Starting /dee2/code/volunteer_pipeline.sh ERR6133480 current disk space = 1544880173056 free memory = 1598279780 ERR6133480 SRAfilesize f2fb8c5d735713b3619bc438fb3d1574 ERR6133480.sra ERR6133480.sra file validated ERR6133480 is single end ERR6133480 is conventional basespace ERR6133480 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133480_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70-93 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.582 37.0 33.0 37.0 33.0 37.0 2 36.419 37.0 37.0 37.0 37.0 37.0 3 35.62125 37.0 37.0 37.0 33.0 37.0 4 34.93925 37.0 37.0 37.0 33.0 37.0 5 34.93225 37.0 37.0 37.0 33.0 37.0 6 35.377 37.0 37.0 37.0 33.0 37.0 7 37.0245 37.0 37.0 40.0 33.0 40.0 8 37.07375 37.0 37.0 40.0 33.0 40.0 9 37.1355 37.0 37.0 40.0 33.0 40.0 10-11 37.116375 37.0 37.0 40.0 33.0 40.0 12-13 37.10325 37.0 37.0 40.0 33.0 40.0 14-15 37.055375 37.0 37.0 40.0 33.0 40.0 16-17 36.866375000000005 37.0 37.0 40.0 33.0 40.0 18-19 36.759875 37.0 37.0 40.0 33.0 40.0 20-21 36.476375000000004 37.0 37.0 40.0 33.0 40.0 22-23 36.383125 37.0 37.0 40.0 33.0 40.0 24-25 36.39475 37.0 37.0 40.0 33.0 40.0 26-27 36.596125 37.0 37.0 40.0 33.0 40.0 28-29 36.630375 37.0 37.0 40.0 33.0 40.0 30-31 36.4825 37.0 37.0 40.0 33.0 40.0 32-33 36.3855 37.0 37.0 40.0 33.0 40.0 34-35 36.22225 37.0 37.0 40.0 33.0 40.0 36-37 36.15275 37.0 37.0 40.0 33.0 40.0 38-39 36.173375 37.0 37.0 40.0 33.0 40.0 40-41 35.954499999999996 37.0 37.0 40.0 33.0 40.0 42-43 35.900375 37.0 35.0 40.0 33.0 40.0 44-45 35.903875 37.0 35.0 37.0 33.0 40.0 46-47 35.864375 37.0 35.0 37.0 33.0 40.0 48-49 35.901375 37.0 35.0 37.0 33.0 40.0 50-51 35.73325 37.0 35.0 37.0 33.0 40.0 52-53 35.295 37.0 33.0 37.0 33.0 40.0 54-55 35.312 37.0 33.0 37.0 33.0 38.5 56-57 35.1175 37.0 33.0 37.0 33.0 37.0 58-59 34.13975 37.0 33.0 37.0 27.0 37.0 60-61 34.506 37.0 33.0 37.0 27.0 37.0 62-63 34.416250000000005 37.0 33.0 37.0 30.0 37.0 64-65 34.380125 37.0 33.0 37.0 30.0 37.0 66-67 34.52475 37.0 33.0 37.0 33.0 37.0 68-69 33.769625000000005 35.0 33.0 37.0 30.0 37.0 70-71 33.86755478589421 35.0 33.0 37.0 27.0 37.0 72-73 34.273115333250274 37.0 33.0 37.0 33.0 37.0 74-75 34.240589971898586 37.0 33.0 37.0 27.0 37.0 76-77 34.148953331049654 37.0 33.0 37.0 27.0 37.0 78-79 33.99946889798044 37.0 33.0 37.0 27.0 37.0 80-81 33.96024126004876 37.0 33.0 37.0 27.0 37.0 82-83 33.822955249686515 37.0 33.0 37.0 27.0 37.0 84-85 33.44067450647215 35.0 33.0 37.0 27.0 37.0 86-87 33.40669205658324 35.0 33.0 37.0 27.0 37.0 88-89 33.54556583242655 37.0 33.0 37.0 27.0 37.0 90-91 33.33759521218716 33.0 33.0 37.0 27.0 37.0 92-93 33.258705114254624 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 11.0 21 10.0 22 16.0 23 25.0 24 15.0 25 34.0 26 34.0 27 42.0 28 44.0 29 67.0 30 93.0 31 128.0 32 156.0 33 190.0 34 277.0 35 499.0 36 972.0 37 909.0 38 456.0 39 22.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 88.1 2.9250000000000003 3.25 5.7250000000000005 2 74.02499999999999 14.7 7.249999999999999 4.025 3 40.5 36.825 12.7 9.975000000000001 4 34.025 30.099999999999998 17.424999999999997 18.45 5 26.575 32.225 23.65 17.549999999999997 6 19.25 41.025 23.375 16.35 7 38.574999999999996 28.475 18.2 14.75 8 29.775000000000002 28.475 23.525 18.224999999999998 9 25.85 32.074999999999996 25.0 17.075000000000003 10-11 24.0 29.225 28.025 18.75 12-13 25.825 27.1375 25.874999999999996 21.1625 14-15 22.875 32.737500000000004 27.462500000000002 16.925 16-17 25.95 29.9375 24.3625 19.75 18-19 26.137500000000003 