BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524768.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 = 1,478,836 number of mapped reads = 1,338,912 (90.54%) number of supplementary alignments = 4,267 (0.29%) number of secondary alignments = 0 number of mapped bases = 76,617,696 bp number of sequenced bases = 76,593,185 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 47,182 duplication rate = 2.65% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.3905 >>>>>>> ACTG content number of A's = 19,016,620 bp (24.83%) number of C's = 14,810,111 bp (19.34%) number of T's = 24,209,013 bp (31.61%) number of G's = 18,547,483 bp (24.22%) number of N's = 9,958 bp (0.01%) GC percentage = 43.55% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 392,192 number of insertions = 5,541 mapped reads with insertion percentage = 0.41% number of deletions = 15,218 mapped reads with deletion percentage = 1.13% homopolymer indels = 42.28% >>>>>>> Coverage mean coverageData = 0.0247X std coverageData = 0.2268X There is a 2.23% of reference with a coverageData >= 1X There is a 0.18% 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 6125882 0.024577198545876443 0.3036910171439164 chr2 243199373 6425264 0.026419739166021618 0.35595434048462926 chr3 198022430 5045084 0.025477336077534246 0.17650625316240728 chr4 191154276 4890028 0.025581577887381395 0.1966037951895877 chr5 180915260 4540718 0.02509859035661226 0.17226657757194216 chr6 171115067 4335617 0.02533743565667423 0.18899452888559784 chr7 159138663 4215580 0.026489979999392104 0.28333889589876565 chr8 146364022 3820803 0.02610479643692765 0.20624646249943482 chr9 141213431 3227325 0.022854235444502442 0.19223751365183453 chr10 135534747 3745436 0.02763450762925023 0.2682167146987355 chr11 135006516 3455189 0.025592757315506164 0.20421891187185667 chr12 133851895 3484100 0.026029515682239688 0.17826420689226866 chr13 115169878 2367506 0.020556642423464232 0.15701688488368898 chr14 107349540 2285080 0.021286351110586965 0.1647305896296354 chr15 102531392 2201335 0.021469863590655242 0.16023659844033508 chr16 90354753 2322679 0.0257062182439921 0.19259657151846438 chr17 81195210 2186731 0.026931773438359233 0.18614658811406534 chr18 78077248 2037858 0.026100535715603092 0.28926211794007617 chr19 59128983 1694897 0.02866440303903079 0.24816662188914992 chr20 63025520 1656744 0.026286875538670686 0.1855265798527356 chr21 48129895 1001018 0.02079825854596192 0.17178578217862023 chr22 51304566 974726 0.018998815816900196 0.15133544160906573 chrMT 16571 44298 2.6732243075251945 2.1723729695249676 chrX 155270560 4274001 0.02752615177017459 0.19384014279954517 chrY 59373566 259797 0.004375634099525031 0.13168256293656058