BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524428.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 = 1,036,228 number of mapped reads = 957,969 (92.45%) number of supplementary alignments = 4,482 (0.43%) number of secondary alignments = 0 number of mapped bases = 56,458,284 bp number of sequenced bases = 56,442,606 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 33,586 duplication rate = 2.61% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8846 >>>>>>> ACTG content number of A's = 13,270,686 bp (23.51%) number of C's = 10,537,533 bp (18.67%) number of T's = 18,220,293 bp (32.28%) number of G's = 14,408,489 bp (25.53%) number of N's = 5,605 bp (0.01%) GC percentage = 44.2% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 282,616 number of insertions = 3,429 mapped reads with insertion percentage = 0.36% number of deletions = 9,528 mapped reads with deletion percentage = 0.99% homopolymer indels = 43.19% >>>>>>> Coverage mean coverageData = 0.0182X std coverageData = 0.2055X There is a 1.66% of reference with a coverageData >= 1X There is a 0.11% of reference with a coverageData >= 2X There is a 0.02% 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 4807699 0.01928861392886961 0.40129973980500466 chr2 243199373 4482799 0.01843260919920217 0.23670491974813646 chr3 198022430 3757379 0.01897451212976227 0.14697351130221298 chr4 191154276 3714064 0.01942966737505783 0.1800476939053531 chr5 180915260 3456148 0.01910368423315977 0.14773379197683714 chr6 171115067 2205691 0.01289010394391512 0.12723782989220914 chr7 159138663 3226792 0.020276606194686957 0.25889185411177346 chr8 146364022 2894872 0.01977857645917929 0.17144272792779108 chr9 141213431 2067560 0.014641383509759777 0.14663817648280067 chr10 135534747 2879635 0.021246470471516798 0.21983908735225893 chr11 135006516 2321233 0.0171934886461332 0.16385055290859865 chr12 133851895 2667739 0.019930528439660866 0.1521389726709302 chr13 115169878 1732110 0.015039609575691311 0.13071350184814118 chr14 107349540 1549290 0.014432199709472439 0.13133399790995035 chr15 102531392 1743222 0.01700183686182667 0.14022515329715438 chr16 90354753 1846746 0.02043883623919596 0.16069522931023625 chr17 81195210 1571334 0.0193525455504087 0.15863794274728318 chr18 78077248 1527164 0.019559654561595204 0.23363824903197628 chr19 59128983 1704802 0.028831918181308817 0.29611122876364127 chr20 63025520 1623218 0.025754932287746297 0.17804264118135485 chr21 48129895 783935 0.016287901729268264 0.15735300594640925 chr22 51304566 438297 0.00854304078900112 0.09906568030852507 chrMT 16571 3652 0.22038500995715407 0.5086396135282942 chrX 155270560 3244487 0.020895699738572464 0.1633257126130498 chrY 59373566 208416 0.0035102489885818883 0.12411101375569072