Starting /dee2/code/volunteer_pipeline.sh ERR6133443 current disk space = 1545750761472 free memory = 1421183288 ERR6133443 SRAfilesize 0706c3846285a430647c91505a5e4b1c ERR6133443.sra ERR6133443.sra file validated ERR6133443 is single end ERR6133443 is conventional basespace ERR6133443 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133443_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 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.00875 37.0 33.0 37.0 33.0 37.0 2 36.3075 37.0 37.0 37.0 33.0 37.0 3 35.6185 37.0 37.0 37.0 33.0 37.0 4 35.50175 37.0 37.0 37.0 33.0 37.0 5 35.31625 37.0 37.0 37.0 33.0 37.0 6 35.58975 37.0 37.0 37.0 33.0 37.0 7 37.2915 37.0 37.0 40.0 33.0 40.0 8 37.34 37.0 37.0 40.0 33.0 40.0 9 37.3845 37.0 37.0 40.0 33.0 40.0 10-11 37.370875 37.0 37.0 40.0 33.0 40.0 12-13 37.2905 37.0 37.0 40.0 33.0 40.0 14-15 37.264875 37.0 37.0 40.0 33.0 40.0 16-17 37.180375 37.0 37.0 40.0 33.0 40.0 18-19 37.346625 37.0 37.0 40.0 33.0 40.0 20-21 37.46825 37.0 37.0 40.0 33.0 40.0 22-23 37.3995 37.0 37.0 40.0 33.0 40.0 24-25 37.282125 37.0 37.0 40.0 33.0 40.0 26-27 36.956625 37.0 37.0 40.0 33.0 40.0 28-29 37.144375 37.0 37.0 40.0 33.0 40.0 30-31 37.049375 37.0 37.0 40.0 33.0 40.0 32-33 36.930625000000006 37.0 37.0 40.0 33.0 40.0 34-35 36.7115 37.0 37.0 40.0 33.0 40.0 36-37 36.642375 37.0 37.0 40.0 33.0 40.0 38-39 36.459 37.0 37.0 40.0 33.0 40.0 40-41 36.36775 37.0 37.0 40.0 33.0 40.0 42-43 36.207750000000004 37.0 37.0 40.0 33.0 40.0 44-45 35.90275 37.0 35.0 37.0 33.0 40.0 46-47 35.90412499999999 37.0 35.0 37.0 33.0 40.0 48-49 35.807249999999996 37.0 37.0 37.0 33.0 40.0 50-51 35.566874999999996 37.0 33.0 37.0 33.0 40.0 52-53 35.364375 37.0 33.0 37.0 33.0 40.0 54-55 35.266000000000005 37.0 33.0 37.0 33.0 37.0 56-57 35.208125 37.0 33.0 37.0 33.0 37.0 58-59 34.826750000000004 37.0 33.0 37.0 30.0 37.0 60-61 34.694500000000005 37.0 33.0 37.0 33.0 37.0 62-63 34.503375000000005 37.0 33.0 37.0 30.0 37.0 64-65 33.992125 37.0 33.0 37.0 27.0 37.0 66-67 34.027125 37.0 33.0 37.0 27.0 37.0 68-69 32.83625 35.0 33.0 35.0 27.0 37.0 70-71 33.211298098573934 33.0 33.0 37.0 27.0 37.0 72-73 34.05577354355084 37.0 33.0 37.0 27.0 37.0 74-75 34.19538500125408 37.0 33.0 37.0 30.0 37.0 76-77 34.18937369012784 37.0 33.0 37.0 27.0 37.0 78-79 34.08080293157202 37.0 33.0 37.0 27.0 37.0 80-81 33.813760427167324 37.0 33.0 37.0 27.0 37.0 82-83 33.540699985383185 35.0 33.0 37.0 27.0 37.0 84-85 33.617315444599754 35.0 33.0 37.0 27.0 37.0 86-87 33.661861406170964 35.0 33.0 37.0 27.0 37.0 88-89 33.672736469398075 35.0 33.0 37.0 27.0 37.0 90-91 33.48444613050076 33.0 33.0 37.0 27.0 37.0 92-93 33.25202326757714 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 13.0 21 7.0 22 10.0 23 17.0 24 22.0 25 22.0 26 35.0 27 34.0 28 41.0 29 60.0 30 96.0 31 110.0 32 150.0 33 172.0 34 255.0 35 517.0 36 982.0 37 1102.0 38 353.0 39 2.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 87.875 2.45 1.975 7.7 2 72.26533166458073 17.146433041301627 5.982478097622027 4.605757196495619 3 37.525 37.974999999999994 12.35 12.15 4 36.7 26.674999999999997 17.525 19.1 5 26.775 32.125 22.025 19.075 6 21.025 39.25 23.95 15.775 7 36.7 26.25 18.75 18.3 8 31.125000000000004 28.1 24.325 16.45 9 26.924999999999997 26.5 26.5 20.075000000000003 10-11 27.05 26.974999999999998 25.6 20.375 12-13 29.2375 24.4375 25.374999999999996 20.95 14-15 23.7375 28.999999999999996 27.4125 19.85 16-17 26.025 30.3 23.4125 20.2625 18-19 23.875 26.5375 23.5375 26.05 20-21 24.975 26.9125 26.174999999999997 21.9375 22-23 27.6625 21.975 26.525 23.8375 24-25 29.1625 21.912499999999998 25.2125 23.7125 26-27 28.299999999999997 25.0125 27.1625 19.525000000000002 28-29 27.5125 26.35 23.962500000000002 22.175 30-31 29.862499999999997 24.425 23.4375 22.275 32-33 25.424999999999997 27.737499999999997 23.775 23.0625 34-35 27.3125 23.3375 25.3125 24.0375 36-37 25.05 22.4875 28.0625 24.4 38-39 27.8875 24.6 27.237499999999997 20.275000000000002 40-41 