BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524360.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 = 836,428 number of mapped reads = 761,838 (91.08%) number of supplementary alignments = 3,609 (0.43%) number of secondary alignments = 0 number of mapped bases = 44,433,093 bp number of sequenced bases = 44,420,421 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,452 duplication rate = 1.99% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9315 >>>>>>> ACTG content number of A's = 11,686,561 bp (26.31%) number of C's = 8,002,736 bp (18.02%) number of T's = 13,864,120 bp (31.21%) number of G's = 10,860,833 bp (24.45%) number of N's = 6,171 bp (0.01%) GC percentage = 42.47% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 230,824 number of insertions = 3,563 mapped reads with insertion percentage = 0.46% number of deletions = 7,995 mapped reads with deletion percentage = 1.04% homopolymer indels = 41.11% >>>>>>> Coverage mean coverageData = 0.0144X std coverageData = 0.1645X There is a 1.34% of reference with a coverageData >= 1X There is a 0.07% 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 3520613 0.014124791287882087 0.27774056924244206 chr2 243199373 3699434 0.015211527704061967 0.20961042044535355 chr3 198022430 2867549 0.01448093026633397 0.12687816800127383 chr4 191154276 2865625 0.014991163472586928 0.14281713024224685 chr5 180915260 2717813 0.01502257465732852 0.12866770890858406 chr6 171115067 2535090 0.01481511853073698 0.13388340205341073 chr7 159138663 2417668 0.015192210079080531 0.18623440764890642 chr8 146364022 2304283 0.015743506966486614 0.15431219450030967 chr9 141213431 1837929 0.013015256317934801 0.1425228622899095 chr10 135534747 2156788 0.015913173911041426 0.16750256542676245 chr11 135006516 2167317 0.0160534251546792 0.15301850469211753 chr12 133851895 2004295 0.0149739755272049 0.13074381099357002 chr13 115169878 1328625 0.011536219566022288 0.11285373275584373 chr14 107349540 1353212 0.012605661840749387 0.12141859895699172 chr15 102531392 1293843 0.012618993800454791 0.11802160405526864 chr16 90354753 1323228 0.014644807894057327 0.1331324212889917 chr17 81195210 1233326 0.015189639881465914 0.13355569942882586 chr18 78077248 1181973 0.015138507443295132 0.2259865284334628 chr19 59128983 933108 0.015780890396846502 0.19421563478345258 chr20 63025520 956606 0.01517807389768462 0.1315243423573055 chr21 48129895 578187 0.0120130534255269 0.12620922595994977 chr22 51304566 530756 0.010345200074394939 0.10636943639500868 chrMT 16571 6097 0.36793192927403295 0.6290744459705729 chrX 155270560 2472937 0.015926631552046957 0.14004547663160197 chrY 59373566 146791 0.0024723291843376898 0.07637556835700045