BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525155.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 = 1,309,075 number of mapped reads = 1,083,273 (82.75%) number of supplementary alignments = 4,008 (0.31%) number of secondary alignments = 0 number of mapped bases = 66,919,581 bp number of sequenced bases = 66,897,027 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,078 duplication rate = 1.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5369 >>>>>>> ACTG content number of A's = 17,653,123 bp (26.39%) number of C's = 14,318,160 bp (21.4%) number of T's = 20,258,889 bp (30.28%) number of G's = 14,665,150 bp (21.92%) number of N's = 1,705 bp (0%) GC percentage = 43.33% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 322,775 number of insertions = 4,887 mapped reads with insertion percentage = 0.45% number of deletions = 13,675 mapped reads with deletion percentage = 1.25% homopolymer indels = 43.09% >>>>>>> Coverage mean coverageData = 0.0216X std coverageData = 0.2202X There is a 2% of reference with a coverageData >= 1X There is a 0.11% 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 7582262 0.030420233135547533 0.4341444494614816 chr2 243199373 5874231 0.0241539726338028 0.2345338108276857 chr3 198022430 5450024 0.027522255938380313 0.17730946931969785 chr4 191154276 3943090 0.02062778862451395 0.15768491612475474 chr5 180915260 3203353 0.0177063725857067 0.13992083735374536 chr6 171115067 3147069 0.018391536497484467 0.15008644086902098 chr7 159138663 4097818 0.02574998383642321 0.3116791814817985 chr8 146364022 3241583 0.022147403137090616 0.17839169937709043 chr9 141213431 2108017 0.014927878921092144 0.1599272362765993 chr10 135534747 3072892 0.022672355746530447 0.2522163331960787 chr11 135006516 3178795 0.02354549316715943 0.17727445679555753 chr12 133851895 2739587 0.02046730081781808 0.15195458119293534 chr13 115169878 2848696 0.02473473141996382 0.16558960515013815 chr14 107349540 2013683 0.0187581893690462 0.14942623995454554 chr15 102531392 1877866 0.018315034677379587 0.14368442915171012 chr16 90354753 1905779 0.021092183163845292 0.16494843001985288 chr17 81195210 1437476 0.01770395076261272 0.1459945944652033 chr18 78077248 1537283 0.019689256977909877 0.2947928883439693 chr19 59128983 1294777 0.02189750160255589 0.29038698735406165 chr20 63025520 1322779 0.02098799026172255 0.1564242795108916 chr21 48129895 904529 0.018793496225163176 0.152535898973591 chr22 51304566 532096 0.010371318607392566 0.1064417097492269 chrMT 16571 994 0.05998430993905015 0.23821895564752626 chrX 155270560 3408904 0.02195460620480792 0.16300130265634155 chrY 59373566 195998 0.003301098674113662 0.10026821623284952