Starting /dee2/code/volunteer_pipeline.sh SRR6322410 current disk space = 1543109132288 free memory = 1603384304 SRR6322410 SRAfilesize c5244069613596187c4b4a99be79c80a SRR6322410.sra SRR6322410.sra file validated SRR6322410 is single end SRR6322410 is conventional basespace SRR6322410 read1 length is 50 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR6322410_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 32.11675 33.0 33.0 34.0 31.0 34.0 2 32.46175 33.0 33.0 34.0 31.0 34.0 3 32.474 34.0 33.0 34.0 31.0 34.0 4 32.42175 33.0 33.0 34.0 31.0 34.0 5 32.37775 33.0 33.0 34.0 31.0 34.0 6 35.9505 38.0 36.0 38.0 31.0 38.0 7 36.40575 38.0 37.0 38.0 33.0 38.0 8 36.5985 38.0 38.0 38.0 34.0 38.0 9 36.632 38.0 38.0 38.0 34.0 38.0 10 36.70275 38.0 38.0 38.0 34.0 38.0 11 36.654 38.0 38.0 38.0 34.0 38.0 12 36.76325 38.0 38.0 38.0 34.0 38.0 13 36.7765 38.0 38.0 38.0 35.0 38.0 14 36.8035 38.0 38.0 38.0 35.0 38.0 15 36.824 38.0 38.0 38.0 35.0 38.0 16 36.7035 38.0 38.0 38.0 34.0 38.0 17 36.73 38.0 38.0 38.0 34.0 38.0 18 36.66925 38.0 38.0 38.0 34.0 38.0 19 36.74075 38.0 38.0 38.0 34.0 38.0 20 36.73875 38.0 38.0 38.0 34.0 38.0 21 36.747 38.0 38.0 38.0 34.0 38.0 22 36.67575 38.0 38.0 38.0 34.0 38.0 23 36.7895 38.0 38.0 38.0 35.0 38.0 24 36.7865 38.0 38.0 38.0 34.0 38.0 25 36.67525 38.0 38.0 38.0 34.0 38.0 26 36.72625 38.0 38.0 38.0 34.0 38.0 27 36.7465 38.0 38.0 38.0 35.0 38.0 28 36.82125 38.0 38.0 38.0 35.0 38.0 29 36.78675 38.0 38.0 38.0 35.0 38.0 30 36.64425 38.0 38.0 38.0 34.0 38.0 31 36.65675 38.0 38.0 38.0 34.0 38.0 32 36.63425 38.0 38.0 38.0 34.0 38.0 33 36.6105 38.0 38.0 38.0 34.0 38.0 34 36.65875 38.0 38.0 38.0 34.0 38.0 35 36.53375 38.0 38.0 38.0 34.0 38.0 36 36.6 38.0 38.0 38.0 34.0 38.0 37 36.6265 38.0 38.0 38.0 34.0 38.0 38 36.5905 38.0 38.0 38.0 34.0 38.0 39 36.45775 38.0 38.0 38.0 34.0 38.0 40 36.486 38.0 38.0 38.0 34.0 38.0 41 36.559 38.0 38.0 38.0 34.0 38.0 42 36.4435 38.0 38.0 38.0 34.0 38.0 43 36.538 38.0 38.0 38.0 34.0 38.0 44 36.5555 38.0 38.0 38.0 34.0 38.0 45 36.49625 38.0 38.0 38.0 34.0 38.0 46 36.4135 38.0 38.0 38.0 34.0 38.0 47 36.335 38.0 38.0 38.0 34.0 38.0 48 36.4965 38.0 38.0 38.0 34.0 38.0 49 36.354 38.0 38.0 38.0 34.0 38.0 50 36.32925 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 2.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 1.0 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 1.0 19 0.0 20 1.0 21 2.0 22 3.0 23 5.0 24 3.0 25 13.0 26 24.0 27 29.0 28 34.0 29 44.0 30 59.0 31 80.0 32 110.0 33 120.0 34 169.0 35 267.0 36 583.0 37 2450.