BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525160.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 = 810,492 number of mapped reads = 630,703 (77.82%) number of supplementary alignments = 2,519 (0.31%) number of secondary alignments = 0 number of mapped bases = 38,765,893 bp number of sequenced bases = 38,753,819 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,980 duplication rate = 1.27% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9047 >>>>>>> ACTG content number of A's = 10,213,403 bp (26.35%) number of C's = 7,015,931 bp (18.1%) number of T's = 11,807,363 bp (30.47%) number of G's = 9,716,185 bp (25.07%) number of N's = 937 bp (0%) GC percentage = 43.18% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 184,313 number of insertions = 2,818 mapped reads with insertion percentage = 0.44% number of deletions = 7,558 mapped reads with deletion percentage = 1.19% homopolymer indels = 43.79% >>>>>>> Coverage mean coverageData = 0.0125X std coverageData = 0.1467X There is a 1.18% 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 3868781 0.015521650395406638 0.23729801293803346 chr2 243199373 3271617 0.013452407214882087 0.15992406427773612 chr3 198022430 2969004 0.014993271216801047 0.12709709184601348 chr4 191154276 2182884 0.011419488204386282 0.11277521350435375 chr5 180915260 1746535 0.009653884365531133 0.10138785841607668 chr6 171115067 2453606 0.01433892434498477 0.13006464305888998 chr7 159138663 2878397 0.01808735190894497 0.2323200044210355 chr8 146364022 1919444 0.013114179111585222 0.1319677316933873 chr9 141213431 1326435 0.009393122103236767 0.11405113636345703 chr10 135534747 2130343 0.015718057894039527 0.15462457513581918 chr11 135006516 1854715 0.013737966543777784 0.13603505409396985 chr12 133851895 1784913 0.013334984910000713 0.12027607225981289 chr13 115169878 1033110 0.008970314269152912 0.09792266182430856 chr14 107349540 1493549 0.013912952025691028 0.12375752116356244 chr15 102531392 751433 0.00732880911243261 0.08814966874898382 chr16 90354753 1087318 0.012033877177440793 0.1193212218626826 chr17 81195210 745931 0.009186884300194556 0.10127636916357458 chr18 78077248 698656 0.00894826620938279 0.19070008528841573 chr19 59128983 661174 0.0111818936578023 0.17717973053295888 chr20 63025520 731428 0.011605267199699423 0.11225554783875574 chr21 48129895 517029 0.010742367088064498 0.1081856636023749 chr22 51304566 465518 0.009073617346261149 0.09810400817920605 chrMT 16571 80982 4.886971214772796 3.2010400361740112 chrX 155270560 2005707 0.01291749704515782 0.12094227068784867 chrY 59373566 107384 0.0018086163125186046 0.061916828860290894