BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251077.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP224945/SRP224945.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 = 3,319,258 number of mapped reads = 3,214,667 (96.85%) number of supplementary alignments = 29,489 (0.89%) number of secondary alignments = 0 number of mapped bases = 249,413,204 bp number of sequenced bases = 249,257,373 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 609,578 duplication rate = 16.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 48.0349 >>>>>>> ACTG content number of A's = 73,372,707 bp (29.44%) number of C's = 49,617,885 bp (19.91%) number of T's = 73,991,668 bp (29.68%) number of G's = 52,255,617 bp (20.96%) number of N's = 19,496 bp (0.01%) GC percentage = 40.87% >>>>>>> Mismatches and indels general error rate = 0.0062 number of mismatches = 1,468,783 number of insertions = 31,804 mapped reads with insertion percentage = 0.97% number of deletions = 87,471 mapped reads with deletion percentage = 2.67% homopolymer indels = 45.15% >>>>>>> Coverage mean coverageData = 0.0806X std coverageData = 0.9361X There is a 5.7% of reference with a coverageData >= 1X There is a 1.5% of reference with a coverageData >= 2X There is a 0.43% of reference with a coverageData >= 3X There is a 0.14% of reference with a coverageData >= 4X There is a 0.05% of reference with a coverageData >= 5X There is a 0.02% 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% 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 20721361 0.08313464141780413 2.025114508491809 chr2 243199373 21588372 0.08876820582921487 1.1761968709571475 chr3 198022430 17126942 0.0864899092491694 0.38825586846696664 chr4 191154276 16238599 0.08495022627691572 0.45567681184579206 chr5 180915260 14999904 0.08291121489696336 0.4012492366105771 chr6 171115067 14626800 0.08547932251927295 0.5204426921250498 chr7 159138663 13553402 0.08516724813755662 1.3239498104054996 chr8 146364022 11985294 0.08188688610921063 0.6144303867470653 chr9 141213431 10774610 0.07630017855737815 0.9701377850905697 chr10 135534747 14381874 0.10611208061649313 0.9242727079661235 chr11 135006516 11245285 0.08329438706499173 0.5809150314408658 chr12 133851895 11404952 0.08520575670594727 0.4036585582323659 chr13 115169878 7650549 0.06642838503310736 0.33727602712648647 chr14 107349540 7341075 0.06838478301816664 0.5460868618045543 chr15 102531392 7400817 0.07218098628759473 0.35180153199810094 chr16 90354753 6864303 0.07597058009776199 0.6994536138742722 chr17 81195210 6579857 0.08103750208910107 0.5063447889229324 chr18 78077248 6293612 0.08060750296936696 1.2022454273141745 chr19 59128983 4999473 0.08455198696720355 1.9536752545192342 chr20 63025520 5056764 0.08023359426467247 0.41650254842611734 chr21 48129895 3125844 0.06494599666174214 0.3727169320043132 chr22 51304566 2833557 0.0552301134366871 0.3392945280963396 chrMT 16571 77713 4.689698871522539 3.5768467816211973 chrX 155270560 11806866 0.0760405964916981 0.45603834359312656 chrY 59373566 735379 0.012385629658828308 0.8285562387569163