BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751196.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 = 7,374,927 number of mapped reads = 7,289,365 (98.84%) number of supplementary alignments = 213,789 (2.9%) number of secondary alignments = 0 number of mapped bases = 1,060,589,661 bp number of sequenced bases = 1,060,257,110 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,056,482 duplication rate = 13.64% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.6999 >>>>>>> ACTG content number of A's = 303,224,513 bp (28.6%) number of C's = 227,886,825 bp (21.49%) number of T's = 303,699,950 bp (28.64%) number of G's = 225,435,797 bp (21.26%) number of N's = 10,025 bp (0%) GC percentage = 42.76% >>>>>>> Mismatches and indels general error rate = 0.0084 number of mismatches = 8,540,869 number of insertions = 224,864 mapped reads with insertion percentage = 2.99% number of deletions = 132,983 mapped reads with deletion percentage = 1.78% homopolymer indels = 49.41% >>>>>>> Coverage mean coverageData = 0.3426X std coverageData = 1.5474X There is a 19.85% of reference with a coverageData >= 1X There is a 7.79% of reference with a coverageData >= 2X There is a 3.26% of reference with a coverageData >= 3X There is a 1.46% of reference with a coverageData >= 4X There is a 0.7% of reference with a coverageData >= 5X There is a 0.36% of reference with a coverageData >= 6X There is a 0.19% of reference with a coverageData >= 7X There is a 0.11% of reference with a coverageData >= 8X There is a 0.07% of reference with a coverageData >= 9X There is a 0.04% of reference with a coverageData >= 10X There is a 0.03% of reference with a coverageData >= 11X There is a 0.02% of reference with a coverageData >= 12X There is a 0.02% 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 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% of reference with a coverageData >= 18X There is a 0.01% of reference with a coverageData >= 19X There is a 0.01% of reference with a coverageData >= 20X There is a 0.01% of reference with a coverageData >= 21X There is a 0.01% of reference with a coverageData >= 22X There is a 0.01% of reference with a coverageData >= 23X There is a 0.01% 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 116019601 0.4654736687697159 3.7377830790172473 chr2 243199373 83417886 0.3430020602890288 1.0715038613615406 chr3 198022430 72060815 0.36390228622080845 0.905006411910095 chr4 191154276 46690600 0.2442561107029591 0.7740563939654221 chr5 180915260 73822198 0.40804848634659124 0.9366530575945383 chr6 171115067 60681188 0.35462212103157464 1.212075798366803 chr7 159138663 62399393 0.3921070582326056 1.3023387074975263 chr8 146364022 53962505 0.36868695095028203 0.9300661522227124 chr9 141213431 47601161 0.33708664015110573 1.134731138419771 chr10 135534747 52191845 0.3850809195076743 2.4781410268417408 chr11 135006516 48080919 0.35613776597271796 1.0943116901778946 chr12 133851895 57025303 0.42603284025228033 0.9908390007753111 chr13 115169878 29894646 0.2595700066644162 0.7384587465428699 chr14 107349540 22756121 0.21198154179328574 0.6813178889242109 chr15 102531392 29145178 0.28425614274309274 0.8158874014966443 chr16 90354753 31179584 0.34507962187667096 0.9539690070504299 chr17 81195210 34239338 0.42169159978772147 1.3991072465900432 chr18 78077248 21392068 0.27398593761911283 1.275902937217306 chr19 59128983 20956283 0.35441642891101305 2.5265028331869592 chr20 63025520 21936597 0.3480589608780697 0.9060063897610354 chr21 48129895 14602086 0.3033891098245695 0.9678714132430607 chr22 51304566 14600306 0.2845810254003513 0.8230043246946485 chrMT 16571 905518 54.644740812262384 26.504304227647676 chrX 155270560 43774393 0.2819233278993777 0.831091856812702 chrY 59373566 1254129 0.021122682777719632 0.5128452825045108