BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524392.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 = 548,219 number of mapped reads = 499,688 (91.15%) number of supplementary alignments = 1,862 (0.34%) number of secondary alignments = 0 number of mapped bases = 29,289,047 bp number of sequenced bases = 29,280,695 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,164 duplication rate = 1.39% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7864 >>>>>>> ACTG content number of A's = 7,540,503 bp (25.75%) number of C's = 5,479,991 bp (18.72%) number of T's = 9,358,800 bp (31.96%) number of G's = 6,897,467 bp (23.56%) number of N's = 3,934 bp (0.01%) GC percentage = 42.27% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 142,562 number of insertions = 2,054 mapped reads with insertion percentage = 0.41% number of deletions = 5,227 mapped reads with deletion percentage = 1.04% homopolymer indels = 41.93% >>>>>>> Coverage mean coverageData = 0.0095X std coverageData = 0.1229X There is a 0.9% of reference with a coverageData >= 1X There is a 0.03% 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 2361406 0.009474022534130417 0.21029103061425147 chr2 243199373 2360592 0.009706406603276893 0.1306365412382103 chr3 198022430 1968582 0.009941207165269106 0.10273251223114273 chr4 191154276 1925510 0.010073067892030833 0.10760055285724804 chr5 180915260 1712355 0.009464956134711908 0.10021671247284743 chr6 171115067 1096614 0.006408634956733529 0.08464526488711913 chr7 159138663 1683495 0.010578793162287659 0.15578475262549962 chr8 146364022 2177033 0.014874099319298563 0.13925886574281704 chr9 141213431 1057502 0.007488678608764913 0.09766491644875415 chr10 135534747 1436448 0.010598374452272375 0.11947516285086217 chr11 135006516 1164650 0.008626620658813238 0.10451491753998768 chr12 133851895 1353230 0.010109905429430043 0.10493439362301792 chr13 115169878 935850 0.008125822621779629 0.09260402778847068 chr14 107349540 826991 0.007703721879013175 0.09185431996224387 chr15 102531392 850147 0.008291577666281951 0.09377821935570047 chr16 90354753 876120 0.009696446184740276 0.10369620811992726 chr17 81195210 765245 0.00942475547510746 0.1034868537225815 chr18 78077248 797954 0.010220057961059284 0.13465655761076809 chr19 59128983 799630 0.013523486443188105 0.1646188311517673 chr20 63025520 777985 0.012343967967261517 0.11544228814432017 chr21 48129895 386090 0.008021833415593364 0.0965468248258825 chr22 51304566 191175 0.0037262765267325327 0.06299851190013672 chrMT 16571 5054 0.30499064630981837 0.6054380748658796 chrX 155270560 1690666 0.010888516148843671 0.1119308329518232 chrY 59373566 88723 0.0014943181954070268 0.05174112257262692