Starting /dee2/code/volunteer_pipeline.sh ERR6133554 current disk space = 1544465158144 free memory = 1600952076 ERR6133554 SRAfilesize f554808c6955f9bbb6be5add01dc90e0 ERR6133554.sra ERR6133554.sra file validated ERR6133554 is single end ERR6133554 is conventional basespace ERR6133554 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133554_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 33.99225 37.0 33.0 37.0 33.0 37.0 2 36.055 37.0 37.0 37.0 33.0 37.0 3 35.123 37.0 33.0 37.0 33.0 37.0 4 35.2755 37.0 37.0 37.0 33.0 37.0 5 35.24825 37.0 37.0 37.0 33.0 37.0 6 35.586 37.0 37.0 37.0 33.0 37.0 7 37.35325 37.0 37.0 40.0 33.0 40.0 8 37.406 37.0 37.0 40.0 33.0 40.0 9 37.426 37.0 37.0 40.0 33.0 40.0 10-11 37.43725 37.0 37.0 40.0 33.0 40.0 12-13 37.3515 37.0 37.0 40.0 33.0 40.0 14-15 37.371125 37.0 37.0 40.0 33.0 40.0 16-17 37.310125 37.0 37.0 40.0 33.0 40.0 18-19 37.241749999999996 37.0 37.0 40.0 33.0 40.0 20-21 37.126999999999995 37.0 37.0 40.0 33.0 40.0 22-23 37.0245 37.0 37.0 40.0 33.0 40.0 24-25 37.095625 37.0 37.0 40.0 33.0 40.0 26-27 37.111125 37.0 37.0 40.0 33.0 40.0 28-29 37.0945 37.0 37.0 40.0 33.0 40.0 30-31 36.949749999999995 37.0 37.0 40.0 33.0 40.0 32-33 36.808875 37.0 37.0 40.0 33.0 40.0 34-35 36.64525 37.0 37.0 40.0 33.0 40.0 36-37 36.544 37.0 37.0 40.0 33.0 40.0 38-39 36.473625 37.0 37.0 40.0 33.0 40.0 40-41 36.160250000000005 37.0 37.0 40.0 33.0 40.0 42-43 36.133625 37.0 37.0 40.0 33.0 40.0 44-45 35.754 37.0 35.0 38.5 33.0 40.0 46-47 35.487125 37.0 33.0 37.0 33.0 40.0 48-49 35.570375 37.0 33.0 37.0 33.0 40.0 50-51 35.521 37.0 33.0 37.0 33.0 40.0 52-53 35.109750000000005 37.0 33.0 37.0 30.0 40.0 54-55 35.129625000000004 37.0 33.0 37.0 33.0 40.0 56-57 34.9815 37.0 33.0 37.0 33.0 37.0 58-59 34.3395 37.0 33.0 37.0 27.0 37.0 60-61 34.541125 37.0 33.0 37.0 30.0 37.0 62-63 34.491749999999996 37.0 33.0 37.0 27.0 37.0 64-65 34.467875 37.0 33.0 37.0 27.0 37.0 66-67 34.5175 37.0 33.0 37.0 30.0 37.0 68-69 33.656125 35.0 33.0 37.0 27.0 37.0 70-71 33.82482056098172 35.0 33.0 37.0 27.0 37.0 72-73 34.15675391461714 37.0 33.0 37.0 27.0 37.0 74-75 34.166831369787175 37.0 33.0 37.0 27.0 37.0 76-77 34.068383723143484 37.0 33.0 37.0 27.0 37.0 78-79 34.120989612104864 37.0 33.0 37.0 27.0 37.0 80-81 34.05564332933634 37.0 33.0 37.0 27.0 37.0 82-83 34.0099489747192 37.0 33.0 37.0 27.0 37.0 84-85 33.9906809126896 37.0 33.0 37.0 27.0 37.0 86-87 33.847387480600105 37.0 33.0 37.0 27.0 37.0 88-89 33.91386445938954 37.0 33.0 37.0 27.0 37.0 90-91 33.78220382824625 37.0 33.0 37.0 27.0 37.0 92-93 33.74392136575271 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 10.0 21 12.0 22 20.0 23 23.0 24 24.0 25 30.0 26 41.0 27 50.0 28 61.0 29 50.0 30 81.0 31 99.0 32 140.0 33 145.0 34 245.0 35 441.0 36 967.0 37 916.0 38 636.0 39 9.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 89.7 2.175 2.7 5.425 2 73.825 15.475 6.575 4.125 3 39.6 36.575 12.8 11.025 4 32.95 30.3 18.3 18.45 5 27.3 29.65 24.425 18.625 6 20.65 39.5 24.224999999999998 15.625 7 38.75 29.075 18.65 13.525 8 31.225 31.15 20.424999999999997 17.2 9 26.700000000000003 30.95 25.525 16.825000000000003 10-11 25.95 28.625 27.450000000000003 17.974999999999998 12-13 28.349999999999998 26.8125 26.5875 18.25 14-15 21.975 31.612499999999997 28.475 17.9375 16-17 25.4625 31.900000000000002 23.400000000000002 19.2375 18-19 24.5125 27.5125 28.075 19.900000000000002 20-21 26.156539134783696 25.568892223055762 28.582145536384097 19.692423105776445 22-23 28.037499999999998 23.2875 28.525 20.150000000000002 24-25 25.474999999999998 25.55 28.3875 20.5875 26-27 26.75 24.9 28.537499999999998 19.8125 28-29 25.224999999999998 26.8 28.1875 19.787499999999998 30-31 29.4375 24.6875 26.987499999999997 18.8875 32-33 