BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524463.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 = 800,628 number of mapped reads = 737,909 (92.17%) number of supplementary alignments = 1,547 (0.19%) number of secondary alignments = 0 number of mapped bases = 43,122,527 bp number of sequenced bases = 43,108,899 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,783 duplication rate = 2.17% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2008 >>>>>>> ACTG content number of A's = 10,754,160 bp (24.95%) number of C's = 8,394,216 bp (19.47%) number of T's = 13,437,319 bp (31.17%) number of G's = 10,522,392 bp (24.41%) number of N's = 812 bp (0%) GC percentage = 43.88% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 203,551 number of insertions = 2,171 mapped reads with insertion percentage = 0.29% number of deletions = 7,835 mapped reads with deletion percentage = 1.05% homopolymer indels = 44.85% >>>>>>> Coverage mean coverageData = 0.0139X std coverageData = 0.1587X There is a 1.29% 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 4416177 0.01771781744126527 0.26548503562105047 chr2 243199373 3528939 0.01451047737692975 0.1714615956387996 chr3 198022430 1975836 0.00997783937910468 0.10598537463773829 chr4 191154276 2780215 0.014544351600065697 0.13537957043768914 chr5 180915260 2435449 0.013461821849632806 0.1228839625295424 chr6 171115067 1937204 0.011321060348239235 0.1302906568899132 chr7 159138663 2224930 0.013981077621595953 0.1940282444246147 chr8 146364022 4060693 0.02774379211853033 0.190694813733552 chr9 141213431 1903512 0.013479680980203647 0.1461203512327879 chr10 135534747 1392655 0.01027526173786269 0.14140029329749892 chr11 135006516 1541456 0.01141764150109614 0.1474480322849868 chr12 133851895 2083155 0.015563134164069922 0.13210319595052425 chr13 115169878 989081 0.00858801812744822 0.09817232033104542 chr14 107349540 1065875 0.00992901320303748 0.1064791675044144 chr15 102531392 1185319 0.011560547232207674 0.1164149293082728 chr16 90354753 1411647 0.01562338397405613 0.13644658330256407 chr17 81195210 1192580 0.014687812249023064 0.13309518590647237 chr18 78077248 1050888 0.01345959324795874 0.22554270222954267 chr19 59128983 881417 0.01490668290371238 0.1966969749048464 chr20 63025520 1282782 0.020353374315674033 0.15304665185946525 chr21 48129895 608129 0.012635161576812083 0.12454158128852451 chr22 51304566 371264 0.00723647092151603 0.08980580152961555 chrMT 16571 2080 0.1255204875988172 0.34766194821004814 chrX 155270560 2656503 0.017108864681108896 0.14927408076034743 chrY 59373566 144741 0.0024378020346630352 0.07297310184277522