Starting /dee2/code/volunteer_pipeline.sh ERR6133304 current disk space = 1548385587200 free memory = 1378842592 ERR6133304 SRAfilesize 67f8ec92a89958ca50450a99266fff36 ERR6133304.sra ERR6133304.sra file validated ERR6133304 is single end ERR6133304 is conventional basespace ERR6133304 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133304_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 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.03075 37.0 33.0 37.0 33.0 37.0 2 36.37475 37.0 37.0 37.0 33.0 37.0 3 36.004 37.0 37.0 37.0 33.0 37.0 4 35.61875 37.0 37.0 37.0 33.0 37.0 5 35.54325 37.0 37.0 37.0 33.0 37.0 6 35.83175 37.0 37.0 37.0 33.0 37.0 7 37.6145 40.0 37.0 40.0 33.0 40.0 8 37.623 40.0 37.0 40.0 33.0 40.0 9 37.7185 40.0 37.0 40.0 33.0 40.0 10-11 37.57025 40.0 37.0 40.0 33.0 40.0 12-13 37.463499999999996 40.0 37.0 40.0 33.0 40.0 14-15 37.384 40.0 37.0 40.0 33.0 40.0 16-17 37.3625 40.0 37.0 40.0 33.0 40.0 18-19 37.283125 37.0 37.0 40.0 33.0 40.0 20-21 36.982749999999996 37.0 37.0 40.0 33.0 40.0 22-23 37.0945 37.0 37.0 40.0 33.0 40.0 24-25 37.192875 37.0 37.0 40.0 33.0 40.0 26-27 37.121125 37.0 37.0 40.0 33.0 40.0 28-29 37.08825 37.0 37.0 40.0 33.0 40.0 30-31 37.0145 37.0 37.0 40.0 33.0 40.0 32-33 36.876625000000004 37.0 37.0 40.0 33.0 40.0 34-35 36.807125 37.0 37.0 40.0 33.0 40.0 36-37 36.66275 37.0 37.0 40.0 33.0 40.0 38-39 36.364125 37.0 37.0 40.0 33.0 40.0 40-41 36.240375 37.0 37.0 40.0 33.0 40.0 42-43 36.035125 37.0 37.0 40.0 33.0 40.0 44-45 35.569625 37.0 33.0 40.0 33.0 40.0 46-47 35.130125 37.0 33.0 37.0 27.0 40.0 48-49 35.110875 37.0 33.0 37.0 27.0 40.0 50-51 34.945625 37.0 33.0 37.0 27.0 40.0 52-53 34.712125 37.0 33.0 37.0 27.0 40.0 54-55 34.628249999999994 37.0 33.0 37.0 27.0 40.0 56-57 34.221625 37.0 33.0 37.0 27.0 38.5 58-59 32.0325 33.0 30.0 37.0 24.5 37.0 60-61 33.516625 35.0 33.0 37.0 27.0 37.0 62-63 33.668 37.0 33.0 37.0 27.0 37.0 64-65 33.6645 37.0 33.0 37.0 27.0 37.0 66-67 33.381875 37.0 33.0 37.0 27.0 37.0 68-69 32.819874999999996 35.0 33.0 37.0 27.0 37.0 70-71 32.869383048289734 33.0 33.0 37.0 27.0 37.0 72-73 33.20439756756992 37.0 33.0 37.0 27.0 37.0 74-75 33.217993976411314 37.0 33.0 37.0 27.0 37.0 76-77 33.224887855873035 37.0 33.0 37.0 27.0 37.0 78-79 33.21713305105111 37.0 33.0 37.0 27.0 37.0 80-81 33.1497822742314 37.0 33.0 37.0 27.0 37.0 82-83 33.03139896105772 33.0 33.0 37.0 27.0 37.0 84-85 32.73505983196749 33.0 33.0 37.0 27.0 37.0 86-87 32.71058917197452 33.0 33.0 37.0 27.0 37.0 88-89 32.84368365180467 33.0 33.0 37.0 27.0 37.0 90-91 32.60549363057325 33.0 33.0 37.0 27.0 37.0 92-93 32.59753184713376 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 10.0 21 17.0 22 22.0 23 31.0 24 37.0 25 33.0 26 47.0 27 61.0 28 70.0 29 80.0 30 104.0 31 126.0 32 166.0 33 208.0 34 265.0 35 481.0 36 750.0 37 890.0 38 591.0 39 11.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 83.39999999999999 3.325 4.95 8.325000000000001 2 64.125 21.15 9.825000000000001 4.9 3 28.375 39.675 18.6 13.350000000000001 4 30.975 25.25 20.825 22.95 5 22.05 29.65 31.3 17.0 6 18.55 37.4 25.95 18.099999999999998 7 36.449999999999996 30.375000000000004 19.3 13.875000000000002 8 27.375 31.025000000000002 24.85 16.75 9 23.425 27.325 31.025000000000002 18.224999999999998 10-11 22.225 28.65 30.575000000000003 18.55 12-13 23.9125 27.6125 29.15 19.325 14-15 19.9125 29.725 30.7625 19.6 16-17 23.5875 32.65 23.8875 19.875 18-19 21.512500000000003 27.037499999999998 31.775 19.675 20-21 25.7125 26.125 29.1125 19.05 22-23 27.825 23.3 27.8625 21.0125 24-25 24.762500000000003 27.212500000000002 28.799999999999997 19.225 26-27 24.5625 26.35 32.074999999999996 17.0125 28-29 24.224999999999998 