25.137500000000003 26.25 27.5125 21.099999999999998 34-35 24.198798197295943 28.55533299949925 26.489734601902853 20.756134201301954 36-37 25.7875 24.4875 27.3875 22.3375 38-39 28.6625 25.1875 27.5125 18.637500000000003 40-41 26.245306633291616 24.192740926157697 29.173967459324157 20.387984981226534 42-43 26.086412022542266 27.764558547276142 26.46211646837821 19.686912961803383 44-45 25.319148936170212 24.28035043804756 29.336670838548184 21.06382978723404 46-47 24.962500000000002 24.1875 27.962500000000002 22.8875 48-49 25.240655081885237 24.290536317039628 28.62857857232154 21.840230028753595 50-51 24.224999999999998 27.1 28.012500000000003 20.6625 52-53 25.05005005005005 25.350350350350347 26.976976976976978 22.62262262262262 54-55 23.575 26.974999999999998 29.425 20.025000000000002 56-57 26.474999999999998 25.724999999999998 28.287499999999998 19.5125 58-59 23.400000000000002 25.75 29.212500000000002 21.637500000000003 60-61 27.1625 24.6125 27.987499999999997 20.2375 62-63 22.175 26.9125 31.6 19.3125 64-65 23.0125 29.175 29.275000000000002 18.5375 66-67 25.15 28.512500000000003 27.650000000000002 18.6875 68-69 22.2625 26.137500000000003 28.712500000000002 22.8875 70-71 23.595646190416613 27.14875516076567 27.586638308519955 21.66896034029776 72-73 26.714393368500378 25.169555388093446 28.560663149962323 19.55538809344386 74-75 24.943253467843633 26.986128625472887 28.70113493064313 19.369482976040352 76-77 22.381253958201395 26.092463584547183 28.549715009499682 22.97656744775174 78-79 24.86651411136537 25.36231884057971 30.01525553012967 19.75591151792525 80-81 23.54517611026034 30.321592649310876 27.85860132720776 18.27462991322103 82-83 24.89413576286411 25.80520980366996 28.307455408700115 20.993199024765815 84-85 23.08884297520661 25.24535123966942 31.5599173553719 20.105888429752067 86-87 22.167615106052768 27.0434557682359 30.819968960165546 19.968960165545784 88-89 20.951888256595964 28.142783238489393 30.72943610967408 20.17589239524056 90-91 26.060527677185725 27.185721676151058 28.918779099844798 17.83497154681842 92-93 22.529746508018626 27.74185204345577 28.905845835488876 20.82255561303673 >>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 8.0 18 10.5 19 3.5 20 1.0 21 0.5 22 1.5 23 4.0 24 4.5 25 4.0 26 7.0 27 12.5 28 21.5 29 25.5 30 26.5 31 37.0 32 46.5 33 59.5 34 73.0 35 75.0 36 86.5 37 116.5 38 161.0 39 175.0 40 178.5 41 189.0 42 199.5 43 213.5 44 203.0 45 200.5 46 213.5 47 194.0 48 173.0 49 174.0 50 172.0 51 166.5 52 144.0 53 125.0 54 167.0 55 141.5 56 66.0 57 62.0 58 54.5 59 45.5 60 41.0 61 34.0 62 26.5 63 26.0 64 29.0 65 25.5 66 19.0 67 17.0 68 17.5 69 17.0 70 10.0 71 3.0 72 3.0 73 3.0 74 2.5 75 1.5 76 1.0 77 1.0 78 0.5 79 0.0 80 0.0 81 0.5 82 0.5 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 0.025 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 0.15 36-37 0.0 38-39 0.0 40-41 0.125 42-43 0.1875 44-45 0.125 46-47 0.0 48-49 0.0125 50-51 0.0 52-53 0.1 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 7.0 71 10.0 72 4.0 73 11.0 74 6.0 75 8.0 76 13.0 77 6.0 78 4.0 79 8.0 80 10.0 81 10.0 82 13.0 83 12.0 84 12.0 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 3866.