BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524469.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 = 524,511 number of mapped reads = 487,467 (92.94%) number of supplementary alignments = 1,020 (0.19%) number of secondary alignments = 0 number of mapped bases = 28,490,198 bp number of sequenced bases = 28,481,306 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,554 duplication rate = 1.88% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5632 >>>>>>> ACTG content number of A's = 7,044,898 bp (24.74%) number of C's = 5,796,734 bp (20.35%) number of T's = 8,638,995 bp (30.33%) number of G's = 7,000,034 bp (24.58%) number of N's = 645 bp (0%) GC percentage = 44.93% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 132,599 number of insertions = 1,877 mapped reads with insertion percentage = 0.38% number of deletions = 5,185 mapped reads with deletion percentage = 1.05% homopolymer indels = 43.49% >>>>>>> Coverage mean coverageData = 0.0092X std coverageData = 0.117X There is a 0.87% of reference with a coverageData >= 1X There is a 0.04% 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 2847485 0.011424184174851063 0.1752665629192633 chr2 243199373 2246716 0.009238165264513244 0.1272012887235193 chr3 198022430 1546100 0.007807701380091134 0.09226063733452715 chr4 191154276 1589372 0.00831460343581328 0.10010295121904375 chr5 180915260 1572255 0.00869056043144177 0.09758495943505657 chr6 171115067 1206226 0.007049209757782463 0.09534607322113549 chr7 159138663 1409570 0.008857495554050243 0.13251300734092844 chr8 146364022 2616337 0.01787554731175671 0.14853576151981498 chr9 141213431 1215331 0.00860634141804826 0.10845066552174568 chr10 135534747 1458758 0.010762981687640586 0.12100600937726819 chr11 135006516 983940 0.007288092672504785 0.1063797526692074 chr12 133851895 1333495 0.009962466351335556 0.10454915698481987 chr13 115169878 629162 0.005462904111090575 0.07756428160963443 chr14 107349540 682191 0.006354857226216339 0.08385075625376871 chr15 102531392 741006 0.00722711342883163 0.08983788036602659 chr16 90354753 895310 0.009908831248755669 0.10607135590472723 chr17 81195210 995309 0.012258223114393079 0.1179872825674435 chr18 78077248 678861 0.008694735244766823 0.14945160220627243 chr19 59128983 588051 0.009945224324253979 0.14868932430117307 chr20 63025520 817335 0.012968318230456488 0.11947266231138691 chr21 48129895 387477 0.008050651263627315 0.09566846759817388 chr22 51304566 243684 0.004749752682831388 0.07188846086937094 chrMT 16571 2166 0.13071027698992216 0.41273563627542803 chrX 155270560 1718212 0.011065922606320219 0.11377706017469784 chrY 59373566 85849 0.0014459128158143643 0.05194569620575982