Starting /dee2/code/volunteer_pipeline.sh ERR6133465 current disk space = 1545140682752 free memory = 1600623560 ERR6133465 SRAfilesize 7ed8690fd4d3c526bf4d4b09ed3b5aeb ERR6133465.sra ERR6133465.sra file validated ERR6133465 is single end ERR6133465 is conventional basespace ERR6133465 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133465_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 35.14075 37.0 33.0 37.0 33.0 37.0 2 36.2445 37.0 37.0 37.0 33.0 37.0 3 35.3635 37.0 33.0 37.0 33.0 37.0 4 34.939 37.0 37.0 37.0 33.0 37.0 5 34.8095 37.0 33.0 37.0 27.0 37.0 6 35.26625 37.0 37.0 37.0 33.0 37.0 7 36.70525 37.0 37.0 40.0 33.0 40.0 8 36.80725 37.0 37.0 40.0 33.0 40.0 9 37.012 37.0 37.0 40.0 33.0 40.0 10-11 36.978875 37.0 37.0 40.0 33.0 40.0 12-13 36.90275 37.0 37.0 40.0 33.0 40.0 14-15 36.88375 37.0 37.0 40.0 33.0 40.0 16-17 36.834625 37.0 37.0 40.0 33.0 40.0 18-19 36.481875 37.0 37.0 40.0 33.0 40.0 20-21 36.3775 37.0 37.0 40.0 33.0 40.0 22-23 35.935125 37.0 35.0 40.0 33.0 40.0 24-25 36.02675 37.0 35.0 40.0 33.0 40.0 26-27 36.239625000000004 37.0 37.0 40.0 33.0 40.0 28-29 36.361625000000004 37.0 37.0 40.0 33.0 40.0 30-31 36.532875000000004 37.0 37.0 40.0 33.0 40.0 32-33 36.38125 37.0 37.0 40.0 33.0 40.0 34-35 36.334125 37.0 37.0 40.0 33.0 40.0 36-37 36.28575 37.0 37.0 40.0 33.0 40.0 38-39 36.198625 37.0 37.0 40.0 33.0 40.0 40-41 36.102999999999994 37.0 37.0 40.0 33.0 40.0 42-43 36.0475 37.0 35.0 40.0 33.0 40.0 44-45 35.756 37.0 35.0 40.0 33.0 40.0 46-47 35.735125 37.0 33.0 37.0 33.0 40.0 48-49 35.693 37.0 33.0 37.0 33.0 40.0 50-51 35.54175 37.0 33.0 37.0 33.0 40.0 52-53 35.29075 37.0 33.0 37.0 33.0 40.0 54-55 35.146625 37.0 33.0 37.0 33.0 40.0 56-57 35.088875 37.0 33.0 37.0 33.0 40.0 58-59 34.44975 37.0 33.0 37.0 27.0 37.0 60-61 34.712 37.0 33.0 37.0 30.0 37.0 62-63 34.646125 37.0 33.0 37.0 33.0 37.0 64-65 34.33975 37.0 33.0 37.0 27.0 37.0 66-67 34.18125 37.0 33.0 37.0 27.0 37.0 68-69 33.545125 35.0 33.0 37.0 27.0 37.0 70-71 33.72510264483627 35.0 33.0 37.0 27.0 37.0 72-73 34.12020677747621 37.0 33.0 37.0 27.0 37.0 74-75 34.10249113309847 37.0 33.0 37.0 27.0 37.0 76-77 34.06665176419635 37.0 33.0 37.0 27.0 37.0 78-79 34.00262723535981 37.0 33.0 37.0 27.0 37.0 80-81 33.91899252899197 37.0 33.0 37.0 27.0 37.0 82-83 33.72437949275347 37.0 33.0 37.0 27.0 37.0 84-85 33.5898306580289 37.0 33.0 37.0 27.0 37.0 86-87 33.51315075921909 35.0 33.0 37.0 27.0 37.0 88-89 33.5679229934924 37.0 33.0 37.0 27.0 37.0 90-91 33.194007592190886 35.0 33.0 37.0 27.0 37.0 92-93 33.4308568329718 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 10.0 21 8.0 22 15.0 23 26.0 24 34.0 25 37.0 26 32.0 27 51.0 28 55.0 29 65.0 30 94.0 31 124.0 32 177.0 33 196.0 34 296.0 35 502.0 36 827.0 37 897.0 38 536.0 39 18.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 87.925 2.5250000000000004 2.725 6.825 2 70.22500000000001 17.625 7.124999999999999 5.025 3 35.6 39.425 15.024999999999999 9.950000000000001 4 33.15 28.999999999999996 20.1 17.75 5 25.825 29.799999999999997 25.674999999999997 18.7 6 19.875 37.0 27.35 15.775 7 35.9 27.950000000000003 20.875 15.275 8 31.775 32.625 21.95 13.65 9 25.75 27.875 29.65 16.725 10-11 25.825 28.549999999999997 28.6125 17.0125 12-13 28.3625 26.0 29.75 15.8875 14-15 20.849999999999998 29.1375 31.1875 18.825 16-17 23.0375 32.4375 27.35 17.175 18-19 23.674999999999997 27.175 29.037499999999998 20.1125 20-21 24.168126094570926 26.682511883912934 28.834125594195648 20.31523642732049 22-23 25.724999999999998 24.474999999999998 28.3875 21.4125 24-25 24.575 26.224999999999998 28.95 20.25 26-27 24.175 25.837500000000002 31.362499999999997 18.625 28-29 23.7625 27.025 29.1125 20.1 30-31 24.125 26.275 29.612500000000004 19.9875 32-33 22.112499999999997 27.075 30.337500000000002 20.474999999999998 34-35 23.6375 27.1 29.275000000000002 19.9875 36-37 23.8625 26.137500000000003 28.65 21.349999999999998 38-39 24.8062015503876 26.231557889472366 30.057514378594647 18.904726181545385 40-41 24.706176544136035 25.28132033008252 29.544886221555387 20.46761690422606 42-43 23.04707060590886 28.367551326990487 