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 80.65 #Duplication Level Percentage of deduplicated Percentage of total 1 93.0564166150031 75.05 2 4.153750774953503 6.7 3 0.9919404835709857 2.4 4 0.4649721016738996 1.5 5 0.3409795412275264 1.375 6 0.24798512089274644 1.2 7 0.12399256044637322 0.7000000000000001 8 0.06199628022318661 0.4 9 0.030998140111593304 0.22499999999999998 >10 0.49597024178549287 7.2749999999999995 >50 0.0 0.0 >100 0.030998140111593304 3.175 >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 127 3.175 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 32 0.8 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 27 0.675 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 27 0.675 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 26 0.65 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 24 0.6 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 18 0.44999999999999996 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 18 0.44999999999999996 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 15 0.375 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 15 0.375 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 14 0.35000000000000003 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 14 0.35000000000000003 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 13 0.325 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 13 0.325 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 13 0.325 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 12 0.3 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 10 0.25 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 9 0.22499999999999998 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 8 0.2 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 8 0.2 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 7 0.17500000000000002 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 7 0.17500000000000002 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 6 0.15 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 6 0.15 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 6 0.15 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 6 0.15 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 6 0.15 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 6 0.15 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 6 0.15 No Hit GGGATGGAGATGGCCGCGGAGAACGGCGGCTGCGGCTGCAGCACCTGCAA 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 5 0.125 No Hit GGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGATC 5 0.125 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 5 0.125 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 5 0.125 No Hit GGAGAGGGTGAGCATATATATTTATACGACGAATAAAAGGCTGCCACGTG 5 0.125 No Hit GGAGTAAACTAGCATAAATAATTTGTTTGATGCCAGTCATCAAGGTTGAG 5 0.125 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 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 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 0.0 0.0 0.0 0.0 74-75 0.0 0.0 0.0 0.0 0.0 76-77 0.0125 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGAGTGG 15 8.9665275E-4 86.375 1 GGAGTTG 20 0.0028090624 64.78125 1 >>END_MODULE Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282902 READS because READLEN < 1 Read 282902 spots for ERR6133554.sra Written 282902 spots for ERR6133554.sra Rejected 282910 READS because READLEN < 1 Read 282910 spots for ERR6133554.sra Written 282910 spots for ERR6133554.sra SRR ids: ['ERR6133554.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_k5c8km49 ERR6133554.sra spots: 5658048 blocks: [[1, 282902], [282903, 565804], [565805, 848706], [848707, 1131608], [1131609, 1414510], [1414511, 1697412], [1697413, 1980314], [1980315, 2263216], [2263217, 2546118], [2546119, 2829020], [2829021, 3111922], [3111923, 3394824], [3394825, 3677726], [3677727, 3960628], [3960629, 4243530], [4243531, 4526432], [4526433, 4809334], [4809335, 5092236], [5092237, 5375138], [5375139, 5658048]] ERR6133554 file size 1251323 ERR6133554 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 ERR6133554 ERR6133554_1.fastq Input file: ERR6133554_1.fastq trimmed: ERR6133554-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 08:31:14 2024 >> started Sat Dec 7 08:31:17 