BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524350.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 = 546,677 number of mapped reads = 488,733 (89.4%) number of supplementary alignments = 1,984 (0.36%) number of secondary alignments = 0 number of mapped bases = 28,517,530 bp number of sequenced bases = 28,509,278 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,983 duplication rate = 1.47% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7226 >>>>>>> ACTG content number of A's = 7,215,589 bp (25.31%) number of C's = 5,159,246 bp (18.1%) number of T's = 8,890,773 bp (31.19%) number of G's = 7,239,772 bp (25.39%) number of N's = 3,898 bp (0.01%) GC percentage = 43.49% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 149,601 number of insertions = 1,863 mapped reads with insertion percentage = 0.38% number of deletions = 5,245 mapped reads with deletion percentage = 1.07% homopolymer indels = 43.64% >>>>>>> Coverage mean coverageData = 0.0092X std coverageData = 0.1229X There is a 0.87% of reference with a coverageData >= 1X There is a 0.03% 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 2298749 0.009222641014001727 0.19098321645268043 chr2 243199373 2421488 0.009956801985669592 0.14914967623523412 chr3 198022430 1880170 0.009494732490657751 0.10163351863884966 chr4 191154276 1785746 0.00934190977762904 0.10476748204681158 chr5 180915260 1666195 0.00920980905646102 0.09897891941960332 chr6 171115067 1599051 0.009344887203883689 0.10321117373750524 chr7 159138663 1579027 0.009922334209883364 0.15136078091728788 chr8 146364022 1464146 0.010003455630646717 0.11785008447166859 chr9 141213431 1191358 0.008436577112838508 0.10664646751241974 chr10 135534747 1374767 0.010143280822297178 0.12500529297493787 chr11 135006516 1292165 0.009571130626021043 0.11698076436209125 chr12 133851895 1295015 0.00967498442961902 0.1021715579749593 chr13 115169878 867723 0.007534287741452674 0.08985915167446763 chr14 107349540 849033 0.007909051124019722 0.09388929606932896 chr15 102531392 817455 0.00797272897650702 0.09253927452285937 chr16 90354753 855858 0.009472196775304116 0.10487997762554349 chr17 81195210 817641 0.010070064477941494 0.10675679353205074 chr18 78077248 752795 0.009641669235063204 0.1763150441972199 chr19 59128983 600509 0.010155916261911693 0.13887911138320877 chr20 63025520 621537 0.00986167190687201 0.10363049865812599 chr21 48129895 387949 0.008060458058343987 0.09852957593968523 chr22 51304566 361139 0.007039120065843652 0.08691859660955954 chrMT 16571 6246 0.37692354112606363 0.6966926729078192 chrX 155270560 1635301 0.01053194501262828 0.11157735493452442 chrY 59373566 96467 0.00162474660861704 0.05455035518481781