29.56935403104657 19.01602403605408 44-45 22.536268134067033 26.263131565782892 31.45322661330665 19.74737368684342 46-47 23.625 25.374999999999996 30.337500000000002 20.6625 48-49 23.2125 26.4125 30.362499999999997 20.0125 50-51 23.1625 26.525 30.599999999999998 19.7125 52-53 23.40345604808415 27.560731279739542 29.564237415477084 19.47157525669922 54-55 23.827978497312163 27.528441055131893 30.366295786973375 18.277284660582573 56-57 23.5875 26.400000000000002 30.65 19.3625 58-59 23.6375 26.25 30.5 19.6125 60-61 23.05 26.8375 31.412499999999998 18.7 62-63 21.5375 28.6375 31.637500000000003 18.1875 64-65 23.2125 27.425 30.475 18.8875 66-67 22.5 27.325 31.574999999999996 18.6 68-69 21.677709713714215 27.740967620952617 30.441305163145394 20.140017502187774 70-71 22.2961104140527 26.23588456712673 31.279799247176914 20.188205771643663 72-73 23.932057294967677 26.6446951451388 30.73900367600456 18.68424388388896 74-75 22.769742736464867 26.839882247536156 30.449251247920134 19.941123768078842 76-77 23.071962857879804 26.786174877482587 30.758318287335566 19.383543977302036 78-79 22.36842105263158 26.341844710786866 30.966649296508596 20.323084940072956 80-81 22.05649419218585 27.705913410770854 30.913410770855332 19.32418162618796 82-83 22.326078248097208 27.226599011884094 30.644945920683668 19.802376819335024 84-85 22.76169867460103 24.8985664051934 32.472274817419525 19.86746010278604 86-87 21.990238611713668 26.098156182212584 32.9175704989154 18.994034707158352 88-89 20.17353579175705 28.71475054229935 32.72776572668113 18.383947939262473 90-91 22.857917570498916 27.426789587852497 31.521149674620393 18.194143167028198 92-93 20.119305856832973 28.97234273318872 31.819414316702822 19.088937093275486 >>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 5.0 18 6.5 19 1.5 20 0.0 21 2.0 22 4.5 23 7.0 24 9.5 25 9.0 26 14.0 27 19.5 28 33.0 29 45.0 30 50.5 31 61.0 32 71.0 33 96.0 34 121.5 35 133.0 36 148.5 37 196.0 38 230.0 39 214.5 40 202.0 41 204.0 42 218.0 43 228.5 44 198.0 45 177.0 46 182.0 47 179.0 48 171.5 49 152.5 50 137.5 51 129.0 52 95.5 53 84.5 54 92.5 55 72.5 56 51.5 57 41.5 58 41.0 59 32.0 60 28.0 61 28.5 62 24.0 63 23.0 64 22.0 65 22.0 66 18.5 67 10.5 68 9.0 69 9.0 70 4.0 71 2.0 72 1.0 73 1.0 74 2.0 75 1.5 76 0.5 77 0.0 78 0.0 79 0.0 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 0.075 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 0.025 40-41 0.025 42-43 0.15 44-45 0.05 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.17500000000000002 54-55 0.0125 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 0.0125 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 14.0 72 23.0 73 19.0 74 15.0 75 14.0 76 16.0 77 20.0 78 22.0 79 27.0 80 24.0 81 22.0 82 19.0 83 29.0 84 18.0 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 3688.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 83.89999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 92.78903456495829 77.85 2 4.112038140643624 6.9 3 1.1620977353992847 2.9250000000000003 4 0.4171632896305125 1.4000000000000001 5 0.5959475566150179 2.5 6 0.20858164481525626 1.05 7 0.08939213349225268 0.525 8 0.05959475566150178 0.4 9 0.05959475566150178 0.44999999999999996 >10 0.5065554231227652 6.0 >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 GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 27 0.675 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 24 0.6 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 19 0.475 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 16 0.4 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 15 0.375 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 14 0.35000000000000003 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 14 0.35000000000000003 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 13 0.325 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 13 0.325 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 12 0.3 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 11 0.27499999999999997 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 