Starting /dee2/code/volunteer_pipeline.sh SRR6322409 current disk space = 1543553900544 free memory = 1605779704 SRR6322409 SRAfilesize b66c0081652a246b3dd1b132c654df2b SRR6322409.sra SRR6322409.sra file validated SRR6322409 is single end SRR6322409 is conventional basespace SRR6322409 read1 length is 50 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR6322409_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 50 %GC 53 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.207 33.0 33.0 34.0 31.0 34.0 2 32.51375 33.0 33.0 34.0 31.0 34.0 3 32.47825 33.0 33.0 34.0 31.0 34.0 4 32.3715 33.0 33.0 34.0 31.0 34.0 5 32.44675 33.0 33.0 34.0 31.0 34.0 6 35.986 38.0 36.0 38.0 31.0 38.0 7 36.50625 38.0 37.0 38.0 34.0 38.0 8 36.64875 38.0 38.0 38.0 34.0 38.0 9 36.58825 38.0 38.0 38.0 34.0 38.0 10 36.78825 38.0 38.0 38.0 34.0 38.0 11 36.67575 38.0 38.0 38.0 34.0 38.0 12 36.73275 38.0 38.0 38.0 34.0 38.0 13 36.7225 38.0 38.0 38.0 34.0 38.0 14 36.787 38.0 38.0 38.0 34.0 38.0 15 36.777 38.0 38.0 38.0 34.0 38.0 16 36.76025 38.0 38.0 38.0 34.0 38.0 17 36.79675 38.0 38.0 38.0 35.0 38.0 18 36.61325 38.0 38.0 38.0 34.0 38.0 19 36.6725 38.0 38.0 38.0 34.0 38.0 20 36.588 38.0 38.0 38.0 34.0 38.0 21 36.6695 38.0 38.0 38.0 34.0 38.0 22 36.637 38.0 38.0 38.0 34.0 38.0 23 36.786 38.0 38.0 38.0 35.0 38.0 24 36.88475 38.0 38.0 38.0 35.0 38.0 25 36.7305 38.0 38.0 38.0 34.0 38.0 26 36.733 38.0 38.0 38.0 34.0 38.0 27 36.5905 38.0 38.0 38.0 34.0 38.0 28 36.65575 38.0 38.0 38.0 34.0 38.0 29 36.56375 38.0 38.0 38.0 34.0 38.0 30 36.62075 38.0 38.0 38.0 34.0 38.0 31 36.733 38.0 38.0 38.0 35.0 38.0 32 36.58825 38.0 38.0 38.0 34.0 38.0 33 36.5535 38.0 38.0 38.0 34.0 38.0 34 36.49675 38.0 38.0 38.0 34.0 38.0 35 36.572 38.0 38.0 38.0 34.0 38.0 36 36.63775 38.0 38.0 38.0 34.0 38.0 37 36.563 38.0 38.0 38.0 34.0 38.0 38 36.6 38.0 38.0 38.0 34.0 38.0 39 36.628 38.0 38.0 38.0 34.0 38.0 40 36.4525 38.0 38.0 38.0 34.0 38.0 41 36.61425 38.0 38.0 38.0 34.0 38.0 42 36.378 38.0 38.0 38.0 34.0 38.0 43 36.3915 38.0 38.0 38.0 33.0 38.0 44 36.43775 38.0 38.0 38.0 34.0 38.0 45 36.45825 38.0 38.0 38.0 34.0 38.0 46 36.29425 38.0 38.0 38.0 33.0 38.0 47 36.4325 38.0 38.0 38.0 34.0 38.0 48 36.33925 38.0 38.0 38.0 34.0 38.0 49 36.22575 38.0 38.0 38.0 34.0 38.0 50 36.173 38.0 38.0 38.0 34.0 38.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10 0.0 1101 11 0.0 1101 12 0.0 1101 13 0.0 1101 14 0.0 1101 15 0.0 1101 16 0.0 1101 17 0.0 1101 18 0.0 1101 19 0.0 1101 20 0.0 1101 21 0.0 1101 22 0.0 1101 23 0.0 1101 24 0.0 1101 25 0.0 1101 26 0.0 1101 27 0.0 1101 28 0.0 1101 29 0.0 1101 30 0.0 1101 31 0.0 1101 32 0.0 1101 33 0.0 1101 34 0.0 1101 35 0.0 1101 36 0.0 1101 37 0.0 1101 38 0.0 1101 39 0.0 1101 40 0.0 1101 41 0.0 1101 42 0.0 1101 43 0.0 1101 44 0.0 1101 45 0.0 1101 46 0.0 1101 47 0.0 1101 48 0.0 1101 49 0.0 1101 50 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 1.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 1.0 17 0.0 18 0.0 19 0.0 20 0.0 21 3.0 22 2.0 23 1.0 24 7.0 25 15.0 26 21.0 27 26.0 28 32.0 29 52.0 30 77.0 31 75.0 32 119.0 33 151.0 34 168.0 35 249.0 36 531.0 37 2469.