BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714134.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 33,470 number of mapped reads = 7,635 (22.81%) number of supplementary alignments = 273 (0.82%) number of secondary alignments = 0 number of mapped bases = 823,645 bp number of sequenced bases = 810,925 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,811 duplication rate = 46.11% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 27.9188 >>>>>>> ACTG content number of A's = 147,043 bp (18.13%) number of C's = 122,870 bp (15.15%) number of T's = 134,038 bp (16.53%) number of G's = 406,967 bp (50.19%) number of N's = 7 bp (0%) GC percentage = 65.34% >>>>>>> Mismatches and indels general error rate = 0.0366 number of mismatches = 26,675 number of insertions = 578 mapped reads with insertion percentage = 5.46% number of deletions = 1,652 mapped reads with deletion percentage = 21.1% homopolymer indels = 36.59% >>>>>>> Coverage mean coverageData = 0.0003X std coverageData = 0.3587X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% 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 19196 7.701485325486912E-5 0.10857311518665831 chr2 243199373 312986 0.0012869523310818733 1.2488632077204693 chr3 198022430 11153 5.632190252387065E-5 0.013836729802683828 chr4 191154276 6588 3.446430881828665E-5 0.009266425930535577 chr5 180915260 8882 4.909480825442807E-5 0.016508940962881292 chr6 171115067 10220 5.9725891934460685E-5 0.02012850496071928 chr7 159138663 20736 1.3030145917463187E-4 0.07005805039577973 chr8 146364022 26265 1.7944983774769458E-4 0.07135359903032139 chr9 141213431 3765 2.6661769870884305E-5 0.011872495072949595 chr10 135534747 11850 8.74314540167327E-5 0.13860414957427386 chr11 135006516 6762 5.008647138187019E-5 0.011500986318181613 chr12 133851895 10674 7.974485531191023E-5 0.023605540039129687 chr13 115169878 2145 1.8624661562982642E-5 0.00652734860647103 chr14 107349540 6167 5.744784747098124E-5 0.01967477975432592 chr15 102531392 7692 7.50209262739747E-5 0.019080064828577853 chr16 90354753 7778 8.608290921895388E-5 0.028370136248196606 chr17 81195210 9473 1.1666944392409355E-4 0.0323110070532932 chr18 78077248 2526 3.235257472189593E-5 0.012217257725491799 chr19 59128983 4991 8.44086900665956E-5 0.027374344171545807 chr20 63025520 12433 1.972692966277787E-4 0.07698683571277175 chr21 48129895 344 7.147324962998569E-6 0.002704346637979137 chr22 51304566 1797 3.502612223637171E-5 0.011310222593259629 chrMT 16571 834 0.05032888781606421 0.3063433685416774 chrX 155270560 316328 0.002037269653693527 0.2647358871752106 chrY 59373566 2060 3.469557479501905E-5 0.009354812494519759