11 0.27499999999999997 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 11 0.27499999999999997 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 10 0.25 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 10 0.25 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 10 0.25 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 9 0.22499999999999998 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 9 0.22499999999999998 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 8 0.2 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 8 0.2 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 7 0.17500000000000002 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 7 0.17500000000000002 No Hit GAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTAA 7 0.17500000000000002 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 6 0.15 No Hit GGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAG 6 0.15 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 6 0.15 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 6 0.15 No Hit GGCATTGATGAGCTTGAGAGGGCACTGTAGCCAGTGTGTCAGTCGTTGTT 6 0.15 No Hit GGAGTGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTAAT 6 0.15 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 6 0.15 No Hit GGATCGGTCGATCATCGGAGAAGAACACTTCCTCCGTGCATATGCGTGTA 5 0.125 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 5 0.125 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 5 0.125 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 5 0.125 No Hit GGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAA 5 0.125 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 5 0.125 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 5 0.125 No Hit GGAAGAGTCCTCTTAATATTTATCTAATCTTATATAGGTTTCAGTATATT 5 0.125 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 5 0.125 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 5 0.125 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 5 0.125 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 5 0.125 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 5 0.125 No Hit GGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTA 5 0.125 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 5 0.125 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 5 0.125 No Hit GGAACAATTATTATATATTTCAAGTTATTTCGGATCTTTCTTAATCTTCA 5 0.125 No Hit GGAAAAAGTGCTAACAAATTCTTGTCTTATCTGCATTAGACAAAATGAAG 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 0.025 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 0.037500000000000006 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.0625 0.0 0.0 0.0 0.0 38-39 0.075 0.0 0.0 0.0 0.0 40-41 0.075 0.0 0.0 0.0 0.0 42-43 0.075 0.0 0.0 0.0 0.0 44-45 0.075 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.075 0.0 0.0 0.0 0.0 58-59 0.075 0.0 0.0 0.0 0.0 60-61 0.075 0.0 0.0 0.0 0.0 62-63 0.075 0.0 0.0 0.0 0.0 64-65 0.075 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.075 0.0 0.0 0.0 0.0 72-73 0.0875 0.0125 0.0 0.0 0.0 74-75 0.1 0.025 0.0 0.0 0.0 76-77 0.1 0.025 0.0 0.0 0.0 78-79 0.1 0.025 0.0 0.0 0.0 80-81 0.1 0.025 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GAGGAAG 15 9.1598724E-4 85.912506 1 >>END_MODULE Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163889 READS because READLEN < 1 Read 163889 spots for ERR6133465.sra Written 163889 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra Rejected 163885 READS because READLEN < 1 Read 163885 spots for ERR6133465.sra Written 163885 spots for ERR6133465.sra SRR ids: ['ERR6133465.