30.162499999999998 27.825 17.7875 30-31 25.2625 27.3375 28.4 19.0 32-33 23.3875 26.950000000000003 30.075000000000003 19.5875 34-35 23.1625 30.0875 26.187500000000004 20.5625 36-37 25.678209776222026 25.59069883735467 26.2782847855982 22.452806600825102 38-39 26.4599224709266 24.59672377141428 31.936976366137305 17.00637739152182 40-41 26.1125 24.925 26.875 22.0875 42-43 24.34054256782098 28.86610826353294 28.216027003375423 18.577322165270658 44-45 21.125 28.3375 31.7625 18.775 46-47 23.275000000000002 26.0625 29.15 21.512500000000003 48-49 22.787499999999998 27.1375 30.9375 19.1375 50-51 23.070186413111475 27.73676967346428 29.888652570999625 19.30439134242462 52-53 24.47779862414009 27.692307692307693 27.10444027517198 20.725453408380236 54-55 24.675 27.962500000000002 30.7625 16.6 56-57 26.05 27.125 28.549999999999997 18.275 58-59 23.425 25.624999999999996 30.9875 19.9625 60-61 25.4625 27.787499999999998 29.1875 17.5625 62-63 19.45 31.95 32.0 16.6 64-65 21.712500000000002 29.4125 30.425 18.45 66-67 24.0125 29.8875 28.175 17.925 68-69 20.9875 28.299999999999997 29.175 21.5375 70-71 23.119358074222667 27.996489468405215 28.77382146439318 20.110330992978938 72-73 25.00632431065014 26.47356438148242 29.167720718441693 19.352390589425752 74-75 23.008399083736318 27.284296258589976 31.19114278442352 18.51616187325019 76-77 22.602125752337045 27.212191061595597 27.28902548341657 22.89665770265079 78-79 22.51544799176107 26.390319258496397 32.36354273944387 18.730690010298662 80-81 21.31722525331255 31.735515718368408 29.111457521434136 17.835801506884906 82-83 21.70207185942827 27.79963283503803 30.64516129032258 19.85313401521112 84-85 21.880794701986755 24.066225165562912 34.17218543046358 19.880794701986755 86-87 21.947983014861997 26.393312101910826 30.78556263269639 20.873142250530783 88-89 19.081740976645438 31.130573248407643 29.803609341825904 19.98407643312102 90-91 25.013269639065815 27.34872611464968 29.989384288747345 17.648619957537154 92-93 21.40392781316348 32.55042462845011 28.13163481953291 17.9140127388535 >>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 1.0 16 2.0 17 14.0 18 18.0 19 5.5 20 1.5 21 4.5 22 6.5 23 8.0 24 8.5 25 9.0 26 18.5 27 19.5 28 23.0 29 32.5 30 33.0 31 50.5 32 72.0 33 75.0 34 84.5 35 110.0 36 138.5 37 199.5 38 249.5 39 208.0 40 187.0 41 213.5 42 246.0 43 272.0 44 229.0 45 173.5 46 172.5 47 175.0 48 154.5 49 168.0 50 182.5 51 156.5 52 122.5 53 118.0 54 111.5 55 67.0 56 36.5 57 34.0 58 32.0 59 26.0 60 20.5 61 16.0 62 14.0 63 13.0 64 9.0 65 5.0 66 4.5 67 5.0 68 5.0 69 5.0 70 4.5 71 5.0 72 5.5 73 6.5 74 4.0 75 1.0 76 0.5 77 0.5 78 0.5 79 0.5 80 0.5 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 0.0 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 0.0125 38-39 0.0375 40-41 0.0 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.08750000000000001 52-53 0.0625 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 24.0 71 18.0 72 10.0 73 11.0 74 16.0 75 14.0 76 5.0 77 9.0 78 18.0 79 18.0 80 16.0 81 16.0 82 24.0 83 19.0 84 14.0 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 3768.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 70.42500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 90.45083422080226 63.7 2 5.040823571175009 7.1 3 1.5619453319133831 3.3000000000000003 4 0.4969826056088037 1.4000000000000001 5 0.42598509052183176 1.5 6 0.4614838480653177 1.95 7 0.24849130280440185 1.225 8 0.0 0.0 9 0.10649627263045794 0.675 >10 1.1004614838480653 13.55 >50 0.10649627263045794 5.6000000000000005 >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 fail #Sequence Count Percentage Possible Source GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 81 2.025 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 77 1.925 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 66 1.6500000000000001 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 47 1.175 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 38 0.95 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 31 0.775 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 31 0.775 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 28 0.7000000000000001 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 24 0.6 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 21 0.525 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 21 0.525 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 18 0.44999999999999996 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 18 0.44999999999999996 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 17 0.42500000000000004 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 16 0.4 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 16 0.4 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 16 0.4 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 15 0.375 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 15 0.375 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 14 0.35000000000000003 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 13 0.325 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 13 0.325 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 13 0.325 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 11 0.27499999999999997 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 11 0.27499999999999997 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 11 0.27499999999999997 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 11 0.27499999999999997 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 11 0.27499999999999997 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 11 0.27499999999999997 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 11 0.27499999999999997 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 10 0.25 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 10 0.25 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 10 0.25 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 10 0.25 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 9 0.22499999999999998 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 9 0.22499999999999998 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 9 0.22499999999999998 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 7 0.17500000000000002 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 7 0.17500000000000002 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 7 0.17500000000000002 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 7 0.17500000000000002 No Hit GAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGC 7 0.17500000000000002 No Hit CGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATG 7 0.17500000000000002 No Hit GGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGAC 7 0.17500000000000002 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 6 0.15 No Hit GAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAGTTTTTCTTA 6 0.15 No Hit GGACATTTCTTCGAAAAAATTCGAATAGTGAGACGCATTAAAACGCAATT 6 0.15 No Hit GCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGA 6 0.15 No Hit GGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGT 6 0.15 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 6 0.15 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 6 0.15 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 6 0.15 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 