E-5 0.004495996628791794 chr15 102531392 1020 9.948172750839079E-6 0.003154056718687538 chr16 90354753 1040 1.151018585596709E-5 0.0034954788657902977 chr17 81195210 1249 1.5382680825629986E-5 0.003922045920021921 chr18 78077248 938 1.201374310733903E-5 0.003466063873807807 chr19 59128983 646 1.0925268239435134E-5 0.0033053212972340568 chr20 63025520 1139 1.8072044467066675E-5 0.0042510843167685415 chr21 48129895 710 1.4751746289909837E-5 0.00384077188542762 chr22 51304566 616 1.200672860189481E-5 0.0038639747437961627 chrMT 16571 0 0.0 0.0 chrX 155270560 2973 1.9147222757488607E-5 0.004373503831994222 chrY 59373566 207 3.486399991538322E-6 0.0018671871455623885