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_orsnyis7 ERR6133465.sra spots: 3277704 blocks: [[1, 163885], [163886, 327770], [327771, 491655], [491656, 655540], [655541, 819425], [819426, 983310], [983311, 1147195], [1147196, 1311080], [1311081, 1474965], [1474966, 1638850], [1638851, 1802735], [1802736, 1966620], [1966621, 2130505], [2130506, 2294390], [2294391, 2458275], [2458276, 2622160], [2622161, 2786045], [2786046, 2949930], [2949931, 3113815], [3113816, 3277704]] ERR6133465 file size 719038 ERR6133465 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 ERR6133465 ERR6133465_1.fastq Input file: ERR6133465_1.fastq trimmed: ERR6133465-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 06:36:18 2024 >> started Sat Dec 7 06:36:19 2024 >> done (1.630s) 3277704 reads processed; of these: 189 ( 0.01%) short reads filtered out after trimming by size control 19 ( 0.00%) empty reads filtered out after trimming by size control 3277496 (99.99%) reads available; of these: 44584 ( 1.36%) trimmed reads available after processing 3232912 (98.64%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 21 0.00% 19 96 0.00% 20 23 0.00% 21 31 0.00% 22 32 0.00% 23 14 0.00% 24 8 0.00% 25 2 0.00% 26 13 0.00% 27 15 0.00% 28 22 0.00% 29 23 0.00% 30 22 0.00% 31 29 0.00% 32 29 0.00% 33 23 0.00% 34 30 0.00% 35 129 0.00% 36 445 0.01% 37 26 0.00% 38 61 0.00% 39 122 0.00% 40 162 0.00% 41 58 0.00% 42 13 0.00% 43 15 0.00% 44 16 0.00% 45 13 0.00% 46 15 0.00% 47 6 0.00% 48 12 0.00% 49 7 0.00% 50 18 0.00% 51 64 0.00% 52 13 0.00% 53 10 0.00% 54 5 0.00% 55 12 0.00% 56 9 0.00% 57 10 0.00% 58 23 0.00% 59 10 0.00% 60 29 0.00% 61 12 0.00% 62 11 0.00% 63 5 0.00% 64 2 0.00% 65 9 0.00% 66 14 0.00% 67 31 0.00% 68 52 0.00% 69 207 0.01% 70 20190 0.62% 71 18208 0.56% 72 18927 0.58% 73 17341 0.53% 74 17971 0.55% 75 17639 0.54% 76 16101 0.49% 77 16102 0.49% 78 18007 0.55% 79 19792 0.60% 80 17969 0.55% 81 18761 0.57% 82 20354 0.62% 83 21008 0.64% 84 17432 0.53% 85 92 0.00% 86 159 0.00% 87 294 0.01% 88 487 0.01% 89 1016 0.03% 90 2255 0.07% 91 7030 0.21% 92 28458 0.87% 93 2959824 90.31% 3277496 reads passed initial QC criterion=sequence-density sequence-density=0.44 sequence-density-rank=1 fanout-score=1.93 fanout-score-rank=34 prefix-density=0.44 prefix-fanout=1.9 sequence=GACCGATAGCGAA criterion=fanout-score sequence-density=0.06 sequence-density-rank=14 fanout-score=81.73 fanout-score-rank=1 prefix-density=0.26 prefix-fanout=18.3 sequence=TTTTTTTTTTAAGAATCCTCCATTTTTGTTCTTCCACCCATGCAATAGAGAGCAAATGGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAGTCATGGAATAATGGTGAATTCAAATGTTTAGTTCTTTAGTATAAGAAGTATAAGAA Started job on | Dec 07 06:37:07 Started mapping on | Dec 07 06:37:07 Finished on | Dec 07 06:37:12 Mapping speed, Million of reads per hour | 2359.80 Number of input reads | 3277496 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2487399 Uniquely mapped reads % | 75.89% Average mapped length | 91.09 Number of splices: Total | 79495 Number of splices: Annotated (sjdb) | 66716 Number of splices: GT/AG | 76532 Number of splices: GC/AG | 1666 Number of splices: AT/AC | 44 Number of splices: Non-canonical | 1253 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.04% Deletion average length | 1.81 Insertion rate per base | 0.02% Insertion average length | 1.74 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 716336 % of reads mapped to multiple loci | 21.86% Number of reads mapped to too many loci | 26064 % of reads mapped to too many loci | 0.80% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.39% % of reads unmapped: other | 0.06% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 73761 73761 73761 N_multimapping 716336 716336 716336 N_noFeature 199580 223104 2379196 N_ambiguous 95257 10426 530 UnstrandedReadsAssigned:2192562 PositiveStrandReadsAssigned:2253869 NegativeStrandReadsAssigned:107673 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133465 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: ERR6133465-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,277,496 reads, 2,685,255 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,005 rounds 52973 ERR6133465.ke.tsv 35125 ERR6133465.se.tsv 88098 total ==> ERR6133465.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 71 26.8279 PNS24243 293 194 0 0 KQK14069 1603 1504 92 31.712 KQK14071 474 375 0 0 ==> ERR6133465.se.tsv <== BRADI_1g14170v3 92 BRADI_1g53295v3 17 BRADI_1g59795v3 35 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 38 BRADI_1g74790v3 18 BRADI_1g09890v3 0 BRADI_1g77505v3 84 BRADI_1g48960v3 1 ERR6133465 completed mapping pipeline successfully