25.8125 26.887499999999996 21.1625 20-21 27.740967620952617 25.66570821352669 27.203400425053132 19.38992374046756 22-23 27.9125 23.5375 26.637499999999996 21.912499999999998 24-25 24.8625 24.175 28.375 22.5875 26-27 26.200000000000003 25.9875 28.275 19.537499999999998 28-29 23.549999999999997 29.175 27.875 19.400000000000002 30-31 30.775000000000002 25.6 23.7125 19.9125 32-33 26.787499999999998 25.912499999999998 25.8125 21.4875 34-35 26.0375 28.875 25.6125 19.475 36-37 26.1625 24.325 26.224999999999998 23.2875 38-39 28.59107388423553 24.978122265283158 28.90361295161895 17.527190898862358 40-41 26.16577072134017 25.25315664458057 28.82860357544693 19.75246905863233 42-43 26.4625 30.7375 23.849999999999998 18.95 44-45 25.174999999999997 27.1375 28.537499999999998 19.15 46-47 25.650000000000002 22.9375 25.900000000000002 25.5125 48-49 25.137500000000003 24.224999999999998 29.325000000000003 21.3125 50-51 23.875 28.037499999999998 27.8375 20.25 52-53 24.43665498247371 27.30345518277416 25.250375563345017 23.00951427140711 54-55 23.125 28.749999999999996 27.500000000000004 20.625 56-57 26.75 27.975 25.474999999999998 19.8 58-59 22.4375 25.374999999999996 30.112499999999997 22.075 60-61 28.875 24.6875 27.0 19.4375 62-63 20.849999999999998 29.562500000000004 31.0 18.587500000000002 64-65 23.1125 31.7 26.0125 19.175 66-67 26.0125 30.587500000000002 25.5625 17.837500000000002 68-69 23.2875 26.187500000000004 28.4375 22.0875 70-71 25.10664993726474 26.750313676286076 26.12296110414053 22.020075282308657 72-73 27.633917237877636 25.01904036557502 28.052805280528055 19.294237116019293 74-75 24.839702487817387 29.61015645037189 26.122082585278278 19.428058476532446 76-77 22.016087182148418 26.076803321224702 27.711468604047745 24.19564089257914 78-79 24.725130890052355 26.649214659685867 29.554973821989527 19.070680628272253 80-81 23.970880211780276 31.515552614162807 27.068166776968894 17.445400397088022 82-83 24.816053511705686 25.35117056856187 26.996655518394647 22.83612040133779 84-85 23.36182336182336 26.956993623660292 29.84669651336318 19.83448650115317 86-87 22.728509249183894 28.604461371055496 28.318824809575627 20.348204570184983 88-89 20.252992383025028 30.835146898803046 28.82208922742111 20.089771490750817 90-91 28.01958650707291 27.761153427638735 26.4417845484222 17.777475516866158 92-93 21.20511425462459 30.73993471164309 28.631664853101196 19.423286180631123 >>END_MODULE >>Per sequence GC content fail #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 3.0 19 4.5 20 3.5 21 2.0 22 0.5 23 3.5 24 5.0 25 5.5 26 6.5 27 12.0 28 19.5 29 19.0 30 18.0 31 29.0 32 51.0 33 64.0 34 65.5 35 78.5 36 105.5 37 132.5 38 160.5 39 176.5 40 180.5 41 184.0 42 191.0 43 199.0 44 188.5 45 197.5 46 207.0 47 177.5 48 151.5 49 154.5 50 163.5 51 155.5 52 171.5 53 210.5 54 233.5 55 162.5 56 80.0 57 74.0 58 60.5 59 47.0 60 36.5 61 26.0 62 22.0 63 19.5 64 22.0 65 22.0 66 13.5 67 7.5 68 6.0 69 6.5 70 7.5 71 6.0 72 6.0 73 4.0 74 2.0 75 2.0 76 2.0 77 1.0 78 0.5 79 0.5 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 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 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 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0125 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0125 40-41 0.0125 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.15 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 70 30.0 71 21.0 72 20.0 73 19.0 74 22.0 75 24.0 76 20.0 77 14.0 78 20.0 79 23.0 80 19.0 81 20.0 82 21.0 83 32.0 84 19.