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 39.08860759493671 11.772151898734178 7.367088607594936 41.77215189873418 2 25.474999999999998 18.5 37.35 18.675 3 22.75 22.975 25.074999999999996 29.2 4 30.3 27.375 19.325 23.0 5 26.85671417854464 28.457114278569644 21.8304576144036 22.85571392848212 6 21.825 26.55 24.85 26.775 7 23.025000000000002 13.575000000000001 39.050000000000004 24.349999999999998 8 23.5 15.174999999999999 25.1 36.225 9 22.650000000000002 15.125 31.5 30.725 10 26.924999999999997 27.150000000000002 21.099999999999998 24.825 11 30.375000000000004 16.45 19.55 33.625 12 28.749999999999996 15.375 25.35 30.525000000000002 13 25.25 19.025 24.8 30.925000000000004 14 23.875 22.625 24.725 28.775000000000002 15 25.85 20.9 26.924999999999997 26.325 16 27.625 19.725 24.925 27.725 17 24.65 22.35 25.025 27.975 18 26.625 21.6 26.700000000000003 25.074999999999996 19 26.775 22.925 24.349999999999998 25.95 20 26.3 23.0 24.575 26.125 21 25.025 23.225 25.1 26.650000000000002 22 26.174999999999997 22.275 24.275 27.275 23 24.275 21.2 26.875 27.650000000000002 24 24.25 22.15 28.349999999999998 25.25 25 23.974999999999998 21.625 27.85 26.55 26 26.900000000000002 21.725 24.625 26.75 27 25.424999999999997 22.325 27.0 25.25 28 26.775 22.3 23.575 27.35 29 24.325 23.825 26.450000000000003 25.4 30 23.925 21.775 27.875 26.424999999999997 31 28.599999999999998 22.675 22.95 25.775 32 27.250000000000004 21.349999999999998 26.224999999999998 25.174999999999997 33 26.6 19.950000000000003 25.75 27.700000000000003 34 25.874999999999996 21.925 23.849999999999998 28.349999999999998 35 25.275 23.1 25.724999999999998 25.900000000000002 36 27.0 20.200000000000003 25.124999999999996 27.675 37 25.575 22.825 25.35 26.25 38 25.3 21.925 24.775 28.000000000000004 39 27.224999999999998 21.875 24.875 26.025 40 26.775 22.1 24.25 26.875 41 22.475 23.150000000000002 26.25 28.125 42 23.825 22.925 27.0 26.25 43 27.925 21.5 23.599999999999998 26.974999999999998 44 24.8 21.725 26.224999999999998 27.250000000000004 45 25.650000000000002 21.875 25.174999999999997 27.3 46 25.374999999999996 21.875 24.95 27.800000000000004 47 24.425 22.775000000000002 26.8 26.0 48 25.25 23.0 25.45 26.3 49 25.15 22.95 25.1 26.8 50 26.075 21.3 25.174999999999997 27.450000000000003 >>END_MODULE >>Per sequence GC content pass #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 0.5 22 1.0 23 2.0 24 3.0 25 4.0 26 5.0 27 6.5 28 8.0 29 11.0 30 14.0 31 22.5 32 31.0 33 40.0 34 49.0 35 62.0 36 75.0 37 96.5 38 118.0 39 131.5 40 145.0 41 183.0 42 221.0 43 243.0 44 265.0 45 253.0 46 241.0 47 264.5 48 288.0 49 295.0 50 302.0 51 320.5 52 339.0 53 301.5 54 264.0 55 253.5 56 243.0 57 225.0 58 207.0 59 226.0 60 245.0 61 217.0 62 189.0 63 180.5 64 172.0 65 155.5 66 139.0 67 143.5 68 148.0 69 126.5 70 105.0 71 77.5 72 50.0 73 53.0 74 56.0 75 47.5 76 39.0 77 30.5 78 22.0 79 13.5 80 5.0 81 5.5 82 6.0 83 5.5 84 5.0 85 2.5 86 0.0 87 0.0 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 1.25 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 0.0 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 79.77499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 86.99467251645252 69.39999999999999 2 7.615167659041052 12.15 3 2.6010654967094955 