BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524381.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 = 1,268,159 number of mapped reads = 1,155,074 (91.08%) number of supplementary alignments = 3,992 (0.31%) number of secondary alignments = 0 number of mapped bases = 67,412,292 bp number of sequenced bases = 67,392,568 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 30,220 duplication rate = 1.84% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1716 >>>>>>> ACTG content number of A's = 16,307,206 bp (24.2%) number of C's = 13,130,176 bp (19.48%) number of T's = 22,000,491 bp (32.65%) number of G's = 15,946,060 bp (23.66%) number of N's = 8,635 bp (0.01%) GC percentage = 43.14% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 329,436 number of insertions = 5,276 mapped reads with insertion percentage = 0.45% number of deletions = 12,421 mapped reads with deletion percentage = 1.07% homopolymer indels = 42.68% >>>>>>> Coverage mean coverageData = 0.0218X std coverageData = 0.2255X There is a 2.01% of reference with a coverageData >= 1X There is a 0.12% of reference with a coverageData >= 2X There is a 0.01% 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 5749745 0.02306812708001237 0.434238394717351 chr2 243199373 5265073 0.021649204663039982 0.2506821207067999 chr3 198022430 4704610 0.0237579651961649 0.16431582334424444 chr4 191154276 4714567 0.024663675323695088 0.17972685914162814 chr5 180915260 4318813 0.02387202163045837 0.16411393098919613 chr6 171115067 2715337 0.01586848573655995 0.14196990697782902 chr7 159138663 3808480 0.02393183358590866 0.3167551252505282 chr8 146364022 3274710 0.02237373608112518 0.1947218546907159 chr9 141213431 2588026 0.018327052757467526 0.17706746941771587 chr10 135534747 3315287 0.024460790117533476 0.21456241293798842 chr11 135006516 2819268 0.020882458739991484 0.190701834667432 chr12 133851895 3159612 0.023605284034267874 0.16523416947538838 chr13 115169878 2068791 0.01796295208370369 0.14202643112018717 chr14 107349540 1897175 0.01767287498390771 0.15269376009367852 chr15 102531392 2077671 0.020263754928831944 0.15228082485111524 chr16 90354753 2110719 0.023360353826654807 0.1677372851610744 chr17 81195210 1830501 0.022544445663728194 0.1706528397010875 chr18 78077248 1898721 0.02431849288540498 0.2937559390204374 chr19 59128983 1820735 0.030792597937968933 0.32412111769827845 chr20 63025520 1761892 0.02795521560155315 0.1820205184793032 chr21 48129895 917646 0.0190660295435924 0.15631839902633576 chr22 51304566 455904 0.008886226617724435 0.10022209071974363 chrMT 16571 2064 0.12455494538651862 0.3975453159583617 chrX 155270560 3932488 0.025326681374756424 0.18241937285457926 chrY 59373566 204457 0.0034435694834297134 0.09216497421604901