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 3676.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 74.47500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 91.8429003021148 68.4 2 5.001678415575697 7.449999999999999 3 0.9399127223900637 2.1 4 0.6042296072507553 1.7999999999999998 5 0.4028197381671702 1.5 6 0.3021148036253776 1.35 7 0.16784155756965424 0.8750000000000001 8 0.10070493454179255 0.6 9 0.0 0.0 >10 0.5370929842228935 7.625 >50 0.06713662302786169 3.9 >100 0.033568311513930846 4.3999999999999995 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 176 4.3999999999999995 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 98 2.45 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 58 1.4500000000000002 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 35 0.8750000000000001 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 25 0.625 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 24 0.6 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 22 0.5499999999999999 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 22 0.5499999999999999 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 21 0.525 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 20 0.5 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 20 0.5 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 19 0.475 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 19 0.475 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 17 0.42500000000000004 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 14 0.35000000000000003 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 14 0.35000000000000003 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 12 0.3 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 11 0.27499999999999997 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 10 0.25 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 8 0.2 No Hit GGGCTCGAGGAGCATATGTACATTTGAACCCTGACTACACATATACACAC 8 0.2 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 8 0.2 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 7 0.17500000000000002 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 7 0.17500000000000002 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 7 0.17500000000000002 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 7 0.17500000000000002 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 6 0.15 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 6 0.15 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 6 0.15 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 6 0.15 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 6 0.15 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 6 0.15 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 6 0.15 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 6 0.15 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 6 0.15 No Hit GGGGGAGAAGTCTTATGTTATATATGGTAATCGCCTTGCCTATAGTGCCC 5 0.125 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 5 0.125 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 5 0.125 No Hit GGGTCGAAATATGGCTTTCAAATTAAGTTCCGAATTAGTAGATGCTGCCA 5 0.125 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 5 0.125 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 5 0.125 No Hit GGGCGTGGCGTTCATGAACAAGTGAAACCTTATGGCTGGATGGGTCATCG 5 0.125 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAAGATGAT 5 