BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9717014.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 = 937,693 number of mapped reads = 855,340 (91.22%) number of supplementary alignments = 3,578 (0.38%) number of secondary alignments = 0 number of mapped bases = 49,038,397 bp number of sequenced bases = 49,025,506 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,923 duplication rate = 1.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5998 >>>>>>> ACTG content number of A's = 11,985,654 bp (24.45%) number of C's = 9,080,416 bp (18.52%) number of T's = 14,990,566 bp (30.58%) number of G's = 12,967,830 bp (26.45%) number of N's = 1,040 bp (0%) GC percentage = 44.97% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 243,869 number of insertions = 2,481 mapped reads with insertion percentage = 0.29% number of deletions = 7,593 mapped reads with deletion percentage = 0.88% homopolymer indels = 43.08% >>>>>>> Coverage mean coverageData = 0.0158X std coverageData = 0.1559X There is a 1.48% of reference with a coverageData >= 1X There is a 0.07% 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 3941597 0.015813790088811855 0.22299096776170313 chr2 243199373 4134476 0.01700035632904366 0.16856822741547198 chr3 198022430 3249632 0.01641042380906042 0.13429435967361003 chr4 191154276 3129727 0.016372780486479936 0.14115942292276407 chr5 180915260 2937117 0.016234766486807137 0.13457885049724125 chr6 171115067 2787899 0.01629253956929462 0.13917099932807162 chr7 159138663 2648899 0.01664522593104857 0.1665518089882232 chr8 146364022 2483339 0.01696686771835226 0.14898194135376303 chr9 141213431 2054673 0.014550124484971972 0.1535235742578008 chr10 135534747 2340284 0.017267040753763313 0.16077824130918256 chr11 135006516 2247330 0.016646085437831755 0.15501603700422323 chr12 133851895 2220818 0.01659160671576596 0.13664111783155863 chr13 115169878 1526946 0.013258206282028014 0.12014430149904563 chr14 107349540 1482153 0.013806794141828647 0.12902335811116833 chr15 102531392 1422466 0.01387346813744614 0.12351309449420474 chr16 90354753 1475662 0.016331869115950103 0.14063337363318937 chr17 81195210 1392921 0.017155211495850555 0.14222948969808166 chr18 78077248 1324228 0.016960485082670947 0.24904862390267127 chr19 59128983 1041196 0.017608894101899232 0.179033320756136 chr20 63025520 1069486 0.01696909442397302 0.13919892153603178 chr21 48129895 643623 0.013372624228662871 0.13006171006308645 chr22 51304566 606458 0.011820741257220654 0.11414618438782602 chrMT 16571 2169 0.13089131615472813 0.3675886300705145 chrX 155270560 2734980 0.01761428567012317 0.15096145214285484 chrY 59373566 140318 0.0023633076039259624 0.06468953894207977