BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524706.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 = 769,709 number of mapped reads = 708,900 (92.1%) number of supplementary alignments = 2,740 (0.36%) number of secondary alignments = 0 number of mapped bases = 42,141,999 bp number of sequenced bases = 42,128,713 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,806 duplication rate = 1.95% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.046 >>>>>>> ACTG content number of A's = 11,086,804 bp (26.32%) number of C's = 7,889,499 bp (18.73%) number of T's = 13,532,040 bp (32.12%) number of G's = 9,614,343 bp (22.82%) number of N's = 6,027 bp (0.01%) GC percentage = 41.55% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 212,897 number of insertions = 3,122 mapped reads with insertion percentage = 0.44% number of deletions = 8,303 mapped reads with deletion percentage = 1.16% homopolymer indels = 42.33% >>>>>>> Coverage mean coverageData = 0.0136X std coverageData = 0.1585X There is a 1.27% of reference with a coverageData >= 1X There is a 0.06% of reference with a coverageData >= 2X There is a 0.01% 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 3404190 0.01365769917179063 0.24734526770366197 chr2 243199373 3573042 0.014691822416828353 0.20239387865370634 chr3 198022430 2799202 0.014135782496962592 0.12440756279132312 chr4 191154276 2751745 0.014395414309225288 0.13923104175111836 chr5 180915260 2549134 0.014090209969020856 0.12536543060920147 chr6 171115067 2415906 0.014118604763191309 0.13318014025835564 chr7 159138663 2352390 0.014782014349335083 0.18403276089283274 chr8 146364022 2110632 0.014420429086049576 0.16850762374041714 chr9 141213431 1758767 0.012454672247146236 0.13648516008723827 chr10 135534747 2041987 0.015066151265254511 0.17015686790475387 chr11 135006516 1925398 0.014261519051421192 0.14445279317620602 chr12 133851895 1868441 0.013959017913044863 0.12393929276505104 chr13 115169878 1295887 0.011251961211593886 0.11179561006857487 chr14 107349540 1291923 0.012034732519580428 0.11633921942039416 chr15 102531392 1189304 0.011599413377709726 0.11252943622307031 chr16 90354753 1219112 0.013492505480038223 0.126398174018486 chr17 81195210 1149416 0.014156204534725632 0.1288194089699998 chr18 78077248 1125288 0.01441249568632337 0.21745487856396184 chr19 59128983 857521 0.014502549451932904 0.20329965933467511 chr20 63025520 899284 0.014268569303355213 0.12767511088156844 chr21 48129895 556296 0.011558221766326314 0.1239640657409377 chr22 51304566 479432 0.009344821277700702 0.10160025511432741 chrMT 16571 3442 0.207712268420735 0.4794399587799707 chrX 155270560 2375015 0.015295977550412648 0.13491294536072757 chrY 59373566 149245 0.002513660708875057 0.10727410696463358