BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751220.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 = 4,658,674 number of mapped reads = 4,561,195 (97.91%) number of supplementary alignments = 72,244 (1.55%) number of secondary alignments = 0 number of mapped bases = 448,925,779 bp number of sequenced bases = 448,818,120 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 50,524 duplication rate = 1.03% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.6624 >>>>>>> ACTG content number of A's = 132,624,180 bp (29.55%) number of C's = 92,125,602 bp (20.53%) number of T's = 133,307,703 bp (29.7%) number of G's = 90,758,120 bp (20.22%) number of N's = 2,515 bp (0%) GC percentage = 40.75% >>>>>>> Mismatches and indels general error rate = 0.0028 number of mismatches = 1,169,781 number of insertions = 45,568 mapped reads with insertion percentage = 0.99% number of deletions = 50,304 mapped reads with deletion percentage = 1.09% homopolymer indels = 46.84% >>>>>>> Coverage mean coverageData = 0.145X std coverageData = 0.4501X There is a 11.9% of reference with a coverageData >= 1X There is a 2.08% of reference with a coverageData >= 2X There is a 0.39% of reference with a coverageData >= 3X There is a 0.08% of reference with a coverageData >= 4X There is a 0.02% 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 55064397 0.22091979863111355 0.6005471592892999 chr2 243199373 34851721 0.1433051433072568 0.42597073605428065 chr3 198022430 32504043 0.1641432387230073 0.45354399822080316 chr4 191154276 22126236 0.11575067250915172 0.3802116562604718 chr5 180915260 36980550 0.2044081300825591 0.5127532693945077 chr6 171115067 27279523 0.1594220981136629 0.4645575798531009 chr7 159138663 26479260 0.16639111766321676 0.4594419552406773 chr8 146364022 23418955 0.1600048610306705 0.45196576792161247 chr9 141213431 20247875 0.14338490932919828 0.43114335112497776 chr10 135534747 14390881 0.10617853589972762 0.4038012795033874 chr11 135006516 21141388 0.1565953157401677 0.4553817380517497 chr12 133851895 25778660 0.19259092297497918 0.4958267225859019 chr13 115169878 13942815 0.12106303524954676 0.3928979443363371 chr14 107349540 9931409 0.09251468613652188 0.34072545240550534 chr15 102531392 11153464 0.10878096729633789 0.37326126077348837 chr16 90354753 10239716 0.11332791756953838 0.38100976876208437 chr17 81195210 10864931 0.1338124625824602 0.42289893077223195 chr18 78077248 9356547 0.1198370490722214 0.40169379617718054 chr19 59128983 6051529 0.10234454734322083 0.4222073403067464 chr20 63025520 6373498 0.10112567099803381 0.35772703985515203 chr21 48129895 5661681 0.11763335448789157 0.39674547293325463 chr22 51304566 4263646 0.0831046110009 0.3305378331495769 chrMT 16571 506217 30.548367630197333 16.3726772888268 chrX 155270560 19903331 0.12818483426607077 0.4025199922849104 chrY 59373566 413506 0.006964479782130654 0.11986820450838495