BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716156.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 = 1,284,362 number of mapped reads = 1,172,726 (91.31%) number of supplementary alignments = 4,684 (0.36%) number of secondary alignments = 0 number of mapped bases = 67,533,427 bp number of sequenced bases = 67,515,391 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 37,754 duplication rate = 2.6% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2773 >>>>>>> ACTG content number of A's = 17,529,959 bp (25.96%) number of C's = 12,873,920 bp (19.07%) number of T's = 20,316,448 bp (30.09%) number of G's = 16,793,485 bp (24.87%) number of N's = 1,579 bp (0%) GC percentage = 43.94% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 327,702 number of insertions = 4,624 mapped reads with insertion percentage = 0.39% number of deletions = 10,455 mapped reads with deletion percentage = 0.89% homopolymer indels = 40.84% >>>>>>> Coverage mean coverageData = 0.0218X std coverageData = 0.1916X There is a 1.98% of reference with a coverageData >= 1X There is a 0.16% of reference with a coverageData >= 2X There is a 0.02% 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 7564707 0.03034980201714322 0.2888372615215627 chr2 243199373 5645050 0.02321161411875844 0.21220514014102237 chr3 198022430 4422439 0.022333020557317673 0.16079008060270036 chr4 191154276 4258091 0.022275677474251215 0.17072845552820826 chr5 180915260 3348373 0.01850796334151138 0.14818675742903406 chr6 171115067 3557770 0.020791681658284364 0.1630191626422793 chr7 159138663 2951814 0.01854869171547583 0.17424503001077307 chr8 146364022 4304056 0.029406516309042122 0.21442913296278193 chr9 141213431 2480352 0.01756456154655714 0.19539593886881365 chr10 135534747 3202053 0.023625329082585737 0.18933831734164272 chr11 135006516 2164549 0.016032922440573166 0.17466214134836325 chr12 133851895 2992871 0.022359571375511717 0.16307041492029845 chr13 115169878 2077474 0.018038345061023683 0.14503809912163676 chr14 107349540 2340773 0.021805151656914414 0.1653825929165242 chr15 102531392 1927139 0.018795599693018895 0.14760998901195707 chr16 90354753 2033150 0.022501859974095664 0.1675169227130208 chr17 81195210 1511349 0.018613770442862332 0.1515411521632265 chr18 78077248 1665626 0.021333052107574284 0.32080515743641974 chr19 59128983 1261739 0.021338757001790474 0.2174424808016581 chr20 63025520 2145010 0.03403399131018673 0.2031194135580331 chr21 48129895 891580 0.018524453460785652 0.15632916834297145 chr22 51304566 816566 0.015916049265478634 0.13612556448573812 chrMT 16571 2253 0.13596041276929577 0.36557900785589414 chrX 155270560 3772912 0.024298952744164767 0.18302535388575383 chrY 59373566 195731 0.0032966017233999386 0.08111953699188965