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 34.69800353803386 12.585291887793785 7.556229466767754 45.1604751074046 2 26.5 19.375 36.55 17.575 3 22.175 23.75 22.025 32.05 4 30.775000000000002 27.3 18.525 23.400000000000002 5 26.6816704176044 28.882220555138783 22.305576394098527 22.13053263315829 6 23.599999999999998 27.925 21.075 27.400000000000002 7 21.575 14.85 38.025 25.55 8 23.175 16.625 23.525 36.675000000000004 9 22.975 14.924999999999999 30.5 31.6 10 25.15 28.95 20.875 25.025 11 30.2 16.925 17.4 35.475 12 29.275000000000002 15.65 24.275 30.8 13 25.05 20.825 25.2 28.925 14 25.575 21.325 25.0 28.1 15 25.8 22.35 25.124999999999996 26.724999999999998 16 24.925 21.0 24.5 29.575000000000003 17 26.55 21.975 25.124999999999996 26.35 18 25.525 23.275000000000002 25.45 25.75 19 27.875 20.974999999999998 25.05 26.1 20 26.025 24.224999999999998 24.474999999999998 25.275 21 25.374999999999996 23.275000000000002 23.3 28.050000000000004 22 26.150000000000002 22.0 24.474999999999998 27.375 23 23.95 20.825 27.200000000000003 28.025 24 25.05 21.775 26.400000000000002 26.775 25 24.224999999999998 21.8 26.05 27.925 26 26.3 21.95 24.325 27.425 27 24.45 22.5 26.775 26.275 28 26.900000000000002 21.65 23.0 28.449999999999996 29 23.825 23.45 24.575 28.15 30 25.0 20.375 28.7 25.924999999999997 31 26.1 22.55 24.95 26.400000000000002 32 26.450000000000003 22.8 23.974999999999998 26.775 33 26.200000000000003 21.4 24.95 27.450000000000003 34 25.0 23.599999999999998 24.0 27.400000000000002 35 25.275 23.825 24.474999999999998 26.424999999999997 36 26.025 22.0 24.175 27.800000000000004 37 25.8 21.775 25.1 27.325 38 24.95 21.85 23.825 29.375 39 27.700000000000003 20.474999999999998 23.625 28.199999999999996 40 24.681170292573142 20.355088772193046 26.881720430107524 28.08202050512628 41 25.374999999999996 23.35 24.224999999999998 27.05 42 26.525 21.3 24.425 27.750000000000004 43 24.85 22.025 26.325 26.8 44 24.224999999999998 21.45 26.950000000000003 27.375 45 24.125 23.525 25.1 27.250000000000004 46 26.25 21.675 25.650000000000002 26.424999999999997 47 24.65 23.5 26.55 25.3 48 25.124999999999996 21.25 23.825 29.799999999999997 49 24.525 22.650000000000002 25.1 27.725 50 26.1 22.400000000000002 24.825 26.674999999999997 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 1.0 24 2.0 25 2.5 26 3.0 27 4.0 28 5.0 29 6.0 30 7.0 31 10.0 32 13.0 33 28.0 34 43.0 35 68.0 36 93.0 37 106.0 38 119.0 39 132.0 40 145.0 41 153.5 42 162.0 43 209.0 44 256.0 45 243.0 46 230.0 47 266.0 48 302.0 49 312.0 50 322.0 51 352.5 52 383.0 53 362.0 54 341.0 55 297.5 56 254.0 57 236.0 58 218.0 59 212.5 60 207.0 61 187.0 62 167.0 63 158.0 64 149.0 65 133.0 66 117.0 67 127.0 68 137.0 69 103.0 70 69.0 71 59.5 72 50.0 73 56.0 74 62.0 75 63.0 76 64.0 77 46.5 78 29.0 79 36.5 80 44.0 81 24.0 82 4.0 83 2.5 84 1.0 85 1.5 86 2.0 87 1.