BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9867832.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 = 964,861 number of mapped reads = 894,280 (92.68%) number of supplementary alignments = 3,867 (0.4%) number of secondary alignments = 0 number of mapped bases = 53,046,817 bp number of sequenced bases = 53,031,244 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 26,609 duplication rate = 2.26% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7965 >>>>>>> ACTG content number of A's = 13,762,200 bp (25.95%) number of C's = 10,453,854 bp (19.71%) number of T's = 16,428,823 bp (30.98%) number of G's = 12,379,791 bp (23.34%) number of N's = 6,576 bp (0.01%) GC percentage = 43.06% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 264,284 number of insertions = 4,362 mapped reads with insertion percentage = 0.48% number of deletions = 10,003 mapped reads with deletion percentage = 1.11% homopolymer indels = 43.36% >>>>>>> Coverage mean coverageData = 0.0171X std coverageData = 0.1819X There is a 1.59% of reference with a coverageData >= 1X There is a 0.09% of reference with a coverageData >= 2X There is a 0.01% 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 4340224 0.017413092021945253 0.2918754543668991 chr2 243199373 4501092 0.01850782732075547 0.23028851813138299 chr3 198022430 3545721 0.017905653415120702 0.14112824536778237 chr4 191154276 3372059 0.01764051043252624 0.15156876191621885 chr5 180915260 3172883 0.017537951193282424 0.14034618102326574 chr6 171115067 2998654 0.017524196159768912 0.151319589973057 chr7 159138663 2912162 0.018299525364241623 0.20810098160852666 chr8 146364022 2649170 0.018099871565431566 0.19673267842764725 chr9 141213431 2241370 0.015872215441036907 0.16525302608582562 chr10 135534747 2551553 0.018825821838882394 0.18417762339725224 chr11 135006516 2382057 0.01764401504887364 0.16689822179898947 chr12 133851895 2410755 0.018010615389494486 0.14280306301046186 chr13 115169878 1645227 0.014285219612718527 0.1261069045790254 chr14 107349540 1623642 0.015124815625665467 0.13211860440617543 chr15 102531392 1526661 0.014889693490165432 0.12970703522151714 chr16 90354753 1562682 0.01729496178247535 0.14516751659252575 chr17 81195210 1453337 0.017899294798301525 0.1478345101944329 chr18 78077248 1443177 0.018483963471663346 0.2607411528627131 chr19 59128983 1095754 0.018531588814913322 0.22899940322150383 chr20 63025520 1138642 0.018066364228331636 0.14366679477714187 chr21 48129895 699927 0.014542458486560172 0.1380013936704566 chr22 51304566 632392 0.012326232327937439 0.11689333981376492 chrMT 16571 57643 3.4785468589704904 2.623024875789548 chrX 155270560 2915755 0.01877854372393582 0.15178448140410197 chrY 59373566 174278 0.0029352793126826843 0.10700078695140357