BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524832.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 = 1,183,465 number of mapped reads = 1,090,999 (92.19%) number of supplementary alignments = 5,651 (0.48%) number of secondary alignments = 0 number of mapped bases = 63,636,994 bp number of sequenced bases = 63,618,628 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 27,486 duplication rate = 1.71% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1235 >>>>>>> ACTG content number of A's = 15,754,541 bp (24.76%) number of C's = 10,960,479 bp (17.23%) number of T's = 21,266,340 bp (33.43%) number of G's = 15,628,599 bp (24.57%) number of N's = 8,669 bp (0.01%) GC percentage = 41.79% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 306,510 number of insertions = 4,600 mapped reads with insertion percentage = 0.42% number of deletions = 11,674 mapped reads with deletion percentage = 1.06% homopolymer indels = 44.28% >>>>>>> Coverage mean coverageData = 0.0206X std coverageData = 0.2189X There is a 1.9% of reference with a coverageData >= 1X There is a 0.1% of reference with a coverageData >= 2X There is a 0.01% 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 5345270 0.021445362818173278 0.396396918283018 chr2 243199373 4158298 0.01709830888420917 0.20864207593810694 chr3 198022430 4565984 0.02305791318690514 0.1597240476858422 chr4 191154276 3500873 0.018314384973527876 0.1502659942504418 chr5 180915260 3832379 0.021183282162046475 0.154263452415947 chr6 171115067 4164732 0.024338780172993183 0.1791003361707001 chr7 159138663 2961925 0.018612227501245252 0.29902082545313924 chr8 146364022 6857798 0.046854397045743935 0.3062117925614177 chr9 141213431 2626535 0.01859975344696497 0.19191681869140584 chr10 135534747 3068036 0.022636527295838017 0.21180764542289401 chr11 135006516 3156573 0.023380893704419422 0.20398048902830726 chr12 133851895 2466332 0.018425828039266835 0.14514965144912503 chr13 115169878 1686969 0.01464765813158194 0.1281618864248859 chr14 107349540 1379177 0.012847535257254013 0.12512140942527095 chr15 102531392 1901206 0.01854267227738408 0.14406191734997995 chr16 90354753 1803522 0.019960455207043728 0.1590343125528228 chr17 81195210 1720607 0.021190991439027005 0.16867270628324268 chr18 78077248 1510479 0.019345955943529156 0.34144010827332016 chr19 59128983 902754 0.015267538087032547 0.2734758404246832 chr20 63025520 1322223 0.02097916843843573 0.15408659522155346 chr21 48129895 896863 0.01863421891944705 0.1498368094079982 chr22 51304566 357381 0.0069658712247950795 0.08664743431023042 chrMT 16571 955 0.057630800796572325 0.25857598565218665 chrX 155270560 3297095 0.021234514772149982 0.17162786997573176 chrY 59373566 153028 0.002577375931908823 0.07092461435486072