BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9717024.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 = 659,251 number of mapped reads = 592,913 (89.94%) number of supplementary alignments = 3,853 (0.58%) number of secondary alignments = 0 number of mapped bases = 33,980,062 bp number of sequenced bases = 33,971,032 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,205 duplication rate = 1.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.5971 >>>>>>> ACTG content number of A's = 8,566,826 bp (25.22%) number of C's = 6,650,179 bp (19.58%) number of T's = 10,061,934 bp (29.62%) number of G's = 8,691,324 bp (25.58%) number of N's = 769 bp (0%) GC percentage = 45.16% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 168,392 number of insertions = 2,320 mapped reads with insertion percentage = 0.39% number of deletions = 5,357 mapped reads with deletion percentage = 0.9% homopolymer indels = 39.17% >>>>>>> Coverage mean coverageData = 0.011X std coverageData = 0.1207X There is a 1.04% 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 3847044 0.015434440983799997 0.1589003053944036 chr2 243199373 2847499 0.011708496468862196 0.1346737147702133 chr3 198022430 2239841 0.011311046935440596 0.11027067113712308 chr4 191154276 2124938 0.011116350857879842 0.11278459710736069 chr5 180915260 1680015 0.009286198411344626 0.10050459824845927 chr6 171115067 1788684 0.01045310638834627 0.10878517675529047 chr7 159138663 1473501 0.009259226967364932 0.1113806792744405 chr8 146364022 2127405 0.014535026920755157 0.13163535866079437 chr9 141213431 1239103 0.008774682345902353 0.11451605105763904 chr10 135534747 1605317 0.011844320630192345 0.13037906128455204 chr11 135006516 1080904 0.00800630985840713 0.11180397198932705 chr12 133851895 1542081 0.011520800658070623 0.11165746938944447 chr13 115169878 1042590 0.009052627458717983 0.09802397075091598 chr14 107349540 1173793 0.010934308614643342 0.1124550436789099 chr15 102531392 979214 0.009550382384353077 0.10129200264182742 chr16 90354753 1029756 0.011396810525285813 0.11497816260657667 chr17 81195210 792593 0.009761573373601718 0.10398882364181572 chr18 78077248 822986 0.01054066352338648 0.18209949141691673 chr19 59128983 667782 0.011293649342827358 0.12746128766962783 chr20 63025520 1044820 0.016577729148446536 0.13575531692786127 chr21 48129895 439560 0.009132785350975729 0.1025918813841095 chr22 51304566 415347 0.008095712182810395 0.09270883898780369 chrMT 16571 964 0.058173918290990285 0.23407202635441823 chrX 155270560 1876370 0.012084518790941438 0.11981335985430347 chrY 59373566 97955 0.0016498082665272287 0.0512534686304884