BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524696.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 = 157,985 number of mapped reads = 143,354 (90.74%) number of supplementary alignments = 508 (0.32%) number of secondary alignments = 0 number of mapped bases = 8,412,212 bp number of sequenced bases = 8,409,650 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,685 duplication rate = 0.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7792 >>>>>>> ACTG content number of A's = 2,207,768 bp (26.25%) number of C's = 1,551,517 bp (18.45%) number of T's = 2,710,112 bp (32.23%) number of G's = 1,939,173 bp (23.06%) number of N's = 1,080 bp (0.01%) GC percentage = 41.51% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 43,617 number of insertions = 652 mapped reads with insertion percentage = 0.45% number of deletions = 1,626 mapped reads with deletion percentage = 1.12% homopolymer indels = 41.88% >>>>>>> Coverage mean coverageData = 0.0027X std coverageData = 0.057X There is a 0.26% 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 682293 0.0027373773323517616 0.07061538655379399 chr2 243199373 716587 0.002946500195130026 0.06632454865030528 chr3 198022430 553941 0.002797364924771401 0.053525782349002085 chr4 191154276 542695 0.0028390419056071757 0.05462268984372807 chr5 180915260 513425 0.0028379308633224194 0.053913626873581894 chr6 171115067 481498 0.002813884296933361 0.05473829794225017 chr7 159138663 464060 0.002916073261216226 0.061902708136617184 chr8 146364022 426838 0.0029162767882943254 0.0596828621431602 chr9 141213431 360259 0.002551166680455487 0.05286393796188356 chr10 135534747 416963 0.0030764288068505416 0.05974956545920664 chr11 135006516 377042 0.002792768906057838 0.05521364065193763 chr12 133851895 376716 0.002814424106584371 0.05387015568207664 chr13 115169878 261725 0.0022725126095905043 0.0484184878322491 chr14 107349540 249334 0.0023226368738981087 0.049081005436143965 chr15 102531392 238074 0.0023219620387090814 0.04865330210893027 chr16 90354753 238453 0.0026390753345316544 0.05238347474639998 chr17 81195210 227661 0.0028038722973929126 0.0537697066352152 chr18 78077248 222256 0.0028466167250157178 0.06435567295677795 chr19 59128983 177674 0.003004854658163155 0.06276016210654295 chr20 63025520 173665 0.0027554711170966937 0.05337708733498568 chr21 48129895 110857 0.0023032878006486405 0.04938769522486551 chr22 51304566 93903 0.0018303049284151434 0.043222924721785565 chrMT 16571 1052 0.06348440045863254 0.26743860792857294 chrX 155270560 476677 0.0030699766910095515 0.057041253402059455 chrY 59373566 28564 4.810895138082156E-4 0.027918498194079645