BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524917.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 = 1,161,181 number of mapped reads = 1,081,309 (93.12%) number of supplementary alignments = 4,521 (0.39%) number of secondary alignments = 0 number of mapped bases = 63,211,152 bp number of sequenced bases = 63,190,603 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 53,705 duplication rate = 4.06% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5054 >>>>>>> ACTG content number of A's = 15,948,823 bp (25.24%) number of C's = 11,460,840 bp (18.14%) number of T's = 19,635,412 bp (31.07%) number of G's = 16,145,035 bp (25.55%) number of N's = 493 bp (0%) GC percentage = 43.69% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 309,549 number of insertions = 4,085 mapped reads with insertion percentage = 0.38% number of deletions = 12,264 mapped reads with deletion percentage = 1.13% homopolymer indels = 43.61% >>>>>>> Coverage mean coverageData = 0.0204X std coverageData = 0.1949X There is a 1.79% of reference with a coverageData >= 1X There is a 0.19% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% 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 6735127 0.027021505394764896 0.2904812721815963 chr2 243199373 5616209 0.023093024174860845 0.24190663639751916 chr3 198022430 4562899 0.023042334143662413 0.1688612830924865 chr4 191154276 2663393 0.013933211726846225 0.15946357034935055 chr5 180915260 3812243 0.021071981434844136 0.161474198187255 chr6 171115067 4265506 0.024927705518766503 0.1809608579968923 chr7 159138663 3701040 0.023256699096435164 0.209358089543217 chr8 146364022 5012851 0.03424920230738125 0.27975541254256325 chr9 141213431 2363890 0.016739838294843216 0.15939273959009836 chr10 135534747 2703915 0.019949976370266142 0.21582890845210315 chr11 135006516 3312265 0.024534112116484808 0.18708235643298665 chr12 133851895 2055793 0.015358714196762026 0.14026931670613677 chr13 115169878 1402892 0.012181066997396663 0.12272633499730164 chr14 107349540 1200366 0.011181845772231535 0.12045789848083292 chr15 102531392 1845085 0.01799531796076659 0.1494334423529123 chr16 90354753 2004066 0.022179973199638985 0.1706262089281933 chr17 81195210 1786910 0.022007579018515994 0.17073873332670356 chr18 78077248 1609471 0.02061382849969302 0.23255613205255063 chr19 59128983 1479321 0.025018542936887652 0.23028749877825308 chr20 63025520 1261892 0.02002192127887243 0.1642665148932386 chr21 48129895 579605 0.012042515363891818 0.14275008296307035 chr22 51304566 1432286 0.02791732026346349 0.1893738143681964 chrMT 16571 6730 0.4061311930480961 0.6959611578459333 chrX 155270560 1621544 0.01044334482982479 0.12157284050744674 chrY 59373566 175853 0.0029618062691400414 0.12458753301582287