6.225 4 1.2848636790974615 4.1000000000000005 5 0.6581009088060169 2.625 6 0.31338138514572234 1.5 7 0.1880288310874334 1.05 8 0.12535255405828893 0.8 9 0.031338138514572234 0.22499999999999998 >10 0.1880288310874334 1.925 >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 CTCGAGGCTCGATAACACGACGTATGACAGATACGCCGGCACAACGAAAT 22 0.5499999999999999 No Hit CTTCACTCTCCGCCTTCTTTAAAACGACATAGTTTTGTGGTATGATTAAC 12 0.3 No Hit GGCACGGCTGCTCCGGCTGAACCGACCATGGTTTCTCCTGCGCCATGCCC 11 0.27499999999999997 No Hit CTCTGGTGCACATCTCCCAACTTTTGGCTTTGGCTTTGGCATTGGCTTTG 11 0.27499999999999997 No Hit GTTGCTGTTGCTGCTGCTGTTGCTGCTGCTGCTGCTGCTGCATGATGGCC 11 0.27499999999999997 No Hit CGAGGCTCGATAACACGACGTATGACAGATACGCCGGCACAACGAAATTG 10 0.25 No Hit CTCCGATCGGGTAACTCTGGCAGCTGCTTTGGGGGAAATTCGGAGTCAAC 9 0.22499999999999998 No Hit GGGCACGGCTGCTCCGGCTGAACCGACCATGGTTTCTCCTGCGCCATGCC 8 0.2 No Hit CTCCCCTGGCAGCGTGCACCGCTCCGTCACGTAGTCCTTGCAGGAGTCTA 8 0.2 No Hit GTTGAGGCGTGCGATACTGCCAGCACGTGGGTTGTATGTGTCGGCACGGT 8 0.2 No Hit CGCATATGTGAATGGTACTGTCCTTGGGGTGCACTGCTGCAGGTACGCCC 8 0.2 No Hit CTGCCCTCGACGAAGAAGTCCATTGAACACATTGCGGCCTTGATTGTTAA 7 0.17500000000000002 No Hit CTCGATAACACGACGTATGACAGATACGCCGGCACAACGAAATTGCTCAT 7 0.17500000000000002 No Hit AAGGCCTCGAGGCTCGATAACACGACGTATGACAGATACGCCGGCACAAC 7 0.17500000000000002 No Hit CGGGGATGTCGCAGGCTTCGCCCTTGTTGCACATGGAAGGAAGGTTCTTC 7 0.17500000000000002 No Hit GGCAGCTGCTTTGGGGGAAATTCGGAGTCAACACACCAATCTCTTCTCCC 7 0.17500000000000002 No Hit GGCGGCTGCTGGCATGATTGTTCCTGTGACGGCTGAAAAGATCTAGTGAC 7 0.17500000000000002 No Hit CTTTATTTCACCCTAATAGTTATCATACTAACTCATTCACTCCTGTGCCT 6 0.15 No Hit ATTCACTCCTGTGCCTTAGGGGTCGAAGATGAATCCACGTCTCCGATCGG 6 0.15 No Hit GTGGGGTTCCTGCGGCTGTGAGGTCGGGTACTGCGGTCCTTGCGGCAACG 6 0.15 No Hit GGACTCTCTGGTGCACATCTCCCAACTTTTGGCTTTGGCTTTGGCATTGG 6 0.15 No Hit GGGGGTGTTGTGGTATCGAGGTAATAAAAGGCCTCGAGGCTCGATAACAC 6 0.15 No Hit ATAAAAGGCCTCGAGGCTCGATAACACGACGTATGACAGATACGCCGGCA 6 0.15 No Hit CACGTCTCCGATCGGGTAACTCTGGCAGCTGCTTTGGGGGAAATTCGGAG 6 0.15 No Hit GGGCAAGGCACGCAGGATGGAGTTCTTTCCTGCAATGTGACTAACCATGG 6 0.15 No Hit CTTGGACCTTGTGCTTGCTCAAATTGTTGGAAGGTCTCTGGGCATCCAGG 6 0.15 No Hit CTTTGCTCCCCGTAGCTCTGGCTGCAGGTCGTGTCCGTCCGTGCAACAGC 6 0.15 No Hit CAAATCTGCACTCCCTGAAAGCTCCTTGGCGAGGACTTTGCCACAGGTTT 5 0.125 No Hit CAAAACTGCACTCTCTAGAACCTCCTTGCCGAGGACTTTGCCATGTGGAC 5 0.125 No Hit CGAAGATGAATCCACGTCTCCGATCGGGTAACTCTGGCAGCTGCTTTGGG 5 0.125 No Hit CTGGGCCAGCTGCTGGCAAAACTGCTGCCTCATCACCTGGCAGCTGCTCG 5 0.125 No Hit GTGGGCACGGCTGCTCCGGCTGAACCGACCATGGTTTCTCCTGCGCCATG 5 0.125 No Hit GCGATATACTGGTATCCTTCACTCTCCGCCTTCTTTAAAACGACATAGTT 5 0.125 No Hit CTCGATTGTCCTTCCTGAGGTTCGATTGGTAGGAAGGGTTGTTTCTGCTG 5 0.125 No Hit GTCGTCTGCATCTCCGTCGGGCTGCACCGCTGCAGGAAATACTCCCTACA 5 0.125 No Hit CTGGTATCCTTCACTCTCCGCCTTCTTTAAAACGACATAGTTTTGTGGTA 5 0.125 No Hit CTCATTTTGCTCATCAAAATACTCCGTCAGACCAGCTTGTGACCTCACTT 5 0.125 No Hit