28.762500000000003 23.925 24.325 22.9875 42-43 26.05 28.812500000000004 22.825 22.3125 44-45 24.4875 24.725 26.8375 23.95 46-47 26.7125 22.375 25.3 25.6125 48-49 26.724999999999998 23.2625 27.975 22.037499999999998 50-51 27.6375 24.762500000000003 26.5875 21.0125 52-53 27.237499999999997 26.375 24.3625 22.025 54-55 23.400000000000002 29.825000000000003 24.2 22.575 56-57 26.625 24.9 25.3125 23.1625 58-59 25.4875 24.975 25.650000000000002 23.8875 60-61 25.85 22.9375 25.7125 25.5 62-63 24.462500000000002 26.7625 28.1375 20.6375 64-65 26.2875 27.437499999999996 25.1 21.175 66-67 26.375 27.675 24.1125 21.837500000000002 68-69 24.5125 26.924999999999997 25.025 23.5375 70-71 27.5728398149306 24.20907840440165 24.771789421032885 23.446292359634864 72-73 26.982337467117624 24.3141676061631 26.067894275335085 22.63560065138419 74-75 24.040632054176072 28.254326561324305 26.56132430398796 21.143717080511664 76-77 23.807730923694777 25.589859437751006 27.359437751004016 23.2429718875502 78-79 26.950621937429325 23.231561753989194 26.90036436738284 22.917451941198642 80-81 26.352881953183992 26.466146488799396 27.37226277372263 19.808708784293984 82-83 26.987526773340054 23.01877283608416 27.07572130527907 22.91797908529671 84-85 26.058920217473762 22.822101403464405 26.918700214945 24.200278164116828 86-87 22.964087000505817 26.264542235710675 30.22255943348508 20.548811330298435 88-89 22.964087000505817 28.553363682346987 27.959028831562975 20.523520485584218 90-91 26.871522508851797 25.998988366211435 25.417298937784523 21.71219018715225 92-93 24.987354577642893 28.072837632776938 26.997976732422863 19.94183105715731 >>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 1.5 18 1.5 19 0.0 20 0.0 21 2.0 22 2.5 23 3.0 24 3.5 25 1.5 26 4.5 27 6.5 28 7.5 29 10.0 30 11.5 31 17.0 32 19.5 33 23.0 34 40.0 35 47.0 36 56.5 37 95.5 38 121.5 39 116.5 40 109.0 41 130.0 42 155.0 43 159.0 44 151.5 45 144.5 46 232.0 47 245.0 48 171.0 49 156.5 50 158.5 51 199.0 52 198.0 53 183.5 54 177.0 55 144.5 56 120.5 57 110.5 58 105.5 59 98.0 60 87.0 61 73.0 62 68.0 63 65.5 64 52.0 65 43.0 66 44.0 67 37.5 68 28.0 69 22.0 70 12.5 71 6.0 72 4.5 73 2.0 74 2.0 75 4.0 76 2.5 77 0.0 78 1.0 79 1.0 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 0.125 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 0.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 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 0.012642225031605562 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 3.0 71 4.0 72 3.0 73 3.0 74 0.0 75 2.0 76 2.0 77 2.0 78 3.0 79 4.0 80 2.0 81 1.0 82 5.0 83 10.0 84 2.0 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 3954.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 77.85 #Duplication Level Percentage of deduplicated Percentage of total 1 91.74694926140012 71.42500000000001 2 4.913294797687861 7.6499999999999995 3 1.605651894669236 3.75 4 0.5459216441875401 1.7000000000000002 5 0.2890173410404624 1.125 6 0.06422607578676942 0.3 7 0.16056518946692355 0.8750000000000001 8 0.09633911368015415 0.6 9 0.03211303789338471 0.22499999999999998 >10 0.48169556840077066 9.049999999999999 >50 0.06422607578676942 3.3000000000000003 >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 GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 75 1.875 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 57 1.425 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 44 1.0999999999999999 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 42 1.05 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 39 0.975 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 38 0.95 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 32 0.8 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 32 0.8 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 29 0.7250000000000001 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 16 0.4 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 15 0.375 