BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751215.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 = 4,855,803 number of mapped reads = 3,996,709 (82.31%) number of supplementary alignments = 212,991 (4.39%) number of secondary alignments = 0 number of mapped bases = 393,679,641 bp number of sequenced bases = 393,554,165 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 145,663 duplication rate = 1.75% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.0289 >>>>>>> ACTG content number of A's = 117,630,316 bp (29.89%) number of C's = 79,071,212 bp (20.09%) number of T's = 118,214,270 bp (30.04%) number of G's = 78,635,452 bp (19.98%) number of N's = 2,915 bp (0%) GC percentage = 40.07% >>>>>>> Mismatches and indels general error rate = 0.0047 number of mismatches = 1,548,081 number of insertions = 223,019 mapped reads with insertion percentage = 5.39% number of deletions = 58,940 mapped reads with deletion percentage = 1.44% homopolymer indels = 52.33% >>>>>>> Coverage mean coverageData = 0.1272X std coverageData = 1.5214X There is a 10.02% of reference with a coverageData >= 1X There is a 1.82% of reference with a coverageData >= 2X There is a 0.38% of reference with a coverageData >= 3X There is a 0.09% 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 0.01% 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 36464791 0.1462976936775616 4.284740408857428 chr2 243199373 30191083 0.12414128633464856 0.6024947734884442 chr3 198022430 25692905 0.1297474483067398 0.547867635182683 chr4 191154276 22717154 0.11884198708691193 0.4584953165923436 chr5 180915260 35207927 0.19461004560919848 0.5406081811453645 chr6 171115067 20418385 0.11932546536068621 0.798582978938007 chr7 159138663 19306539 0.12131897199613899 0.7465199211482981 chr8 146364022 27626902 0.1887547337282109 0.956197153151096 chr9 141213431 16771543 0.11876733594837732 0.7831427045080502 chr10 135534747 17156102 0.12658083908180387 2.4043518347488457 chr11 135006516 17538093 0.12990552989309048 0.6871604766450705 chr12 133851895 16898725 0.12624942665174818 0.4240195240118237 chr13 115169878 16272496 0.14129124978321153 0.4379287850282564 chr14 107349540 10157855 0.09462411296778729 0.37864245413404657 chr15 102531392 12135953 0.11836329111770959 0.4000791985922968 chr16 90354753 10636919 0.117723956370065 0.951321521185242 chr17 81195210 10434449 0.12851064736454282 0.7492316536443752 chr18 78077248 7160169 0.09170621638713496 1.7385964855946983 chr19 59128983 6898926 0.11667587788546947 2.9738887003258623 chr20 63025520 6966648 0.11053693805302994 0.4030739134907552 chr21 48129895 3162750 0.06571279658931314 0.3521293860760989 chr22 51304566 3221112 0.06278411944854967 0.2931976593635348 chrMT 16571 263667 15.911351155633335 9.62345378007536 chrX 155270560 19151293 0.12334143059701723 0.48203377556170796 chrY 59373566 1227255 0.020670057109252963 0.9509596365771822