BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751217.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 5,354,033 number of mapped reads = 3,333,619 (62.26%) number of supplementary alignments = 196,099 (3.66%) number of secondary alignments = 0 number of mapped bases = 327,535,957 bp number of sequenced bases = 327,424,767 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 125,720 duplication rate = 1.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.8915 >>>>>>> ACTG content number of A's = 97,321,270 bp (29.72%) number of C's = 66,288,586 bp (20.25%) number of T's = 97,921,316 bp (29.91%) number of G's = 65,891,262 bp (20.12%) number of N's = 2,333 bp (0%) GC percentage = 40.37% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 1,334,263 number of insertions = 291,578 mapped reads with insertion percentage = 8.32% number of deletions = 52,021 mapped reads with deletion percentage = 1.53% homopolymer indels = 53.81% >>>>>>> Coverage mean coverageData = 0.1058X std coverageData = 1.311X There is a 8.51% of reference with a coverageData >= 1X There is a 1.35% of reference with a coverageData >= 2X There is a 0.26% of reference with a coverageData >= 3X There is a 0.07% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% 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 39223008 0.15736373230540518 3.5831943180849084 chr2 243199373 24712451 0.10161395851953944 0.5673279657337456 chr3 198022430 21852936 0.11035586221217465 0.5236408172674156 chr4 191154276 15727010 0.08227391157077753 0.4458355422309242 chr5 180915260 27348947 0.15116992894905604 0.4884139245336609 chr6 171115067 18743969 0.1095401435339414 0.8026866265587229 chr7 159138663 18240689 0.11462135383153244 0.8441080319153352 chr8 146364022 16281777 0.11124166156078985 0.5057765748668619 chr9 141213431 13878667 0.09828149420149702 0.6205411467066858 chr10 135534747 17087478 0.12607451873577483 2.379572700909847 chr11 135006516 14609731 0.10821500645198488 0.6835477744647069 chr12 133851895 17105987 0.12779786942874435 0.42724663643379734 chr13 115169878 9600825 0.08336229200485912 0.3324203399443166 chr14 107349540 6847285 0.0637849496141297 0.3143348887743834 chr15 102531392 7734685 0.07543723779737624 0.31520074082685684 chr16 90354753 9276269 0.10266498099994806 1.008140671083458 chr17 81195210 8358194 0.1029394960614056 0.6487911718941086 chr18 78077248 6743842 0.08637397158260496 1.190892318852097 chr19 59128983 5577847 0.09433355212620519 2.4429362492454194 chr20 63025520 5453089 0.08652192000954534 0.3684927033294555 chr21 48129895 4113346 0.08546343182340206 0.3983602154238088 chr22 51304566 3135972 0.06112461803107349 0.2823775863929907 chrMT 16571 809445 48.84708225212721 19.508461225753013 chrX 155270560 14244090 0.09173722307693101 0.42044186968044456 chrY 59373566 828418 0.01395264013618451 0.542712098051049