BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751228.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 = 4,189,429 number of mapped reads = 3,950,879 (94.31%) number of supplementary alignments = 144,149 (3.44%) number of secondary alignments = 0 number of mapped bases = 389,087,292 bp number of sequenced bases = 388,971,153 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 95,972 duplication rate = 1.43% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.3485 >>>>>>> ACTG content number of A's = 112,773,956 bp (28.99%) number of C's = 81,715,392 bp (21.01%) number of T's = 113,388,730 bp (29.15%) number of G's = 81,090,879 bp (20.85%) number of N's = 2,196 bp (0%) GC percentage = 41.86% >>>>>>> Mismatches and indels general error rate = 0.0038 number of mismatches = 1,339,210 number of insertions = 104,697 mapped reads with insertion percentage = 2.59% number of deletions = 52,276 mapped reads with deletion percentage = 1.3% homopolymer indels = 49.05% >>>>>>> Coverage mean coverageData = 0.1257X std coverageData = 0.9729X There is a 10.17% of reference with a coverageData >= 1X There is a 1.71% of reference with a coverageData >= 2X There is a 0.33% of reference with a coverageData >= 3X There is a 0.08% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.01% of reference with a coverageData >= 6X There is a 0.01% 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% 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 48883528 0.196121990805391 2.619390437691997 chr2 243199373 29550635 0.12150785849271084 0.4666613780689332 chr3 198022430 25987951 0.13123741083270213 0.4313216913600566 chr4 191154276 16414392 0.08586986565762202 0.37111980831261776 chr5 180915260 31582165 0.17456882852225955 0.4844431054643398 chr6 171115067 22708123 0.13270674171550306 0.6678610684466999 chr7 159138663 21473687 0.13493695746331613 0.5606360715712162 chr8 146364022 18686363 0.1276704667216647 0.4663089249363883 chr9 141213431 17668258 0.12511740473184876 0.5216267028048545 chr10 135534747 19950054 0.14719512480441638 1.1981867739089638 chr11 135006516 18121826 0.13422926934874757 0.5456553446068203 chr12 133851895 21246312 0.15873000527934253 0.45750484423786086 chr13 115169878 10228773 0.08881465516530286 0.3386053133795041 chr14 107349540 8418469 0.07842109989479229 0.33052137522681724 chr15 102531392 4358839 0.04251223859323006 0.23081567460149469 chr16 90354753 11371537 0.12585433109423697 0.6975370762387546 chr17 81195210 12030654 0.14816950408774113 0.5621898679572936 chr18 78077248 7651500 0.09799909955842706 0.9212146732709938 chr19 59128983 7772297 0.1314464853894071 1.8954638455867838 chr20 63025520 7626928 0.1210133292037892 0.40530967881160374 chr21 48129895 4793503 0.09959512689566433 0.38167991636982285 chr22 51304566 5082647 0.09906812192895267 0.3633884992292057 chrMT 16571 1497687 90.38000120692776 37.034420976266276 chrX 155270560 15246896 0.09819566568189102 0.39393878518524916 chrY 59373566 734268 0.012366917627955849 0.4657629299150731