BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525261.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 = 583,027 number of mapped reads = 531,862 (91.22%) number of supplementary alignments = 2,448 (0.42%) number of secondary alignments = 0 number of mapped bases = 30,888,349 bp number of sequenced bases = 30,878,996 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,735 duplication rate = 1.44% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8929 >>>>>>> ACTG content number of A's = 8,053,653 bp (26.08%) number of C's = 5,843,479 bp (18.92%) number of T's = 9,886,936 bp (32.02%) number of G's = 7,094,173 bp (22.97%) number of N's = 755 bp (0%) GC percentage = 41.9% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 152,782 number of insertions = 2,419 mapped reads with insertion percentage = 0.45% number of deletions = 6,028 mapped reads with deletion percentage = 1.13% homopolymer indels = 43.6% >>>>>>> Coverage mean coverageData = 0.01X std coverageData = 0.1334X There is a 0.95% 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 3322317 0.01332922255788482 0.23639361720387195 chr2 243199373 2598344 0.010684007807865525 0.14562723636447547 chr3 198022430 2327288 0.011752648424726432 0.11235589274159709 chr4 191154276 1466224 0.007670369874435872 0.09215100294890949 chr5 180915260 1391863 0.007693452724772913 0.09058249379951029 chr6 171115067 1956919 0.011436275217073667 0.11567173037094418 chr7 159138663 2317175 0.014560729343314892 0.2069654908540566 chr8 146364022 1776117 0.012134928896665603 0.1381650881343666 chr9 141213431 997211 0.007061729135382314 0.09680576270703395 chr10 135534747 1632993 0.0120485191889575 0.14284502062236304 chr11 135006516 1388510 0.010284762848039128 0.1121081690227774 chr12 133851895 1322261 0.009878537767433178 0.1028515214529514 chr13 115169878 966302 0.008390232036192657 0.09418994487702399 chr14 107349540 1158439 0.010791280521556031 0.10802900348439456 chr15 102531392 858082 0.008368968598417155 0.09486480924058224 chr16 90354753 765491 0.008472061231798177 0.10025585568386858 chr17 81195210 509342 0.006273054777492416 0.0838742984142038 chr18 78077248 650907 0.008336705207642564 0.15061803443676022 chr19 59128983 413111 0.006986607566039145 0.1442307618920612 chr20 63025520 527976 0.008377178006623348 0.09451792831274415 chr21 48129895 393942 0.008184975263295298 0.09482336583290901 chr22 51304566 224269 0.00437132632600381 0.06771909300034083 chrMT 16571 36224 2.1859875686440167 1.842482638585538 chrX 155270560 1793675 0.011551932317369114 0.11482716912839262 chrY 59373566 93367 0.0015725348213041473 0.05646944786205532