BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524407.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 = 541,821 number of mapped reads = 507,121 (93.6%) number of supplementary alignments = 2,344 (0.43%) number of secondary alignments = 0 number of mapped bases = 30,939,658 bp number of sequenced bases = 30,930,753 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,969 duplication rate = 1.26% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.6699 >>>>>>> ACTG content number of A's = 8,109,044 bp (26.22%) number of C's = 6,007,577 bp (19.42%) number of T's = 9,528,447 bp (30.81%) number of G's = 7,281,272 bp (23.54%) number of N's = 4,413 bp (0.01%) GC percentage = 42.96% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 145,752 number of insertions = 2,321 mapped reads with insertion percentage = 0.46% number of deletions = 5,420 mapped reads with deletion percentage = 1.06% homopolymer indels = 41.61% >>>>>>> Coverage mean coverageData = 0.01X std coverageData = 0.1346X There is a 0.95% 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 2550834 0.010234012616562347 0.25511578817588165 chr2 243199373 2492313 0.010248023953581492 0.1301323667515445 chr3 198022430 2185127 0.011034744902383029 0.10811285997834343 chr4 191154276 2129209 0.011138694067194185 0.11578912327552844 chr5 180915260 1952693 0.010793412341225389 0.10726248142521201 chr6 171115067 1180614 0.006899532698660603 0.0876009016148976 chr7 159138663 1782589 0.011201482822562107 0.17205668888071338 chr8 146364022 1514888 0.010350139189260596 0.13160229431782225 chr9 141213431 1163415 0.008238699334484692 0.10600500553740114 chr10 135534747 1587489 0.011712782405533247 0.12936510737002346 chr11 135006516 1293206 0.009578841364960488 0.1183724296134533 chr12 133851895 1376004 0.010280048706071737 0.10605932535696376 chr13 115169878 1028329 0.008928801678508333 0.09748374275268011 chr14 107349540 868641 0.00809170677396475 0.09398896628270899 chr15 102531392 876458 0.0085481917577009 0.09541365908641204 chr16 90354753 967177 0.010704218293862195 0.10810731097233954 chr17 81195210 836485 0.010302147134048917 0.1102784544501332 chr18 78077248 832095 0.010657330032943784 0.15866552125487857 chr19 59128983 862249 0.014582510238676015 0.1797428357034461 chr20 63025520 895791 0.014213147309216965 0.12489165785712297 chr21 48129895 407691 0.008470639713633283 0.101389602338504 chr22 51304566 219629 0.004280886032638888 0.06719913874759277 chrMT 16571 7717 0.4656930782692656 0.7499940930093734 chrX 155270560 1830695 0.01179035484898103 0.11679325547864923 chrY 59373566 98320 0.001655955783420521 0.059733938530241025