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 1.075 2 0.0 3 0.0 4 0.0 5 0.025 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.0 38 0.0 39 0.0 40 0.025 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.0 47 0.0 48 0.0 49 0.0 50 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 50 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 74.325 #Duplication Level Percentage of deduplicated Percentage of total 1 83.65287588294652 62.175000000000004 2 9.55264043054154 14.2 3 3.7672384796501848 8.4 4 1.3118062563067607 3.9 5 0.2690884628321561 1.0 6 0.4372687521022536 1.95 7 0.16818028927009754 0.8750000000000001 8 0.13454423141607805 0.8 9 0.20181634712411706 1.35 >10 0.5045408678102926 5.35 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGAC 26 0.65 No Hit CTCGAGGCTCGATAACACGACGTATGACAGATACGCCGGCACAACGAAAT 23 0.575 No Hit CAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCT 21 0.525 No Hit GTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAA 19 0.475 No Hit CAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATC 15 0.375 No Hit CGAGGCTCGATAACACGACGTATGACAGATACGCCGGCACAACGAAATTG 13 0.325 No Hit AGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGA 13 0.325 No Hit CTCGATAACACGACGTATGACAGATACGCCGGCACAACGAAATTGCTCAT 12 0.3 No Hit CAGCTGCCCTCGACGAAGAAGTCCATTGAACACATTGCGGCCTTGATTGT 11 0.27499999999999997 No Hit CAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGG 11 0.27499999999999997 No Hit CTCATTTTGCTCATCAAAATACTCCGTCAGACCAGCTTGTGACCTCACTT 10 0.25 No Hit CGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGA 10 0.25 No Hit GGCGGCTGCTGGCATGATTGTTCCTGTGACGGCTGAAAAGATCTAGTGAC 10 0.25 No Hit GGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTTT 10 0.25 No Hit GGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCG 10 0.25 No Hit GGCACGGCTGCTCCGGCTGAACCGACCATGGTTTCTCCTGCGCCATGCCC 9 0.22499999999999998 No Hit CCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACAT 9 0.22499999999999998 No Hit CTTCACTCTCCGCCTTCTTTAAAACGACATAGTTTTGTGGTATGATTAAC 9 0.22499999999999998 No Hit CAGCCCGCCGCCCGTGGGGAAGGGAGCTTCGAGGCGGCCGGACGCGGCTC 9 0.22499999999999998 No Hit GTCAGACCAGCTTGTGACCTCACTTGCGTAAGTGGTTCAATTGTTTGCAG 9 0.22499999999999998 No Hit CGCATCGCCAGTTCTGCTTACCAAAAATGGCCCACTTGGAGCTCCCGATT 9 0.22499999999999998 No Hit CGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGC 8 0.2 No Hit CAGAAATTGAAGTCCATATTCCACACGAACTATTTCACCTCTTCCGTCAT 8 0.2 No Hit CTCTGGTGCACATCTCCCAACTTTTGGCTTTGGCTTTGGCATTGGCTTTG 8 0.2 No Hit CGCCGCCCGTGGGGAAGGGAGCTTCGAGGCGGCCGGACGCGGCTCGTCGG 8 0.2 No Hit CGAGAATGTAGACTAAGCCGGGGGTGTTGTGGTATCGAGGTAATAAAAGG 7 0.17500000000000002 No Hit GGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGACTTAGAGGCG 7 0.17500000000000002 No Hit GAACGATTTGCACGTCAGTATCGCTTCGAGCCTCCACCAGAGTTTCCTCT 7 0.17500000000000002 No Hit GTTGTGGCGGCTGCTGGCATGATTGTTCCTGTGACGGCTGAAAAGATCTA 7 0.17500000000000002 No Hit GAAATTCTGACCGTTGAGGCGTGCGATACTGCCAGCACGTGGGTTGTATG 7 0.17500000000000002 No Hit GACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTT 6 0.15 No Hit ATCAAATCTGCACTCCCTGAAAGCTCCTTGGCGAGGACTTTGCCACAGGT 6 0.15 No Hit CTCGAGGCTCGATAACACGACGTATGACAAATACGCCAGCACAACGAAAT 6 0.15 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 6 0.15 No Hit CTCCGATCGGGTAACTCTGGCAGCTGCTTTGGGGGAAATTCGGAGTCAAC 6 0.15 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 6 0.15 No Hit GTGGACTCTCTGGTGCACATCTCCCAACTTTTGGCTTTGGCTTTGGCATT 6 0.15 