GGATACACCACTGCAGAGAAATTGCTCATTCTGCTCATCAAAATACTCAG 5 0.125 No Hit CGTCAGACCAGCTTGTGACCTCACTTGCGTAAGTGGTTCAATTGTTTGCA 5 0.125 No Hit CTGCATCTCCGTCGGGCTGCACCGCTGCAGGAAATACTCCCTACACTGGT 5 0.125 No Hit CACAACGTCCCGGATGGCCTGGCATCGGGACTGCACGTCAATTTGGGACA 5 0.125 No Hit GGGGTCCCTGCGGCTGCGAGGTCGGGTAGTGTGGTGCTAGCTGGTGCTGA 5 0.125 No Hit GTTTTGAGCTTCTTGCCTAGAGATGCGGTACGCATTGGCGATGACATCGA 5 0.125 No Hit GTGGGGTCCCTGCGGCTGCGAGGTCGGGTAGTGTGGTGCTAGCTGGTGCT 5 0.125 No Hit CCTGCTGCTGCCTGTCCTTGCACTGCTGCAGGCACTCGGCCTGCTGGTGG 5 0.125 No Hit CGAATGGCTCCGCGGAGCTGGTGCTGCAGTACGATGGGACGTACACATTG 5 0.125 No Hit CTCACTTGCCGGAGTGGTTCATGTGCTTGTAGCCTATCAAATCTGCACTC 5 0.125 No Hit GTTGTGGCGGCTGCTGGCATGATTGTTCCTGTGACGGCTGAAAAGATCTA 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 0.025 0.0 0.0 0.0 0.0 24 0.025 0.0 0.0 0.0 0.0 25 0.05 0.0 0.0 0.0 0.0 26 0.05 0.0 0.0 0.0 0.0 27 0.05 0.0 0.0 0.0 0.0 28 0.05 0.0 0.0 0.0 0.0 29 0.05 0.0 0.0 0.0 0.0 30 0.05 0.0 0.0 0.0 0.0 31 0.05 0.0 0.0 0.0 0.0 32 0.05 0.0 0.0 0.0 0.0 33 0.05 0.0 0.0 0.0 0.0 34 0.05 0.0 0.0 0.0 0.0 35 0.05 0.0 0.0 0.0 0.0 36 0.05 0.0 0.0 0.0 0.0 37 0.05 0.0 0.0 0.0 0.0 38 0.05 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759475 spots for SRR6322410.sra Written 1759475 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra Read 1759462 spots for SRR6322410.sra Written 1759462 spots for SRR6322410.sra SRR ids: ['SRR6322410.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_j8x1fj15 SRR6322410.sra spots: 35189253 blocks: [[1, 1759462], [1759463, 3518924], [3518925, 5278386], [5278387, 7037848], [7037849, 8797310], [8797311, 10556772], [10556773, 12316234], [12316235, 14075696], [14075697, 15835158], [15835159, 17594620], [17594621, 19354082], [19354083, 21113544], [21113545, 22873006], [22873007, 24632468], [24632469, 26391930], [26391931, 28151392], [28151393, 29910854], [29910855, 31670316], [31670317, 33429778], [33429779, 35189253]] SRR6322410 file size 6122835 SRR6322410 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 SRR6322410 SRR6322410_1.fastq Input file: SRR6322410_1.fastq trimmed: SRR6322410-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 12:11:59 2024 >> started Sat Dec 7 12:12:21 2024 >> done (22.584s) 35189253 reads processed; of these: 13673 ( 0.04%) short reads filtered out after trimming by size control 23150 ( 0.07%) empty reads filtered out after trimming by size control 35152430 (99.90%) reads available; of these: 552616 ( 1.57%) trimmed reads available after processing 34599814 (98.43%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 780 0.00% 19 516 0.00% 20 605 0.00% 21 755 0.00% 22 846 0.00% 23 1051 0.00% 24 1219 0.00% 25 1655 0.00% 26 1571 0.00% 27 1723 0.00% 28 1903 0.01% 29 2015 0.01% 30 2058 0.01% 31 2678 0.01% 32 2819 0.01% 33 3466 0.01% 34 3923 0.01% 35 4767 0.01% 36 5454 0.02% 37 6269 0.02% 38 7438 0.02% 39 8617 0.02% 40 10641 0.03% 41 