0.125 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 5 0.125 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 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 0.025 0.0 0.0 0.0 0.0 8 0.025 0.0 0.0 0.0 0.0 9 0.025 0.0 0.0 0.0 0.0 10-11 0.025 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.025 0.0 0.0 0.0 0.0 16-17 0.025 0.0 0.0 0.0 0.0 18-19 0.025 0.0 0.0 0.0 0.0 20-21 0.025 0.0 0.0 0.0 0.0 22-23 0.025 0.0 0.0 0.0 0.0 24-25 0.025 0.0 0.0 0.0 0.0 26-27 0.025 0.0 0.0 0.0 0.0 28-29 0.037500000000000006 0.0 0.0 0.0 0.0 30-31 0.05 0.0 0.0 0.0 0.0 32-33 0.0625 0.0 0.0 0.0 0.0 34-35 0.075 0.0 0.0 0.0 0.0 36-37 0.1 0.0 0.0 0.0 0.0 38-39 0.125 0.0 0.0 0.0 0.0 40-41 0.1375 0.0 0.0 0.0 0.0 42-43 0.15 0.0 0.0 0.0 0.0 44-45 0.15 0.0 0.0 0.0 0.0 46-47 0.15 0.0 0.0 0.0 0.0 48-49 0.15 0.0 0.0 0.0 0.0 50-51 0.15 0.0 0.0 0.0 0.0 52-53 0.15 0.0 0.0 0.0 0.0 54-55 0.15 0.0 0.0 0.0 0.0 56-57 0.15 0.0 0.0 0.0 0.0 58-59 0.15 0.0 0.0 0.0 0.0 60-61 0.15 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.15 0.0 0.0 0.0 0.0 66-67 0.16249999999999998 0.0 0.0 0.0 0.0 68-69 0.175 0.0 0.0 0.0 0.0 70-71 0.175 0.0 0.0 0.0 0.0 72-73 0.175 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.175 0.0 0.0 0.0 0.0 78-79 0.175 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GCAATAC 25 7.494421E-5 69.049995 7 CAATACA 25 7.494421E-5 69.049995 8 GAGCAAT 25 7.494421E-5 69.049995 5 AATACAA 25 7.494421E-5 69.049995 9 AGCAATA 25 7.494421E-5 69.049995 6 GGAGAGC 30 1.8480608E-4 57.541668 2 AGAGCAA 30 1.8480608E-4 57.541668 4 GAGAGCA 30 1.8480608E-4 57.541668 3 GGGGAAA 40 1.1064096E-5 53.945312 1 GGGAGAG 35 3.9584274E-4 49.32143 1 CATCACT 20 6.724045E-4 44.83766 82-83 ATCACTA 20 6.724045E-4 44.83766 84-85 CACTAGC 20 6.724045E-4 44.83766 86-87 TCACTAG 20 6.724045E-4 44.83766 84-85 ACTAGCT 20 6.724045E-4 44.83766 86-87 AAAGCAT 20 6.724045E-4 44.83766 78-79 GCATCAC 20 6.724045E-4 44.83766 82-83 GCCGAAA 20 6.724045E-4 44.83766 74-75 CCAGTAG 20 7.403668E-4 43.980892 68-69 TCCAGTA 20 7.403668E-4 43.980892 68-69 >>END_MODULE Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37827 READS because READLEN < 1 Read 37827 spots for ERR6133480.sra Written 37827 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra Rejected 37820 READS because READLEN < 1 Read 37820 spots for ERR6133480.sra Written 37820 spots for ERR6133480.sra SRR ids: ['ERR6133480.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_2y_m0lh9 ERR6133480.sra spots: 756407 blocks: [[1, 37820], [37821, 75640], [75641, 113460], [113461, 151280], [151281, 189100], [189101, 226920], [226921, 264740], [264741, 302560], [302561, 340380], [340381, 378200], [378201, 416020], [416021, 453840], [453841, 491660], [491661, 529480], [529481, 567300], [567301, 605120], [605121, 642940], [642941, 680760], [680761, 718580], [718581, 756407]] ERR6133480 file size 164471 ERR6133480 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 ERR6133480 ERR6133480_1.fastq Input file: ERR6133480_1.fastq trimmed: ERR6133480-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 06:57:26 2024 >> started Sat Dec 7 06:57:26 2024 >> done (0.672s) 756407 reads processed; of these: 263 ( 0.03%) short reads filtered out after trimming by size control 29 ( 0.00%) empty reads filtered out after trimming by size control 756115 (99.96%) reads available; of these: 14338 ( 1.90%) trimmed reads available after processing 741777 (98.10%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 42 0.01% 