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 6 0.15 No Hit CGATAACACGACGTATGACAGATACGCCGGCACAACGAAATTGCTCATTT 6 0.15 No Hit ATTCAGCCCGCCGCCCGTGGGGAAGGGAGCTTCGAGGCGGCCGGACGCGG 6 0.15 No Hit CTTTGCTCCCCGTAGCTCTGGCTGCAGGTCGTGTCCGTCCGTGCAACAGC 6 0.15 No Hit CTCTGGTGCACATCTCCCAACTTTTGGCTTTGGCATTGGCTTTGACCCAA 6 0.15 No Hit GTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTGATTTC 6 0.15 No Hit GGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGACGGAGT 5 0.125 No Hit CAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCA 5 0.125 No Hit CTCATATTGACTCTGAAGCCTCTGTGCTGTCTGTTCACTTATATCAAGGG 5 0.125 No Hit CTCCGATCCCGAAGGCCAACACAATAGGACCGGAATCCTATGATGTTATC 5 0.125 No Hit CAGCTTGTGACCTCACTTGCGTAAGTGGTTCAATTGTTTGCAGCCTATCA 5 0.125 No Hit CGAATGGCTCCGCGGAGCTGGTGCTGCAGTACGATGGGACGTACACATTG 5 0.125 No Hit GGGGTGTTGTGGTATCGAGGTAATAAAAGGCCTCGAGGCTCGATAACACG 5 0.125 No Hit GATGAATCCACGTCTCCGATCGGGTAACTCTGGCAGCTGCTTTGGGGGAA 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.025 0.0 0.0 0.0 0.0 28 0.025 0.0 0.0 0.0 0.0 29 0.025 0.0 0.0 0.0 0.0 30 0.025 0.0 0.0 0.0 0.0 31 0.025 0.0 0.0 0.0 0.0 32 0.025 0.0 0.0 0.0 0.0 33 0.025 0.0 0.0 0.0 0.0 34 0.025 0.0 0.0 0.0 0.0 35 0.025 0.0 0.0 0.0 0.0 36 0.025 0.0 0.0 0.0 0.0 37 0.025 0.0 0.0 0.0 0.0 38 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745936 spots for SRR6322409.sra Written 1745936 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra Read 1745929 spots for SRR6322409.sra Written 1745929 spots for SRR6322409.sra SRR ids: ['SRR6322409.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_kggd87f9 SRR6322409.sra spots: 34918587 blocks: [[1, 1745929], [1745930, 3491858], [3491859, 5237787], [5237788, 6983716], [6983717, 8729645], [8729646, 10475574], [10475575, 12221503], [12221504, 13967432], [13967433, 15713361], [15713362, 17459290], [17459291, 19205219], [19205220, 20951148], [20951149, 22697077], [22697078, 24443006], [24443007, 26188935], [26188936, 27934864], [27934865, 29680793], [29680794, 31426722], [31426723, 33172651], [33172652, 34918587]] SRR6322409 file size 6075660 SRR6322409 completed basic pipeline successfully skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -q 10 -k inf -t 20 -o SRR6322409 SRR6322409_1.fastq Input file: SRR6322409_1.fastq trimmed: SRR6322409-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- end quality threshold (-q): 10 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Sat Dec 7 10:27:57 2024 >> started Sat Dec 7 10:28:18 2024 >> done (20.995s) 34918587 reads processed; of these: 11461 ( 0.03%) short reads filtered out after trimming by size control 19761 ( 0.06%) empty reads filtered out after trimming by size control 34887365 (99.91%) reads available; of these: 565358 ( 1.62%) trimmed reads available after processing 34322007 (98.38%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 626 0.00% 19 547 0.00% 20 665 0.00% 21 696 0.00% 22 929 0.00% 23 1044 0.00% 24 1264 0.00% 25 1612 0.00% 26 1749 0.01% 27 1735 0.00% 28 1898 0.01% 29 2105 0.01% 30 2347 0.01% 31 2561 0.01% 32 2937 0.01% 33 3467 0.01% 34 4048 0.01% 35 4579 0.01% 36 5461 0.02% 37 6413 0.02% 38 7639 