2024 >> done (2.931s) 5658048 reads processed; of these: 235 ( 0.00%) short reads filtered out after trimming by size control 37 ( 0.00%) empty reads filtered out after trimming by size control 5657776 (100.00%) reads available; of these: 97417 ( 1.72%) trimmed reads available after processing 5560359 (98.28%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 41 0.00% 19 73 0.00% 20 28 0.00% 21 28 0.00% 22 33 0.00% 23 12 0.00% 24 6 0.00% 25 4 0.00% 26 10 0.00% 27 7 0.00% 28 16 0.00% 29 19 0.00% 30 11 0.00% 31 25 0.00% 32 24 0.00% 33 17 0.00% 34 22 0.00% 35 110 0.00% 36 584 0.01% 37 23 0.00% 38 38 0.00% 39 120 0.00% 40 102 0.00% 41 32 0.00% 42 12 0.00% 43 16 0.00% 44 13 0.00% 45 10 0.00% 46 11 0.00% 47 11 0.00% 48 9 0.00% 49 10 0.00% 50 18 0.00% 51 54 0.00% 52 12 0.00% 53 14 0.00% 54 9 0.00% 55 8 0.00% 56 8 0.00% 57 17 0.00% 58 12 0.00% 59 8 0.00% 60 24 0.00% 61 13 0.00% 62 6 0.00% 63 7 0.00% 64 6 0.00% 65 8 0.00% 66 11 0.00% 67 20 0.00% 68 45 0.00% 69 142 0.00% 70 12521 0.22% 71 12257 0.22% 72 13108 0.23% 73 12346 0.22% 74 12555 0.22% 75 12439 0.22% 76 11291 0.20% 77 12085 0.21% 78 13408 0.24% 79 14896 0.26% 80 13830 0.24% 81 16524 0.29% 82 17945 0.32% 83 17573 0.31% 84 15890 0.28% 85 225 0.00% 86 378 0.01% 87 699 0.01% 88 1243 0.02% 89 2423 0.04% 90 5278 0.09% 91 15969 0.28% 92 66541 1.18% 93 5354433 94.64% 5657776 reads passed initial QC criterion=sequence-density sequence-density=0.70 sequence-density-rank=1 fanout-score=2.04 fanout-score-rank=27 prefix-density=0.71 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.02 sequence-density-rank=23 fanout-score=238.07 fanout-score-rank=1 prefix-density=0.64 prefix-fanout=9.0 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAA Started job on | Dec 07 08:31:49 Started mapping on | Dec 07 08:31:53 Finished on | Dec 07 08:32:01 Mapping speed, Million of reads per hour | 2546.00 Number of input reads | 5657776 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 4037149 Uniquely mapped reads % | 71.36% Average mapped length | 92.01 Number of splices: Total | 187774 Number of splices: Annotated (sjdb) | 156984 Number of splices: GT/AG | 180829 Number of splices: GC/AG | 3924 Number of splices: AT/AC | 118 Number of splices: Non-canonical | 2903 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.04% Deletion average length | 1.81 Insertion rate per base | 0.02% Insertion average length | 1.95 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1465784 % of reads mapped to multiple loci | 25.91% Number of reads mapped to too many loci | 78887 % of reads mapped to too many loci | 1.39% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.25% % of reads unmapped: other | 0.09% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 154843 154843 154843 N_multimapping 1465784 1465784 1465784 N_noFeature 269831 308157 3865758 N_ambiguous 154346 21181 533 UnstrandedReadsAssigned:3612972 PositiveStrandReadsAssigned:3707811 NegativeStrandReadsAssigned:170858 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133554 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: ERR6133554-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,657,776 reads, 4,595,698 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,105 rounds 52973 ERR6133554.ke.tsv 35125 ERR6133554.se.tsv 88098 total ==> ERR6133554.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 159 33.165 PNS24243 293 194 0 0 KQK14069 1603 1504 44 8.37223 KQK14071 474 375 0 0 ==> ERR6133554.se.tsv <== BRADI_1g14170v3 44 BRADI_1g53295v3 66 BRADI_1g59795v3 57 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 67 BRADI_1g74790v3 33 BRADI_1g09890v3 0 BRADI_1g77505v3 134 BRADI_1g48960v3 0 ERR6133554 completed mapping pipeline successfully