BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525150.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 = 1,529,180 number of mapped reads = 1,228,211 (80.32%) number of supplementary alignments = 3,894 (0.25%) number of secondary alignments = 0 number of mapped bases = 72,228,616 bp number of sequenced bases = 72,206,097 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 37,213 duplication rate = 2.2% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0253 >>>>>>> ACTG content number of A's = 18,007,419 bp (24.94%) number of C's = 13,643,071 bp (18.89%) number of T's = 22,798,022 bp (31.57%) number of G's = 17,755,942 bp (24.59%) number of N's = 1,643 bp (0%) GC percentage = 43.49% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 359,967 number of insertions = 5,803 mapped reads with insertion percentage = 0.47% number of deletions = 13,670 mapped reads with deletion percentage = 1.11% homopolymer indels = 41.16% >>>>>>> Coverage mean coverageData = 0.0233X std coverageData = 0.2376X There is a 2.14% of reference with a coverageData >= 1X There is a 0.14% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 7823578 0.031388399228903026 0.40871950665374057 chr2 243199373 5214706 0.02144210297779016 0.30208801747441927 chr3 198022430 4418056 0.022310886701067147 0.16029286927996378 chr4 191154276 3885166 0.020324766368291964 0.15788923010838907 chr5 180915260 3181564 0.01758593498414672 0.14138795169949966 chr6 171115067 4343838 0.025385479351154976 0.1883141268906614 chr7 159138663 5281676 0.03318914398570761 0.40710615984120535 chr8 146364022 4597154 0.03140904395207177 0.2216656798179364 chr9 141213431 2239958 0.015862216392150404 0.16762864619484702 chr10 135534747 4930903 0.03638109864181176 0.255030418571127 chr11 135006516 3265726 0.024189395421477286 0.20316563508710775 chr12 133851895 3291315 0.02458922976025106 0.16923062717876192 chr13 115169878 2176274 0.018896208260288337 0.14814590462357544 chr14 107349540 1658854 0.01545282820960388 0.13888353491000802 chr15 102531392 2009476 0.01959864155555403 0.15139579416088655 chr16 90354753 1999096 0.02212496779223114 0.1835354678703778 chr17 81195210 1307159 0.016098966921817184 0.140632133629363 chr18 78077248 1517993 0.019442193966672596 0.33526237583126706 chr19 59128983 1513997 0.02560498968839021 0.2927708217661572 chr20 63025520 1369120 0.021723263846137247 0.15836267371449536 chr21 48129895 1030626 0.021413427143358612 0.1601831641105979 chr22 51304566 871237 0.016981665920339332 0.1385451059980999 chrMT 16571 83744 5.05364793917084 3.246239566923871 chrX 155270560 3996500 0.025738942398352914 0.1809874625092904 chrY 59373566 220900 0.0037205109088445185 0.0942912041645418