BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751191.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 = 5,726,391 number of mapped reads = 5,433,558 (94.89%) number of supplementary alignments = 136,204 (2.38%) number of secondary alignments = 0 number of mapped bases = 535,286,749 bp number of sequenced bases = 535,141,462 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 136,533 duplication rate = 1.64% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.5068 >>>>>>> ACTG content number of A's = 155,824,220 bp (29.12%) number of C's = 111,688,975 bp (20.87%) number of T's = 156,572,813 bp (29.26%) number of G's = 111,052,513 bp (20.75%) number of N's = 2,941 bp (0%) GC percentage = 41.62% >>>>>>> Mismatches and indels general error rate = 0.0035 number of mismatches = 1,737,300 number of insertions = 83,531 mapped reads with insertion percentage = 1.51% number of deletions = 67,561 mapped reads with deletion percentage = 1.22% homopolymer indels = 47.65% >>>>>>> Coverage mean coverageData = 0.1729X std coverageData = 1.1699X There is a 13.25% of reference with a coverageData >= 1X There is a 2.83% of reference with a coverageData >= 2X There is a 0.67% of reference with a coverageData >= 3X There is a 0.18% of reference with a coverageData >= 4X There is a 0.06% 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% 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 66829520 0.2681217793234706 3.221870908388964 chr2 243199373 40344221 0.16588949429569458 0.5488287941955435 chr3 198022430 35920249 0.18139485006824732 0.5173398493132545 chr4 191154276 23705718 0.12401353763072503 0.4584062070597182 chr5 180915260 42385436 0.2342833655933723 0.5820503247951512 chr6 171115067 30309567 0.17712973808437338 0.913845512439508 chr7 159138663 29493305 0.18533085828426246 0.6483414462327279 chr8 146364022 24874775 0.1699514310969126 0.5322471136884412 chr9 141213431 23350690 0.1653574297759255 0.5945466643850644 chr10 135534747 25990901 0.1917655920367048 1.3734019199477445 chr11 135006516 24642719 0.18252984915187354 0.6456469753117164 chr12 133851895 28695547 0.2143828221483155 0.553458745955353 chr13 115169878 14845665 0.12890232461651127 0.4227603057418299 chr14 107349540 11574922 0.10782460735276556 0.39410138070031453 chr15 102531392 14181249 0.1383112890928078 0.44466678760574163 chr16 90354753 15807979 0.17495459259348536 0.7354509775238699 chr17 81195210 17348384 0.21366265325257489 0.7450392468069201 chr18 78077248 10574114 0.13543143836217178 0.9368415529645167 chr19 59128983 11154782 0.18865168034430763 2.2870216842904503 chr20 63025520 10005400 0.15875156603229928 0.482921534370742 chr21 48129895 4667263 0.09697222485110346 0.39659206925713386 chr22 51304566 4840547 0.0943492436910976 0.3666767399753153 chrMT 16571 1509744 91.10759761028302 31.644186014316674 chrX 155270560 21344856 0.1374687899625016 0.4750770047318517 chrY 59373566 889196 0.014976294332733864 0.48212685108258485