6 0.15 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 6 0.15 No Hit CAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGAT 6 0.15 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 6 0.15 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTTTTTA 6 0.15 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 5 0.125 No Hit TAGTTTCCACCGCCTGTCCAGGGTTGAGCCCTGGGATTTGACGGCGGACT 5 0.125 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 5 0.125 No Hit GTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAG 5 0.125 No Hit AACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCG 5 0.125 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 5 0.125 No Hit GGGCTCGAGGAGCATATGTACATTTGAACCCTGACTACACATATACACACATATACATGTAATATTATAC 5 0.125 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 5 0.125 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 5 0.125 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 5 0.125 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 5 0.125 No Hit GAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCC 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 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0125 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 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.07500000000000001 0.0 0.0 0.0 0.0 42-43 0.1 0.0 0.0 0.0 0.0 44-45 0.1 0.0 0.0 0.0 0.0 46-47 0.1 0.0 0.0 0.0 0.0 48-49 0.1 0.0 0.0 0.0 0.0 50-51 0.1 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1 0.0 0.0 0.0 0.0 62-63 0.1 0.0 0.0 0.0 0.0 64-65 0.1 0.0 0.0 0.0 0.0 66-67 0.1 0.0 0.0 0.0 0.0 68-69 0.1 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.125 0.0 0.0 0.0 0.0 74-75 0.125 0.0 0.0 0.0 0.0 76-77 0.125 0.0 0.0 0.0 0.0 78-79 0.125 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGCACCC 20 0.0028844438 64.35 7 CTAGGCA 20 0.0028844438 64.35 4 CACCCAG 20 0.0028844438 64.35 9 AGGCACC 20 0.0028844438 64.35 6 GCACCCA 20 0.0028844438 64.35 8 TACCTAG 20 0.0028844438 64.35 1 ACCTAGG 20 0.0028844438 64.35 2 CCTAGGC 20 0.0028844438 64.35 3 TAGGCAC 20 0.0028844438 64.35 5 >>END_MODULE Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161575 READS because READLEN < 1 Read 161575 spots for ERR6133304.sra Written 161575 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra Rejected 161556 READS because READLEN < 1 Read 161556 spots for ERR6133304.sra Written 161556 spots for ERR6133304.sra SRR ids: ['ERR6133304.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_8drhy4ly ERR6133304.sra spots: 3231139 blocks: [[1, 161556], [161557, 323112], [323113, 484668], [484669, 646224], [646225, 807780], [807781, 969336], [969337, 1130892], [1130893, 1292448], [1292449, 1454004], [1454005, 1615560], [1615561, 1777116], [1777117, 1938672], [1938673, 2100228], [2100229, 2261784], [2261785, 2423340], [2423341, 2584896], [2584897, 2746452], [2746453, 2908008], [2908009, 3069564], [3069565, 3231139]] ERR6133304 file size 711315 ERR6133304 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 ERR6133304 ERR6133304_1.fastq Input file: ERR6133304_1.fastq trimmed: ERR6133304-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 00:16:24 2024 >> started Sat Dec 7 00:16:26 2024 >> done (1.886s) 3231139 reads processed; of these: 268 ( 0.01%) short reads filtered out after trimming by size control 37 ( 0.00%) empty reads filtered out after trimming by size control 3230834 (99.99%) reads available; of these: 51724 ( 1.60%) trimmed reads available after processing 3179110 (98.40%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 49 0.00% 19 101 0.00% 20 71 0.00% 21 78 0.00% 22 71 0.00% 23 23 0.00% 24 25 0.00% 