BamQC report ----------------------------------- >>>>>>> Input bam file = B7_H3K4me1_d_s.bam outfile = QUALIMAP_B7_H3K4me1/genome_results.txt >>>>>>> Reference number of bases = 2,725,537,669 bp number of contigs = 22 >>>>>>> Globals number of windows = 421 number of reads = 36,547,722 number of mapped reads = 35,531,328 (97.22%) number of mapped bases = 1,475,198,999 bp number of sequenced bases = 1,475,007,567 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 383,413 duplication rate = 1.91% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 38.7796 >>>>>>> ACTG content number of A's = 400,128,493 bp (27.13%) number of C's = 337,158,553 bp (22.86%) number of T's = 400,846,538 bp (27.18%) number of G's = 336,873,983 bp (22.84%) number of N's = 18,359 bp (0%) GC percentage = 45.7% >>>>>>> Mismatches and indels general error rate = 0.0036 number of mismatches = 4,960,265 number of insertions = 139,218 mapped reads with insertion percentage = 0.36% number of deletions = 112,116 mapped reads with deletion percentage = 0.31% homopolymer indels = 47.41% >>>>>>> Coverage mean coverageData = 1.2627X std coverageData = 1.921X There is a 56.58% of reference with a coverageData >= 1X There is a 28.19% of reference with a coverageData >= 2X There is a 14.91% of reference with a coverageData >= 3X There is a 8.86% of reference with a coverageData >= 4X There is a 5.75% of reference with a coverageData >= 5X There is a 3.88% of reference with a coverageData >= 6X There is a 2.65% of reference with a coverageData >= 7X There is a 1.8% of reference with a coverageData >= 8X There is a 1.2% of reference with a coverageData >= 9X There is a 0.79% of reference with a coverageData >= 10X There is a 0.51% of reference with a coverageData >= 11X There is a 0.33% of reference with a coverageData >= 12X There is a 0.21% of reference with a coverageData >= 13X There is a 0.13% of reference with a coverageData >= 14X There is a 0.08% of reference with a coverageData >= 15X There is a 0.05% of reference with a coverageData >= 16X There is a 0.03% of reference with a coverageData >= 17X There is a 0.02% of reference with a coverageData >= 18X There is a 0.02% of reference with a coverageData >= 19X There is a 0.01% of reference with a coverageData >= 20X There is a 0.01% of reference with a coverageData >= 21X There is a 0.01% of reference with a coverageData >= 22X There is a 0.01% of reference with a coverageData >= 23X There is a 0.01% of reference with a coverageData >= 24X There is a 0.01% of reference with a coverageData >= 25X There is a 0.01% 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 1 87833224 98754330 1.1243391225170103 1.7018518312088997 2 91729544 107134369 1.1679374422705078 1.8147754783019419 3 63799692 68389698 1.0719440150275334 1.6198273620006902 4 70909143 82853719 1.1684490249727035 1.7228876096263825 5 74314364 90547793 1.218442682224933 1.7837133119970319 6 70481271 84576352 1.1999833544431966 1.7784136846051215 7 72394548 94934128 1.3113436111238652 1.8447672834884576 8 62305007 112509915 1.8057925103836359 2.4017767549069062 9 65205555 87619480 1.3437425691722125 2.580714832145306 10 64472795 79582346 1.2343554517839657 1.7794650325564714 11 63004071 101016969 1.603340346054781 2.1471726652587226 12 45140598 55943130 1.2393085709675358 1.7842469855487497 13 44652192 58058169 1.3002311062355012 1.7919378550628247 14 48751186 57181195 1.1729190547282276 1.8764997071745926 15 40767811 79485248 1.9497060560842965 2.6004729716127444 16 38505094 46992001 1.220409980040563 1.762398319683815 17 41899931 58486618 1.3958643034519556 1.9804828196664148 18 33695330 40316418 1.1964986839422556 1.7335359697911459 19 29501366 45733440 1.550214318889505 2.0198346945178476 X 51516852 24029265 0.4664350414889481 0.9102362466100576 Y 7391595 1047127 0.14166455277920395 0.6023125487123995 MT 15365 7289 0.4743898470549951 0.7731677687032528