0.02% 39 8799 0.03% 40 10846 0.03% 41 13181 0.04% 42 17155 0.05% 43 21492 0.06% 44 27158 0.08% 45 36596 0.10% 46 50215 0.14% 47 68383 0.20% 48 106822 0.31% 49 150389 0.43% 50 34322007 98.38% 34887365 reads passed initial QC criterion=sequence-density sequence-density=1.78 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=32 prefix-density=1.77 prefix-fanout=2.0 sequence=TTTGGCTTTGGC criterion=fanout-score sequence-density=0.06 sequence-density-rank=28 fanout-score=67.29 fanout-score-rank=1 prefix-density=0.92 prefix-fanout=4.7 sequence=GCTGCTGCTGCATGATGGCCTGTGCCACGCCGTTGACAGCCTGGCACCGGAACTGCTCTGGGATCTGGGCCAGCTGCTGGCA Started job on | Dec 07 10:28:30 Started mapping on | Dec 07 10:28:30 Finished on | Dec 07 10:29:22 Mapping speed, Million of reads per hour | 2415.28 Number of input reads | 34887365 Average input read length | 49 UNIQUE READS: Uniquely mapped reads number | 18361181 Uniquely mapped reads % | 52.63% Average mapped length | 49.84 Number of splices: Total | 1962243 Number of splices: Annotated (sjdb) | 1860453 Number of splices: GT/AG | 1917303 Number of splices: GC/AG | 29271 Number of splices: AT/AC | 781 Number of splices: Non-canonical | 14888 Mismatch rate per base, % | 0.24% Deletion rate per base | 0.00% Deletion average length | 1.65 Insertion rate per base | 0.00% Insertion average length | 1.41 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 5755028 % of reads mapped to multiple loci | 16.50% Number of reads mapped to too many loci | 10513463 % of reads mapped to too many loci | 30.14% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 0.38% % of reads unmapped: other | 0.36% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 10771156 10771156 10771156 N_multimapping 5755028 5755028 5755028 N_noFeature 888597 18026027 1060014 N_ambiguous 184633 738 20645 UnstrandedReadsAssigned:17287951 PositiveStrandReadsAssigned:334416 NegativeStrandReadsAssigned:17280522 Dataset is classified negative stranded MeadianReadLen=50 20thPercentileLength=50 echo kmer=45 SRR6322409 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [index] k-mer length: 31 [index] number of targets: 52,972 [index] number of k-mers: 66,720,672 [index] number of equivalence classes: 111,837 [quant] running in single-end mode [quant] will process file 1: SRR6322409-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 34,887,365 reads, 21,931,614 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,154 rounds 52973 SRR6322409.ke.tsv 35125 SRR6322409.se.tsv 88098 total ==> SRR6322409.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 64.7705 4.65287 PNS24247 1044 945 26.8991 1.7115 PNS24249 1928 1829 194.065 6.37975 PNS24246 1044 945 26.8991 1.7115 PNS24248 1044 945 26.8991 1.7115 PNS24244 1471 1372 6.46707 0.283415 PNS24243 293 194 0 0 KQK14069 1603 1504 355.526 14.2132 KQK14071 474 375 125.979 20.1994 ==> SRR6322409.se.tsv <== BRADI_1g14170v3 676 BRADI_1g53295v3 655 BRADI_1g59795v3 236 BRADI_1g07683v3 0 BRADI_1g00485v3 10 BRADI_1g20270v3 278 BRADI_1g74790v3 0 BRADI_1g09890v3 0 BRADI_1g77505v3 146 BRADI_1g48960v3 3 SRR6322409 completed mapping pipeline successfully