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 15 0.375 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 14 0.35000000000000003 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 12 0.3 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 12 0.3 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 11 0.27499999999999997 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 11 0.27499999999999997 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 9 0.22499999999999998 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 8 0.2 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 8 0.2 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 8 0.2 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 7 0.17500000000000002 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 7 0.17500000000000002 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 7 0.17500000000000002 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 7 0.17500000000000002 No Hit GACCGAAATCTTTGGGGATGATTCTGTATTACAATTTGGTGGAGGAACTT 7 0.17500000000000002 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 6 0.15 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 5 0.125 No Hit GGGCTGCGAGGAATCCGGCAAGGCATAAACAACCAAGGACAGCTCCGTAT 5 0.125 No Hit ACTTCAGAACTAGCAAATTCAGAAGAAAGCAACGGCGGTCAGAAAGATTT 5 0.125 No Hit GGGAGGGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAG 5 0.125 No Hit GGGTGGCGTAGCTACCGAGATCAATGCAGTTAATTATGTCTCTCCTAGAA 5 0.125 No Hit GGACAACTGCACCTGCAACCCGTGCACCTGCAAGTGAAACTCAACTTGAG 5 0.125 No Hit GGGCGTGGCGTTCATGAACAAGTGAAACCTTATGGCTGGATGGGTCATCG 5 0.125 No Hit GTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCT 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 0.025 0.0 0.0 0.0 0.0 8 0.05 0.0 0.0 0.0 0.0 9 0.05 0.0 0.0 0.0 0.0 10-11 0.05 0.0 0.0 0.0 0.0 12-13 0.05 0.0 0.0 0.0 0.0 14-15 0.05 0.0 0.0 0.0 0.0 16-17 0.05 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.05 0.0 0.0 0.0 0.0 26-27 0.05 0.0 0.0 0.0 0.0 28-29 0.05 0.0 0.0 0.0 0.0 30-31 0.05 0.0 0.0 0.0 0.0 32-33 0.05 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 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 0.0 0.0 0.0 0.0 48-49 0.05 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 0.0 0.0 0.0 0.0 54-55 0.05 0.0 0.0 0.0 0.0 56-57 0.05 0.0 0.0 0.0 0.0 58-59 0.05 0.0 0.0 0.0 0.0 60-61 0.05 0.0 0.0 0.0 0.0 62-63 0.05 0.0 0.0 0.0 0.0 64-65 0.05 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.05 0.0 0.0 0.0 0.0 78-79 0.05 0.0 0.0 0.0 0.0 80-81 0.05 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGAAGAG 25 0.0067476877 51.9225 1 >>END_MODULE Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345852 READS because READLEN < 1 Read 345852 spots for ERR6133443.sra Written 345852 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra Rejected 345847 READS because READLEN < 1 Read 345847 spots for ERR6133443.sra Written 345847 spots for ERR6133443.sra SRR ids: ['ERR6133443.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ikm1kd4j ERR6133443.sra spots: 6916945 blocks: [[1, 345847], [345848, 691694], [691695, 1037541], [1037542, 1383388], [1383389, 1729235], [1729236, 2075082], [2075083, 2420929], [2420930, 2766776], [2766777, 3112623], [3112624, 3458470], [3458471, 3804317], [3804318, 4150164], [4150165, 4496011], [4496012, 4841858], [4841859, 5187705], [5187706, 5533552], [5533553, 5879399], [5879400, 6225246], [6225247, 6571093], [6571094, 6916945]] ERR6133443 file size 1534928 ERR6133443 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 ERR6133443 ERR6133443_1.fastq Input file: ERR6133443_1.fastq trimmed: ERR6133443-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 06:08:03 2024 >> started Sat Dec 7 06:08:23 2024 >> done (19.907s) 6916945 reads processed; of these: 2868 ( 0.04%) short reads filtered out after trimming by size control 34 ( 0.00%) empty reads filtered out after trimming by size control 6914043 (99.96%) reads available; of these: 109047 ( 1.58%) trimmed reads available after processing 6804996 (98.42%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 54 0.00% 19 51 0.00% 20 44 0.00% 21 31 0.00% 22 44 0.00% 23 21 0.00% 24 19 0.00% 25 20 0.00% 26 23 0.00% 27 8 0.00% 28 13 0.00% 29 21 0.00% 30 13 0.00% 31 11 0.00% 32 18 0.00% 33 12 0.00% 34 15 0.00% 35 13 0.00% 36 6 0.00% 37 22 0.00% 38 18 0.00% 39 26 0.00% 40 48 0.00% 41 30 0.00% 42 42 0.00% 43 34 0.00% 44 40 0.00% 45 45 0.00% 46 37 0.00% 47 36 0.00% 48 40 0.00% 49 50 0.00% 50 44 0.00% 51 52 0.00% 52 46 0.00% 53 44 0.00% 54 38 0.00% 55 37 0.00% 56 42 0.00% 57 27 0.00% 58 31 0.00% 59 44 0.00% 60 30 0.00% 61 36 0.00% 62 5 0.00% 63 4 0.00% 64 4 0.00% 65 8 0.00% 66 12 0.00% 67 16 0.00% 68 26 0.00% 69 86 0.00% 70 6504 0.09% 71 5563 0.08% 72 6192 0.09% 73 5446 0.08% 74 5954 0.09% 75 5832 0.08% 76 5133 0.07% 77 5553 0.08% 78 6335 0.09% 79 7428 0.11% 80 6655 0.10% 81 7332 0.11% 82 8067 0.12% 83 8101 0.12% 84 6895 0.10% 85 236 0.00% 86 435 0.01% 87 657 0.01% 88 1307 0.02% 89 2858 0.04% 90 6310 0.09% 91 19120 0.28% 92 75002 1.08% 93 6709591 97.04% 6914043 reads passed initial QC criterion=sequence-density sequence-density=0.75 sequence-density-rank=1 fanout-score=5.04 fanout-score-rank=21 prefix-density=1.62 prefix-fanout=2.3 sequence=GCCGCCGCCGCCAAGGAAGGCATGTTCGTCAAGAACTACAGCTACTGATCCTAATCGCATCAAGCTTCAACGCCTGTGAGTGAAAACCAGTGATGAGAGTGCTGCTGCTAGCTAGCGCCGGCATTGATGAGCTTGAGAGGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCATCAGCGTACTCCGATGGGAGGTGGACATCAGAAAGTATACTGTGTTTTACCACCCTAATTAAGTAAACAACTTTTGGAATGGTGATCATCTTACTGTTTTAAATAAATCTGTTTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=34 fanout-score=41.70 fanout-score-rank=1 prefix-density=0.26 prefix-fanout=1.1 sequence=AACGTGAAGGCCAAGATCCAGGACAAGGAGGGCATTCCCCCGGACCAGCAGCGTCTGATCTTCGCAGGGAAGCAGCTGGAGGATGGCCGCACTCTTGCTGACTACAACATCCAGAAGGAGTCCACCCTCCACCTGGTGCTTCGTCTCCGTGGTGGTCAGTGATGGCCTGCTGTTGGAACCGCTGCTATACCTGGGTCTTCGTCTGGTGGGTGCCTGTGT Started job on | Dec 07 06:09:45 Started mapping on | Dec 07 06:09:46 Finished on | Dec 07 06:10:44 Mapping speed, Million of reads per hour | 429.15 Number of input reads | 6914043 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 4916635 Uniquely mapped reads % | 71.11% Average mapped length | 92.46 Number of splices: Total | 521906 Number of splices: Annotated (sjdb) | 453426 Number of splices: GT/AG | 512226 Number of splices: GC/AG | 6687 Number of splices: AT/AC | 210 Number of splices: Non-canonical | 2783 Mismatch rate per base, % | 0.39% Deletion rate per base | 0.03% Deletion average length | 1.94 Insertion rate per base | 0.01% Insertion average length | 2.22 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1884279 % of reads mapped to multiple loci | 27.25% Number of reads mapped to too many loci | 26097 % of reads mapped to too many loci | 0.38% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.23% % of reads unmapped: other | 0.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 113129 113129 113129 N_multimapping 1884279 1884279 1884279 N_noFeature 198848 243884 4718520 N_ambiguous 172159 19302 459 UnstrandedReadsAssigned:4545628 PositiveStrandReadsAssigned:4653449 NegativeStrandReadsAssigned:197656 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133443 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: ERR6133443-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 6,914,043 reads, 6,062,593 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,076 rounds 52973 ERR6133443.ke.tsv 35125 ERR6133443.se.tsv 88098 total ==> ERR6133443.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 118 18.0773 PNS24243 293 194 0 0 KQK14069 1603 1504 125 17.469 KQK14071 474 375 0 0 ==> ERR6133443.se.tsv <== BRADI_1g14170v3 124 BRADI_1g53295v3 95 BRADI_1g59795v3 44 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 71 BRADI_1g74790v3 28 BRADI_1g09890v3 0 BRADI_1g77505v3 83 BRADI_1g48960v3 0 ERR6133443 completed mapping pipeline successfully