BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525082.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 = 524,755 number of mapped reads = 482,555 (91.96%) number of supplementary alignments = 1,631 (0.31%) number of secondary alignments = 0 number of mapped bases = 28,117,972 bp number of sequenced bases = 28,109,324 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,867 duplication rate = 2.44% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8263 >>>>>>> ACTG content number of A's = 6,979,380 bp (24.83%) number of C's = 5,000,469 bp (17.79%) number of T's = 8,805,364 bp (31.33%) number of G's = 7,321,387 bp (26.05%) number of N's = 2,724 bp (0.01%) GC percentage = 43.84% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 131,424 number of insertions = 2,024 mapped reads with insertion percentage = 0.42% number of deletions = 5,338 mapped reads with deletion percentage = 1.1% homopolymer indels = 43.66% >>>>>>> Coverage mean coverageData = 0.0091X std coverageData = 0.1152X There is a 0.85% of reference with a coverageData >= 1X There is a 0.04% 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 2190373 0.00878783367203727 0.16852673451554112 chr2 243199373 2460812 0.010118496481485583 0.13122443215994362 chr3 198022430 1777430 0.008975902376311613 0.09892025633819614 chr4 191154276 1748058 0.009144749657601172 0.10527597818607319 chr5 180915260 1663281 0.009193702068028976 0.10016402619103222 chr6 171115067 1576676 0.009214127239888233 0.10276117907985947 chr7 159138663 1525025 0.00958299492562659 0.12623441745777822 chr8 146364022 1566297 0.010701379878724568 0.12223651652937041 chr9 141213431 1136904 0.008050962234605007 0.10071184239063875 chr10 135534747 1443973 0.010653895270118445 0.13005268551044874 chr11 135006516 1235425 0.009150854615046876 0.10538873316819292 chr12 133851895 1293464 0.009663396995612203 0.10316153409997827 chr13 115169878 863692 0.007499287270235712 0.09062078227241734 chr14 107349540 820670 0.0076448394655440535 0.09205918234285063 chr15 102531392 774496 0.007553745100817514 0.09153278143870641 chr16 90354753 795164 0.008800466755744437 0.10109310684446043 chr17 81195210 755378 0.00930323352818473 0.1024306020253758 chr18 78077248 741442 0.009496261958413289 0.13344396356959665 chr19 59128983 592415 0.010019029077499946 0.13802968704677201 chr20 63025520 580419 0.009209269514952038 0.10101872115570569 chr21 48129895 368205 0.007650234848839791 0.09773080758002775 chr22 51304566 347046 0.006764427166190238 0.0864508137052944 chrMT 16571 3869 0.23348017621145375 0.53345418078583 chrX 155270560 1763421 0.011357085335429975 0.114814774606398 chrY 59373566 94037 0.0015838193043685468 0.06428359315888726