BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524965.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 = 447,993 number of mapped reads = 419,775 (93.7%) number of supplementary alignments = 1,093 (0.24%) number of secondary alignments = 0 number of mapped bases = 24,786,062 bp number of sequenced bases = 24,777,592 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,718 duplication rate = 0.98% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7895 >>>>>>> ACTG content number of A's = 6,044,793 bp (24.4%) number of C's = 4,662,046 bp (18.82%) number of T's = 7,824,161 bp (31.58%) number of G's = 6,246,245 bp (25.21%) number of N's = 347 bp (0%) GC percentage = 44.02% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 117,570 number of insertions = 1,304 mapped reads with insertion percentage = 0.31% number of deletions = 4,888 mapped reads with deletion percentage = 1.16% homopolymer indels = 44.2% >>>>>>> Coverage mean coverageData = 0.008X std coverageData = 0.1057X There is a 0.77% of reference with a coverageData >= 1X There is a 0.02% 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 2710770 0.010875680024885474 0.16471732942200085 chr2 243199373 2342609 0.009632463156062495 0.11685229577024274 chr3 198022430 1366989 0.0069032028341435864 0.08524093639055931 chr4 191154276 1568773 0.008206842309925622 0.09394110640763031 chr5 180915260 1064281 0.005882759696445728 0.07857841771009255 chr6 171115067 1654760 0.009670451755133872 0.11308284243668153 chr7 159138663 1530517 0.00961750570947049 0.1302632446675437 chr8 146364022 1506698 0.010294182814954348 0.11398097806306226 chr9 141213431 684373 0.004846373288671104 0.08205068216688714 chr10 135534747 1226819 0.009051693585261941 0.10636322739548679 chr11 135006516 1049782 0.007775787651612312 0.10001405713928874 chr12 133851895 1349618 0.010082920380021516 0.10289443520736019 chr13 115169878 477860 0.004149175186240972 0.06621136562902159 chr14 107349540 573232 0.005339864521077594 0.07562335463152632 chr15 102531392 697470 0.0068025020083605225 0.08727942066341916 chr16 90354753 799856 0.00885239540193309 0.09740929093586119 chr17 81195210 673296 0.008292311824798532 0.1041418979707572 chr18 78077248 484863 0.006210042136731049 0.11217186357582302 chr19 59128983 615716 0.010413099782216785 0.12364851113150546 chr20 63025520 616838 0.009787114806827457 0.10164586765719422 chr21 48129895 349978 0.007271530511338119 0.0881856766698049 chr22 51304566 355012 0.006919695997428377 0.08479162864103233 chrMT 16571 5809 0.35055216945265827 0.6086270313703881 chrX 155270560 1017871 0.006555466792932285 0.08685116404679305 chrY 59373566 62272 0.0010488169095317604 0.03763263809509783