19 73 0.01% 20 26 0.00% 21 30 0.00% 22 29 0.00% 23 20 0.00% 24 14 0.00% 25 10 0.00% 26 12 0.00% 27 27 0.00% 28 75 0.01% 29 68 0.01% 30 29 0.00% 31 34 0.00% 32 36 0.00% 33 39 0.01% 34 43 0.01% 35 138 0.02% 36 931 0.12% 37 32 0.00% 38 41 0.01% 39 83 0.01% 40 90 0.01% 41 30 0.00% 42 17 0.00% 43 36 0.00% 44 20 0.00% 45 47 0.01% 46 24 0.00% 47 8 0.00% 48 17 0.00% 49 16 0.00% 50 5 0.00% 51 28 0.00% 52 9 0.00% 53 9 0.00% 54 8 0.00% 55 7 0.00% 56 8 0.00% 57 8 0.00% 58 17 0.00% 59 13 0.00% 60 10 0.00% 61 5 0.00% 62 2 0.00% 63 0 0.00% 64 2 0.00% 65 4 0.00% 66 4 0.00% 67 7 0.00% 68 18 0.00% 69 60 0.01% 70 5611 0.74% 71 4838 0.64% 72 5052 0.67% 73 4641 0.61% 74 4759 0.63% 75 4618 0.61% 76 3960 0.52% 77 4104 0.54% 78 4380 0.58% 79 5062 0.67% 80 4457 0.59% 81 4966 0.66% 82 5456 0.72% 83 5662 0.75% 84 4328 0.57% 85 24 0.00% 86 51 0.01% 87 66 0.01% 88 147 0.02% 89 268 0.04% 90 518 0.07% 91 1678 0.22% 92 8047 1.06% 93 671061 88.75% 756115 reads passed initial QC criterion=sequence-density sequence-density=1.13 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=26 prefix-density=1.13 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.03 sequence-density-rank=23 fanout-score=28.53 fanout-score-rank=1 prefix-density=0.26 prefix-fanout=3.2 sequence=ATCGATCGATCCGTGCATCGCCATGATGGTACCCATCGTCCATGGAATGTAGTGCGTGAGAGAGGTTTAAAATGCTGAGGGTGGGTGTAACATGTAAATTTGTACGCGTGCTGCGTGCACGCTTGTAATATTTATTATATTGTGCTCTTAGTGTGCATTGCATCTCTGATCACTC Started job on | Dec 07 06:57:36 Started mapping on | Dec 07 06:57:37 Finished on | Dec 07 06:58:00 Mapping speed, Million of reads per hour | 118.35 Number of input reads | 756115 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 460846 Uniquely mapped reads % | 60.95% Average mapped length | 90.76 Number of splices: Total | 17718 Number of splices: Annotated (sjdb) | 14300 Number of splices: GT/AG | 16706 Number of splices: GC/AG | 536 Number of splices: AT/AC | 12 Number of splices: Non-canonical | 464 Mismatch rate per base, % | 0.46% Deletion rate per base | 0.04% Deletion average length | 1.84 Insertion rate per base | 0.03% Insertion average length | 1.62 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 254898 % of reads mapped to multiple loci | 33.71% Number of reads mapped to too many loci | 9498 % of reads mapped to too many loci | 1.26% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.97% % of reads unmapped: other | 0.11% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 40371 40371 40371 N_multimapping 254898 254898 254898 N_noFeature 31243 36234 438963 N_ambiguous 18917 2030 62 UnstrandedReadsAssigned:410686 PositiveStrandReadsAssigned:422582 NegativeStrandReadsAssigned:21821 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133480 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: ERR6133480-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 756,115 reads, 578,795 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 833 rounds 52973 ERR6133480.ke.tsv 35125 ERR6133480.se.tsv 88098 total ==> ERR6133480.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 0 0 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 20 34.2697 PNS24243 293 194 0 0 KQK14069 1603 1504 12 18.7572 KQK14071 474 375 0 0 ==> ERR6133480.se.tsv <== BRADI_1g14170v3 12 BRADI_1g53295v3 4 BRADI_1g59795v3 4 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 5 BRADI_1g74790v3 3 BRADI_1g09890v3 0 BRADI_1g77505v3 8 BRADI_1g48960v3 0 ERR6133480 completed mapping pipeline successfully