BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525074.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 = 543,217 number of mapped reads = 503,000 (92.6%) number of supplementary alignments = 1,765 (0.32%) number of secondary alignments = 0 number of mapped bases = 29,650,038 bp number of sequenced bases = 29,640,837 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,940 duplication rate = 2.98% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.2828 >>>>>>> ACTG content number of A's = 7,406,547 bp (24.99%) number of C's = 5,623,311 bp (18.97%) number of T's = 8,966,729 bp (30.25%) number of G's = 7,641,300 bp (25.78%) number of N's = 2,950 bp (0.01%) GC percentage = 44.75% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 140,072 number of insertions = 1,854 mapped reads with insertion percentage = 0.37% number of deletions = 5,702 mapped reads with deletion percentage = 1.12% homopolymer indels = 44.23% >>>>>>> Coverage mean coverageData = 0.0096X std coverageData = 0.1219X There is a 0.89% of reference with a coverageData >= 1X There is a 0.05% 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 2379820 0.009547899982965338 0.17696118376245187 chr2 243199373 2502653 0.010290540510562912 0.13978518372061255 chr3 198022430 1929112 0.00974188631055583 0.10428086556215677 chr4 191154276 1943714 0.010168299871042383 0.11561270528444618 chr5 180915260 1803119 0.009966649579477155 0.10535777994304792 chr6 171115067 1672621 0.009774831809521484 0.10764974954149675 chr7 159138663 1617311 0.010162904284297022 0.13260360233863042 chr8 146364022 1489832 0.010178949578196204 0.1262134724489588 chr9 141213431 1239596 0.008778173515237372 0.10983165596056707 chr10 135534747 1458896 0.01076399987672534 0.13489792488967448 chr11 135006516 1349391 0.009995006463243597 0.11466231566055686 chr12 133851895 1351531 0.010097212295724316 0.10756564339738642 chr13 115169878 896848 0.007787175045891774 0.09288484785483994 chr14 107349540 873704 0.00813887045999452 0.09571154004518098 chr15 102531392 870885 0.008493837672661266 0.09742984364551417 chr16 90354753 855180 0.009464693019524939 0.10550262431068796 chr17 81195210 827749 0.010194554580251716 0.10916064959856375 chr18 78077248 788141 0.010094374740257239 0.15434543952850038 chr19 59128983 610969 0.010332817664054868 0.1472448211111501 chr20 63025520 654918 0.01039131450244282 0.11009921240752096 chr21 48129895 402398 0.008360666483897378 0.10833581654659534 chr22 51304566 370768 0.007226803166018401 0.09049642311285525 chrMT 16571 11432 0.6898799106873453 0.9790415083691542 chrX 155270560 1645710 0.010598982833577724 0.11286313939685717 chrY 59373566 103740 0.001747242198657901 0.07437654882613111