BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524698.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 = 99,097 number of mapped reads = 91,014 (91.84%) number of supplementary alignments = 299 (0.3%) number of secondary alignments = 0 number of mapped bases = 5,370,453 bp number of sequenced bases = 5,368,909 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 740 duplication rate = 0.66% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8023 >>>>>>> ACTG content number of A's = 1,330,828 bp (24.79%) number of C's = 951,469 bp (17.72%) number of T's = 1,765,434 bp (32.88%) number of G's = 1,320,525 bp (24.6%) number of N's = 653 bp (0.01%) GC percentage = 42.32% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 26,754 number of insertions = 381 mapped reads with insertion percentage = 0.42% number of deletions = 1,000 mapped reads with deletion percentage = 1.09% homopolymer indels = 44.32% >>>>>>> Coverage mean coverageData = 0.0017X std coverageData = 0.0439X There is a 0.17% of reference with a coverageData >= 1X There is a 0% 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 425384 0.0017066517158246118 0.05012733393047058 chr2 243199373 459979 0.0018913658959145425 0.048569419304913736 chr3 198022430 359042 0.0018131380369385427 0.04285122842358032 chr4 191154276 340727 0.0017824712432799568 0.04284147144623736 chr5 180915260 320908 0.001773802829015087 0.0425132549922719 chr6 171115067 311341 0.0018194832603490143 0.04332711398638313 chr7 159138663 302916 0.0019034720682553428 0.046812208234957346 chr8 146364022 277393 0.0018952266835083284 0.04565189480989432 chr9 141213431 224667 0.0015909747281758206 0.041366175121143746 chr10 135534747 262076 0.0019336443664885433 0.04644536537092528 chr11 135006516 241153 0.0017862323030393586 0.04308994805078144 chr12 133851895 246477 0.0018414158424876989 0.04329765155669171 chr13 115169878 167889 0.0014577509581107657 0.03846907375954366 chr14 107349540 159450 0.0014853347298926479 0.038784271444547255 chr15 102531392 155734 0.0015188909168423266 0.03935144850561009 chr16 90354753 155780 0.0017240930313870706 0.04206053159670281 chr17 81195210 143180 0.001763404516103844 0.042565560787733055 chr18 78077248 139763 0.001790060530821988 0.04865670764499619 chr19 59128983 109196 0.0018467424004231562 0.04802840614693545 chr20 63025520 113130 0.001794987173449739 0.04268424816016397 chr21 48129895 72497 0.0015062779588444978 0.03923749476869461 chr22 51304566 62455 0.0012173380435573707 0.035148356293856195 chrMT 16571 295 0.017802184539255327 0.13223186743325388 chrX 155270560 299722 0.0019303208541271444 0.04458293555207042 chrY 59373566 19299 3.25043639790812E-4 0.0202972980371601