BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524724.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 = 677,483 number of mapped reads = 623,248 (91.99%) number of supplementary alignments = 2,024 (0.3%) number of secondary alignments = 0 number of mapped bases = 36,552,806 bp number of sequenced bases = 36,541,395 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,773 duplication rate = 1.6% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5857 >>>>>>> ACTG content number of A's = 9,522,958 bp (26.06%) number of C's = 6,760,539 bp (18.5%) number of T's = 11,777,711 bp (32.23%) number of G's = 8,475,352 bp (23.19%) number of N's = 4,835 bp (0.01%) GC percentage = 41.69% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 184,366 number of insertions = 3,257 mapped reads with insertion percentage = 0.52% number of deletions = 7,087 mapped reads with deletion percentage = 1.13% homopolymer indels = 42.85% >>>>>>> Coverage mean coverageData = 0.0118X std coverageData = 0.1419X There is a 1.12% 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 2943725 0.01181030156791465 0.20933190582204594 chr2 243199373 3083530 0.012679021174943572 0.19137185695426476 chr3 198022430 2435135 0.012297268546800482 0.11557632105398534 chr4 191154276 2370840 0.012402756818267566 0.12289377610663459 chr5 180915260 2177808 0.012037724180923156 0.1142892853327035 chr6 171115067 2128283 0.012437729986687848 0.1258462546246815 chr7 159138663 2004028 0.012592967429919905 0.15607666558292158 chr8 146364022 1840793 0.01257681344668159 0.15248851660200316 chr9 141213431 1538686 0.01089617318341341 0.12656236842563168 chr10 135534747 1789050 0.013199936101994568 0.14870468503538958 chr11 135006516 1653223 0.012245505246576395 0.12634320127924836 chr12 133851895 1646016 0.01229729321351782 0.11550260418455986 chr13 115169878 1152776 0.010009353313719755 0.10402122330556872 chr14 107349540 1120841 0.010441041480010068 0.10787896844467942 chr15 102531392 1045133 0.010193297678041863 0.10500440654791325 chr16 90354753 1073904 0.011885417914871617 0.11728409433119635 chr17 81195210 995547 0.012261154321788195 0.11764294469796537 chr18 78077248 959885 0.01229404243346282 0.19041379080901807 chr19 59128983 768939 0.013004434728735314 0.18046433386323835 chr20 63025520 767715 0.012181018101873654 0.11481308435452353 chr21 48129895 482637 0.010027800808624246 0.11242717352001888 chr22 51304566 435083 0.008480395292691883 0.09562737763435081 chrMT 16571 10367 0.6256110071812202 0.8260564838430994 chrX 155270560 2009964 0.012944913704181913 0.12419931567591204 chrY 59373566 118898 0.00200254099610591 0.07374412438836035