BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525022.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 = 1,854,707 number of mapped reads = 1,696,941 (91.49%) number of supplementary alignments = 6,016 (0.32%) number of secondary alignments = 0 number of mapped bases = 97,225,576 bp number of sequenced bases = 97,199,405 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 59,291 duplication rate = 2.56% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2711 >>>>>>> ACTG content number of A's = 25,003,033 bp (25.72%) number of C's = 19,849,982 bp (20.42%) number of T's = 29,454,074 bp (30.3%) number of G's = 22,889,380 bp (23.55%) number of N's = 2,936 bp (0%) GC percentage = 43.97% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 466,267 number of insertions = 6,800 mapped reads with insertion percentage = 0.4% number of deletions = 15,827 mapped reads with deletion percentage = 0.93% homopolymer indels = 41.91% >>>>>>> Coverage mean coverageData = 0.0314X std coverageData = 0.2835X There is a 2.81% of reference with a coverageData >= 1X There is a 0.24% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% 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 7654374 0.030709548362569575 0.5212193267915071 chr2 243199373 8249969 0.03392265735816679 0.30059578989703384 chr3 198022430 6521449 0.03293288038127802 0.1983633393061037 chr4 191154276 6350653 0.033222657284422974 0.21781999183390718 chr5 180915260 5868270 0.0324365672635907 0.19833750519961824 chr6 171115067 5625582 0.03287601786697135 0.2182962400009995 chr7 159138663 5324465 0.033458022705645074 0.31435401854575756 chr8 146364022 4879735 0.03333971650492086 0.3025742814446306 chr9 141213431 4156003 0.02943064955344085 0.2781441578014823 chr10 135534747 4590983 0.0338731070933419 0.28160683776272255 chr11 135006516 4430736 0.03281868261825229 0.26341541191802553 chr12 133851895 4427607 0.03307840355939675 0.20552547444462593 chr13 115169878 3191529 0.027711490672934463 0.18079536726149376 chr14 107349540 2951484 0.02749414669126668 0.1944823384864292 chr15 102531392 2761563 0.026933829202279824 0.17949758198647864 chr16 90354753 2818850 0.0311975840385508 0.20689112176734153 chr17 81195210 2513785 0.030959769671141932 0.20497913974593626 chr18 78077248 2681796 0.03434798316661981 0.48173684031947483 chr19 59128983 1885473 0.03188745864274378 0.383125272077264 chr20 63025520 2073710 0.03290270353977246 0.2075248128590765 chr21 48129895 1286710 0.026734111927732233 0.20336706339804622 chr22 51304566 1101399 0.0214678553172051 0.16031767150019335 chrMT 16571 3167 0.19111701164685294 0.4637438738692179 chrX 155270560 5581263 0.03594540394521666 0.23907494760830128 chrY 59373566 295021 0.004968894743495784 0.12498597292496177