BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9717037.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 = 739,235 number of mapped reads = 536,612 (72.59%) number of supplementary alignments = 1,560 (0.21%) number of secondary alignments = 0 number of mapped bases = 30,287,390 bp number of sequenced bases = 30,278,436 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,638 duplication rate = 1.29% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.0007 >>>>>>> ACTG content number of A's = 7,667,367 bp (25.32%) number of C's = 5,959,186 bp (19.68%) number of T's = 9,462,740 bp (31.25%) number of G's = 7,188,719 bp (23.74%) number of N's = 424 bp (0%) GC percentage = 43.42% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 152,522 number of insertions = 2,041 mapped reads with insertion percentage = 0.38% number of deletions = 5,645 mapped reads with deletion percentage = 1.04% homopolymer indels = 42.66% >>>>>>> Coverage mean coverageData = 0.0098X std coverageData = 0.1238X There is a 0.93% 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 2500658 0.010032705194343327 0.1330662848441224 chr2 243199373 3001356 0.012341133790669765 0.15845965716833 chr3 198022430 2453077 0.012387874444324312 0.12085190051418075 chr4 191154276 1426989 0.007465116814860056 0.0913884442220735 chr5 180915260 1543757 0.008533039169830118 0.0954545731839698 chr6 171115067 1722128 0.010064151744159386 0.1086752425320689 chr7 159138663 1703143 0.010702257816505597 0.21758552797810818 chr8 146364022 2248120 0.015359785617260504 0.13584276803972373 chr9 141213431 1241713 0.008793165007087746 0.10295952892717401 chr10 135534747 1455814 0.010741260320499215 0.16527013208368155 chr11 135006516 913202 0.006764132777117217 0.09300810330281196 chr12 133851895 1431412 0.010693998766323033 0.11094129144434567 chr13 115169878 807529 0.007011633719018092 0.08651727760363535 chr14 107349540 976882 0.009100011048021259 0.09871646846694243 chr15 102531392 723948 0.007060744869239657 0.08737569529117586 chr16 90354753 941241 0.010417171966592616 0.10977842936633879 chr17 81195210 1287207 0.015853238140525777 0.1321916204752144 chr18 78077248 712773 0.00912907432393109 0.12123441794593168 chr19 59128983 627010 0.010604105942427592 0.13863895872178805 chr20 63025520 675355 0.010715579974588071 0.10887015910452624 chr21 48129895 307668 0.006392451095104197 0.08371245582902447 chr22 51304566 444972 0.008673146167925872 0.09675285405877894 chrMT 16571 16707 1.0082071088045381 1.2206838167598486 chrX 155270560 1057610 0.006811400693086957 0.0914035033212252 chrY 59373566 67119 0.0011304525653722736 0.03834521387207895