BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524714.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 = 265,721 number of mapped reads = 240,643 (90.56%) number of supplementary alignments = 825 (0.31%) number of secondary alignments = 0 number of mapped bases = 14,156,484 bp number of sequenced bases = 14,152,162 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 3,285 duplication rate = 1.05% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7186 >>>>>>> ACTG content number of A's = 3,566,792 bp (25.2%) number of C's = 2,510,364 bp (17.74%) number of T's = 4,670,031 bp (33%) number of G's = 3,402,725 bp (24.04%) number of N's = 2,250 bp (0.02%) GC percentage = 41.78% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 71,957 number of insertions = 1,004 mapped reads with insertion percentage = 0.42% number of deletions = 2,756 mapped reads with deletion percentage = 1.13% homopolymer indels = 43.38% >>>>>>> Coverage mean coverageData = 0.0046X std coverageData = 0.0767X There is a 0.44% of reference with a coverageData >= 1X There is a 0.01% 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 1143723 0.00458864654142627 0.0986990984594316 chr2 243199373 1184841 0.0048718916721878225 0.09248201920700784 chr3 198022430 935974 0.004726605970848858 0.06993498644521733 chr4 191154276 916209 0.004793034292363933 0.07226397259681333 chr5 180915260 857060 0.004737356041718095 0.07009583259619878 chr6 171115067 819778 0.004790799631922535 0.07256643910865801 chr7 159138663 776142 0.004877142897700479 0.08052077731632458 chr8 146364022 730942 0.004994000506490591 0.082822249627077 chr9 141213431 589832 0.004176883146476343 0.06956557393208958 chr10 135534747 672176 0.004959436711827116 0.08096521398597512 chr11 135006516 642056 0.0047557408266131395 0.07383509411038512 chr12 133851895 639410 0.004776996246485715 0.07051632034293448 chr13 115169878 433403 0.0037631627950495874 0.062450496884274904 chr14 107349540 409699 0.0038164951615069797 0.06326222306849551 chr15 102531392 411857 0.00401688684768856 0.06462021308734867 chr16 90354753 411230 0.004551282432258987 0.06984593178246834 chr17 81195210 390540 0.004809889647431172 0.07128889260166525 chr18 78077248 386760 0.004953555740079363 0.09105732924861985 chr19 59128983 302407 0.0051143615982706826 0.09195936680625572 chr20 63025520 298285 0.004732765394081635 0.070464694243534 chr21 48129895 182498 0.003791780555515444 0.0648312959791705 chr22 51304566 170664 0.003326487548886 0.05861095764176192 chrMT 16571 4116 0.2483857341138133 0.5240657661724323 chrX 155270560 800798 0.005157436155314955 0.074642302901598 chrY 59373566 46084 7.761703246862417E-4 0.03706319292578331