13045 0.04% 42 17173 0.05% 43 21495 0.06% 44 27158 0.08% 45 36720 0.10% 46 48860 0.14% 47 66072 0.19% 48 103386 0.29% 49 145938 0.42% 50 34599814 98.43% 35152430 reads passed initial QC criterion=sequence-density sequence-density=1.97 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=36 prefix-density=1.95 prefix-fanout=2.0 sequence=TTTGGCTTTGGC criterion=fanout-score sequence-density=0.11 sequence-density-rank=30 fanout-score=65.62 fanout-score-rank=1 prefix-density=1.50 prefix-fanout=4.8 sequence=GCTGCTGCTGCATGATGGCCTGTGCCACGCCGTTGACAGCCTGGCACCGGAACTGCTCTGGGATCTGGGCCAGCTGCTGGCA Started job on | Dec 07 12:12:31 Started mapping on | Dec 07 12:12:31 Finished on | Dec 07 12:13:07 Mapping speed, Million of reads per hour | 3515.24 Number of input reads | 35152430 Average input read length | 49 UNIQUE READS: Uniquely mapped reads number | 26035954 Uniquely mapped reads % | 74.07% Average mapped length | 49.85 Number of splices: Total | 2460889 Number of splices: Annotated (sjdb) | 2325862 Number of splices: GT/AG | 2398200 Number of splices: GC/AG | 38591 Number of splices: AT/AC | 1051 Number of splices: Non-canonical | 23047 Mismatch rate per base, % | 0.25% Deletion rate per base | 0.00% Deletion average length | 1.51 Insertion rate per base | 0.00% Insertion average length | 1.43 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 6980883 % of reads mapped to multiple loci | 19.86% Number of reads mapped to too many loci | 2028393 % of reads mapped to too many loci | 5.77% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 0.23% % of reads unmapped: other | 0.07% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 2135593 2135593 2135593 N_multimapping 6980883 6980883 6980883 N_noFeature 1047672 25543957 1316840 N_ambiguous 250932 904 27782 UnstrandedReadsAssigned:24737350 PositiveStrandReadsAssigned:491093 NegativeStrandReadsAssigned:24691332 Dataset is classified negative stranded MeadianReadLen=50 20thPercentileLength=50 echo kmer=45 SRR6322410 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: SRR6322410-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 35,152,430 reads, 30,089,462 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,152 rounds 52973 SRR6322410.ke.tsv 35125 SRR6322410.se.tsv 88098 total ==> SRR6322410.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 53.3856 2.6888 PNS24247 1044 945 54.5539 2.43362 PNS24249 1928 1829 131.241 3.02492 PNS24246 1044 945 54.5539 2.43362 PNS24248 1044 945 54.5539 2.43362 PNS24244 1471 1372 56.7122 1.74254 PNS24243 293 194 0 0 KQK14069 1603 1504 721.84 20.2326 KQK14071 474 375 313.834 35.28 ==> SRR6322410.se.tsv <== BRADI_1g14170v3 1312 BRADI_1g53295v3 441 BRADI_1g59795v3 272 BRADI_1g07683v3 0 BRADI_1g00485v3 5 BRADI_1g20270v3 255 BRADI_1g74790v3 0 BRADI_1g09890v3 0 BRADI_1g77505v3 192 BRADI_1g48960v3 3 SRR6322410 completed mapping pipeline successfully