BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751223.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 = 4,024,655 number of mapped reads = 3,857,619 (95.85%) number of supplementary alignments = 57,073 (1.42%) number of secondary alignments = 0 number of mapped bases = 380,828,570 bp number of sequenced bases = 380,735,063 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 41,076 duplication rate = 1% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.8398 >>>>>>> ACTG content number of A's = 111,587,933 bp (29.31%) number of C's = 78,968,273 bp (20.74%) number of T's = 112,259,435 bp (29.48%) number of G's = 77,917,347 bp (20.46%) number of N's = 2,075 bp (0%) GC percentage = 41.21% >>>>>>> Mismatches and indels general error rate = 0.0028 number of mismatches = 1,000,447 number of insertions = 41,158 mapped reads with insertion percentage = 1.06% number of deletions = 43,860 mapped reads with deletion percentage = 1.12% homopolymer indels = 47.22% >>>>>>> Coverage mean coverageData = 0.123X std coverageData = 0.4134X There is a 10.14% of reference with a coverageData >= 1X There is a 1.74% of reference with a coverageData >= 2X There is a 0.32% of reference with a coverageData >= 3X There is a 0.06% 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 46487160 0.1865076998143166 0.556140207579923 chr2 243199373 28845757 0.11860950398091692 0.3910555490015164 chr3 198022430 26293478 0.1327803017062259 0.4133955914028192 chr4 191154276 17007352 0.08897186270633047 0.3350815633445485 chr5 180915260 31401571 0.17357060427075086 0.47767397706838993 chr6 171115067 22082547 0.12905086259879148 0.41589631063460253 chr7 159138663 21179189 0.13308638265988196 0.41457059070862096 chr8 146364022 18458919 0.12611650559862314 0.4029051768151784 chr9 141213431 16414119 0.11623624526196803 0.39065610768549325 chr10 135534747 17950978 0.1324455786972473 0.43259176426797735 chr11 135006516 17698185 0.13109133932468858 0.4161544477101235 chr12 133851895 20747769 0.15500541848884544 0.4470616674153652 chr13 115169878 11001254 0.0955219732020555 0.3507544981498627 chr14 107349540 8451420 0.07872805044157619 0.3153244307765141 chr15 102531392 9678273 0.09439326640566822 0.3512717912776926 chr16 90354753 9446017 0.10454366468136989 0.3697081715030997 chr17 81195210 10980756 0.1352389629880876 0.42430668655802517 chr18 78077248 7828808 0.10027003000925443 0.3689603495089703 chr19 59128983 6030649 0.10199142102613197 0.38917989376886913 chr20 63025520 6688828 0.10612888239557564 0.3715420632889291 chr21 48129895 4774894 0.09920848570311654 0.3647133600154017 chr22 51304566 4468396 0.08709548386005253 0.33968504616283035 chrMT 16571 376036 22.69241445899463 11.632609316287573 chrX 155270560 16213701 0.10442224849321081 0.36548311625052726 chrY 59373566 322514 0.0054319459269129965 0.10220612920065313