BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524830.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 = 1,055,653 number of mapped reads = 982,825 (93.1%) number of supplementary alignments = 5,690 (0.54%) number of secondary alignments = 0 number of mapped bases = 58,037,025 bp number of sequenced bases = 58,020,892 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,504 duplication rate = 1.64% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.64 >>>>>>> ACTG content number of A's = 15,459,779 bp (26.65%) number of C's = 11,551,764 bp (19.91%) number of T's = 17,876,064 bp (30.81%) number of G's = 13,125,604 bp (22.62%) number of N's = 7,681 bp (0.01%) GC percentage = 42.53% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 272,040 number of insertions = 3,521 mapped reads with insertion percentage = 0.36% number of deletions = 10,275 mapped reads with deletion percentage = 1.04% homopolymer indels = 44.38% >>>>>>> Coverage mean coverageData = 0.0187X std coverageData = 0.2066X There is a 1.75% of reference with a coverageData >= 1X There is a 0.08% 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 4776043 0.019161609230253434 0.3906650390046473 chr2 243199373 3773818 0.015517383755754996 0.19691167616317776 chr3 198022430 4236575 0.021394419813957437 0.15325906543305926 chr4 191154276 3192901 0.0167032674696746 0.1422077675284147 chr5 180915260 3533321 0.019530254109023197 0.14645759115548307 chr6 171115067 3806552 0.02224556882533319 0.16658632988003505 chr7 159138663 2663547 0.01673727144484053 0.27258052932373467 chr8 146364022 6350214 0.043386440965663 0.284279206288343 chr9 141213431 2380536 0.016857716600625617 0.16650014609621452 chr10 135534747 2919655 0.021541745306094828 0.1988678942510786 chr11 135006516 2780092 0.020592280153352006 0.18471966907167148 chr12 133851895 2267442 0.016939932004698177 0.13778316219623857 chr13 115169878 1539187 0.013364492753912617 0.12036178114861643 chr14 107349540 1226013 0.011420756903103638 0.11683522142041428 chr15 102531392 1702058 0.016600359819556532 0.13481023307639034 chr16 90354753 1632512 0.01806780435778514 0.14776590069304502 chr17 81195210 1556067 0.019164517217210228 0.15931171402799182 chr18 78077248 1409042 0.01804676824674968 0.30850889358009476 chr19 59128983 808329 0.013670605496461862 0.2577463335814614 chr20 63025520 1211990 0.019230146772291606 0.14553342005330977 chr21 48129895 835847 0.01736648293124263 0.14513600449526148 chr22 51304566 330949 0.006450673415695593 0.08354147240999966 chrMT 16571 866 0.052259972240661395 0.23764471295215958 chrX 155270560 2962901 0.019082181451525647 0.15953551894938223 chrY 59373566 140568 0.002367518231935067 0.06650452090976859