25 12 0.00% 26 10 0.00% 27 29 0.00% 28 45 0.00% 29 64 0.00% 30 50 0.00% 31 68 0.00% 32 41 0.00% 33 31 0.00% 34 39 0.00% 35 226 0.01% 36 693 0.02% 37 55 0.00% 38 74 0.00% 39 315 0.01% 40 134 0.00% 41 82 0.00% 42 18 0.00% 43 20 0.00% 44 20 0.00% 45 15 0.00% 46 14 0.00% 47 19 0.00% 48 13 0.00% 49 16 0.00% 50 19 0.00% 51 45 0.00% 52 19 0.00% 53 12 0.00% 54 10 0.00% 55 14 0.00% 56 13 0.00% 57 30 0.00% 58 29 0.00% 59 9 0.00% 60 27 0.00% 61 26 0.00% 62 3 0.00% 63 1 0.00% 64 1 0.00% 65 3 0.00% 66 7 0.00% 67 15 0.00% 68 31 0.00% 69 148 0.00% 70 13149 0.41% 71 11660 0.36% 72 13917 0.43% 73 10987 0.34% 74 11774 0.36% 75 12498 0.39% 76 10099 0.31% 77 10147 0.31% 78 12194 0.38% 79 13756 0.43% 80 12580 0.39% 81 14760 0.46% 82 16777 0.52% 83 15914 0.49% 84 14416 0.45% 85 143 0.00% 86 242 0.01% 87 383 0.01% 88 722 0.02% 89 1476 0.05% 90 2858 0.09% 91 8778 0.27% 92 32016 0.99% 93 2986605 92.44% 3230834 reads passed initial QC criterion=sequence-density sequence-density=0.72 sequence-density-rank=1 fanout-score=2.29 fanout-score-rank=25 prefix-density=0.80 prefix-fanout=2.0 sequence=TGTACATTTGAACCCTGACTACACATATACACACATATACATGTAATATTATACAATCTGTCGAGTATGTGTTGGTTCATACT criterion=fanout-score sequence-density=0.03 sequence-density-rank=16 fanout-score=74.88 fanout-score-rank=1 prefix-density=0.25 prefix-fanout=8.9 sequence=AAAAAAAGATTTTGAATCTGCCTTTTCCTTTTTTCCTTAGAAAAATAACTCAATCAAAATCCAATTATTTACTCTACAAGAACGAAATGCTTGTTATGCCTAATATACTTAGTTTAACCTGTATCTGTTTTAATTGTGTTCTTTATCCGACTAGTTTTTTCTTTGCTAAACTACCCGAAGCTTATGCTATTTTCAACCCAATCGTGGATTTTATGCCTGTCATACCTCTATTCTTTTTTCTATTAGCCTTTGTTTGGCAAGCTGCTGTAAGTTTTCGATGAAATCTTTACTACTCCGTCTGCCAAATTGAATGGTCTATTCATTCCAAAACC Started job on | Dec 07 00:16:43 Started mapping on | Dec 07 00:16:45 Finished on | Dec 07 00:16:50 Mapping speed, Million of reads per hour | 2326.20 Number of input reads | 3230834 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 1799342 Uniquely mapped reads % | 55.69% Average mapped length | 91.31 Number of splices: Total | 49049 Number of splices: Annotated (sjdb) | 38292 Number of splices: GT/AG | 45370 Number of splices: GC/AG | 1387 Number of splices: AT/AC | 88 Number of splices: Non-canonical | 2204 Mismatch rate per base, % | 0.51% Deletion rate per base | 0.06% Deletion average length | 1.89 Insertion rate per base | 0.03% Insertion average length | 1.73 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1292100 % of reads mapped to multiple loci | 39.99% Number of reads mapped to too many loci | 84242 % of reads mapped to too many loci | 2.61% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.53% % of reads unmapped: other | 0.18% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 139392 139392 139392 N_multimapping 1292100 1292100 1292100 N_noFeature 193388 210690 1721636 N_ambiguous 70306 9644 537 UnstrandedReadsAssigned:1535648 PositiveStrandReadsAssigned:1579008 NegativeStrandReadsAssigned:77169 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133304 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: ERR6133304-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,230,834 reads, 2,492,115 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 983 rounds 52973 ERR6133304.ke.tsv 35125 ERR6133304.se.tsv 88098 total ==> ERR6133304.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 47 18.5154 PNS24243 293 194 0 0 KQK14069 1603 1504 31 11.1404 KQK14071 474 375 0 0 ==> ERR6133304.se.tsv <== BRADI_1g14170v3 31 BRADI_1g53295v3 20 BRADI_1g59795v3 14 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 21 BRADI_1g74790v3 16 BRADI_1g09890v3 0 BRADI_1g77505v3 48 BRADI_1g48960v3 0 ERR6133304 completed mapping pipeline successfully