BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525192.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 = 1,844,058 number of mapped reads = 1,726,185 (93.61%) number of supplementary alignments = 5,844 (0.32%) number of secondary alignments = 0 number of mapped bases = 103,632,209 bp number of sequenced bases = 103,596,881 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 58,181 duplication rate = 2.33% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.4386 >>>>>>> ACTG content number of A's = 25,559,035 bp (24.67%) number of C's = 19,962,195 bp (19.27%) number of T's = 32,521,589 bp (31.39%) number of G's = 25,551,452 bp (24.66%) number of N's = 2,610 bp (0%) GC percentage = 43.93% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 521,675 number of insertions = 6,295 mapped reads with insertion percentage = 0.36% number of deletions = 21,971 mapped reads with deletion percentage = 1.26% homopolymer indels = 43.63% >>>>>>> Coverage mean coverageData = 0.0335X std coverageData = 0.3284X There is a 3.01% of reference with a coverageData >= 1X There is a 0.24% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 11301483 0.045341844905573976 0.6386300735376575 chr2 243199373 8611251 0.035408195727544084 0.37933653659997435 chr3 198022430 7963100 0.04021312131156051 0.22166334256324952 chr4 191154276 4477201 0.023421924393676654 0.18007219703107905 chr5 180915260 4573842 0.025281681600546023 0.1719923446945042 chr6 171115067 5864316 0.03427118431365252 0.22804649769018023 chr7 159138663 7523378 0.047275613971948474 0.588839594911459 chr8 146364022 5954072 0.04067988784839487 0.2854131338835041 chr9 141213431 3448492 0.024420424994843443 0.2297735249520191 chr10 135534747 6094208 0.04496417438990755 0.36478942274086623 chr11 135006516 4760943 0.035264542342534046 0.25831278710345396 chr12 133851895 4653465 0.03476577600937215 0.20484733777871006 chr13 115169878 2203608 0.01913354462353429 0.1536759396628197 chr14 107349540 3833576 0.03571115442134172 0.21040589691664147 chr15 102531392 2834715 0.027647288744504707 0.1797435613693325 chr16 90354753 2789556 0.030873373091950127 0.21904868597246682 chr17 81195210 1861708 0.02292879099641469 0.17166554591959168 chr18 78077248 2098799 0.02688105759055442 0.4462624356456307 chr19 59128983 1898639 0.032110124403797034 0.4293129377369663 chr20 63025520 2166765 0.03437916894616657 0.20357508655171788 chr21 48129895 1337551 0.02779044084762703 0.19391612003779687 chr22 51304566 1206284 0.023512215267545582 0.1663515719986522 chrMT 16571 84401 5.0932955162633515 3.3162000013487485 chrX 155270560 5760842 0.037101959315404026 0.2237130852664699 chrY 59373566 330014 0.005558264767186125 0.1574631154398524