BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524831.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 = 658,382 number of mapped reads = 612,473 (93.03%) number of supplementary alignments = 3,827 (0.58%) number of secondary alignments = 0 number of mapped bases = 36,376,565 bp number of sequenced bases = 36,365,690 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,496 duplication rate = 1.3% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3997 >>>>>>> ACTG content number of A's = 9,766,803 bp (26.86%) number of C's = 6,415,082 bp (17.64%) number of T's = 11,466,530 bp (31.53%) number of G's = 8,712,026 bp (23.96%) number of N's = 5,249 bp (0.01%) GC percentage = 41.6% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 170,428 number of insertions = 2,991 mapped reads with insertion percentage = 0.49% number of deletions = 6,823 mapped reads with deletion percentage = 1.1% homopolymer indels = 40.82% >>>>>>> Coverage mean coverageData = 0.0118X std coverageData = 0.1483X There is a 1.11% 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 3031768 0.012163532382934364 0.26282951377154157 chr2 243199373 2375749 0.009768729954743757 0.13237802470793225 chr3 198022430 2693755 0.013603282214040096 0.12001385745556528 chr4 191154276 2034654 0.010644041255974833 0.1107284263246641 chr5 180915260 2255720 0.012468378842116469 0.11524462994145641 chr6 171115067 2372708 0.013866154755384575 0.12693936712545578 chr7 159138663 1564372 0.009830244709294812 0.1847179922433819 chr8 146364022 3992292 0.027276457325011196 0.20925156802333608 chr9 141213431 1509745 0.01069122808863698 0.13171849437189276 chr10 135534747 1844820 0.01361141729950623 0.14739426368625871 chr11 135006516 1746871 0.012939160655030903 0.139593741858305 chr12 133851895 1460066 0.010908071193164654 0.10921556414651586 chr13 115169878 772637 0.006708672557593575 0.08477965395984235 chr14 107349540 777161 0.007239537309614927 0.09019860402978995 chr15 102531392 1084707 0.010579267274553338 0.10616614195770087 chr16 90354753 1036341 0.011469689923229606 0.11489176593340249 chr17 81195210 919563 0.011325335570903752 0.11812776688587391 chr18 78077248 897349 0.011493092072097623 0.21082430282688913 chr19 59128983 528345 0.008935465708923151 0.18231457097191947 chr20 63025520 760228 0.012062224952685833 0.11577793812759847 chr21 48129895 535209 0.01112009490151599 0.11175683588928478 chr22 51304566 207323 0.00404102434079649 0.06496791970236052 chrMT 16571 2017 0.1217186651378915 0.3863500954568824 chrX 155270560 1881680 0.012118717160548657 0.120970279487522 chrY 59373566 91485 0.0015408372136516105 0.05246690903092897