BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524882.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 = 1,156,029 number of mapped reads = 1,065,184 (92.14%) number of supplementary alignments = 3,728 (0.32%) number of secondary alignments = 0 number of mapped bases = 62,421,904 bp number of sequenced bases = 62,403,253 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 33,176 duplication rate = 2.28% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3077 >>>>>>> ACTG content number of A's = 16,234,368 bp (26.02%) number of C's = 12,033,450 bp (19.28%) number of T's = 19,642,607 bp (31.48%) number of G's = 14,485,108 bp (23.21%) number of N's = 7,720 bp (0.01%) GC percentage = 42.5% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 306,677 number of insertions = 4,733 mapped reads with insertion percentage = 0.44% number of deletions = 11,665 mapped reads with deletion percentage = 1.09% homopolymer indels = 42.33% >>>>>>> Coverage mean coverageData = 0.0202X std coverageData = 0.216X There is a 1.86% of reference with a coverageData >= 1X There is a 0.11% 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 4990873 0.020023512799994186 0.40797893871718904 chr2 243199373 5291999 0.02175992040900533 0.22815253753022247 chr3 198022430 4144927 0.020931603556223404 0.15308904140263996 chr4 191154276 4009479 0.020975094483369025 0.16679928744673445 chr5 180915260 3800836 0.021008929816091797 0.15413395473379288 chr6 171115067 3596767 0.021019580934974007 0.1643703121929383 chr7 159138663 3430229 0.02155496932885505 0.27227569729177 chr8 146364022 3253649 0.022229841429200408 0.2069697215769978 chr9 141213431 2655407 0.018804209919664087 0.1956701561779213 chr10 135534747 2993340 0.022085406630079886 0.20464505714161857 chr11 135006516 2845977 0.021080293635604964 0.19740477640346243 chr12 133851895 2808348 0.020981010392120334 0.1564299331011207 chr13 115169878 1967043 0.017079491913675554 0.13853854825681988 chr14 107349540 1841924 0.017158191828302197 0.14584832116669738 chr15 102531392 1789428 0.01745248908743968 0.1403711550034243 chr16 90354753 1795397 0.019870531880043986 0.1580169679315562 chr17 81195210 1618394 0.019932136390804333 0.1581406738335309 chr18 78077248 1704788 0.021834632286219922 0.3475604538162948 chr19 59128983 1203273 0.020349969489581784 0.270489681644119 chr20 63025520 1326046 0.021039826406826948 0.15618618961199837 chr21 48129895 829857 0.017242028057613674 0.1504660549748141 chr22 51304566 734470 0.01431587979908065 0.12653068270348625 chrMT 16571 41361 2.495986965180134 2.068065871132276 chrX 155270560 3558342 0.022917042354970576 0.17914689668170197 chrY 59373566 189750 0.0031958666589101286 0.0920595071094502