Starting /dee2/code/volunteer_pipeline.sh ERR6133569 current disk space = 1544428371968 free memory = 1595510920 ERR6133569 SRAfilesize 9660305c778e8908a942b6be7873e30a ERR6133569.sra ERR6133569.sra file validated ERR6133569 is single end ERR6133569 is conventional basespace ERR6133569 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133569_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 35.44 37.0 33.0 37.0 33.0 37.0 2 36.514 37.0 37.0 37.0 37.0 37.0 3 36.06475 37.0 37.0 37.0 33.0 37.0 4 35.52975 37.0 37.0 37.0 33.0 37.0 5 35.3465 37.0 37.0 37.0 33.0 37.0 6 35.60575 37.0 37.0 37.0 33.0 37.0 7 37.501 40.0 37.0 40.0 33.0 40.0 8 37.496 40.0 37.0 40.0 33.0 40.0 9 37.5635 40.0 37.0 40.0 33.0 40.0 10-11 37.4765 38.5 37.0 40.0 33.0 40.0 12-13 37.42675 38.5 37.0 40.0 33.0 40.0 14-15 37.369749999999996 37.0 37.0 40.0 33.0 40.0 16-17 37.23350000000001 37.0 37.0 40.0 33.0 40.0 18-19 37.2265 37.0 37.0 40.0 33.0 40.0 20-21 37.114125 37.0 37.0 40.0 33.0 40.0 22-23 37.098124999999996 37.0 37.0 40.0 33.0 40.0 24-25 37.23675 37.0 37.0 40.0 33.0 40.0 26-27 37.2315 37.0 37.0 40.0 33.0 40.0 28-29 37.11625 37.0 37.0 40.0 33.0 40.0 30-31 36.949625 37.0 37.0 40.0 33.0 40.0 32-33 36.753 37.0 37.0 40.0 33.0 40.0 34-35 36.619625 37.0 37.0 40.0 33.0 40.0 36-37 36.540875 37.0 37.0 40.0 33.0 40.0 38-39 36.269999999999996 37.0 37.0 40.0 33.0 40.0 40-41 36.122749999999996 37.0 37.0 40.0 33.0 40.0 42-43 36.038875000000004 37.0 37.0 40.0 33.0 40.0 44-45 35.735875 37.0 35.0 38.5 33.0 40.0 46-47 35.4955 37.0 33.0 37.0 33.0 40.0 48-49 35.420874999999995 37.0 33.0 37.0 33.0 40.0 50-51 35.245999999999995 37.0 33.0 37.0 33.0 40.0 52-53 34.841875 37.0 33.0 37.0 27.0 40.0 54-55 34.86087499999999 37.0 33.0 37.0 27.0 40.0 56-57 34.658 37.0 33.0 37.0 27.0 37.0 58-59 33.61 37.0 33.0 37.0 27.0 37.0 60-61 34.08375 37.0 33.0 37.0 27.0 37.0 62-63 34.08575 37.0 33.0 37.0 27.0 37.0 64-65 34.047375 37.0 33.0 37.0 27.0 37.0 66-67 34.215125 37.0 33.0 37.0 27.0 37.0 68-69 33.485749999999996 35.0 33.0 37.0 27.0 37.0 70-71 33.43657675932883 35.0 33.0 37.0 27.0 37.0 72-73 33.92867531857377 37.0 33.0 37.0 27.0 37.0 74-75 33.565613825085364 37.0 33.0 37.0 27.0 37.0 76-77 33.70233044321334 37.0 33.0 37.0 27.0 37.0 78-79 33.829786786432535 37.0 33.0 37.0 27.0 37.0 80-81 33.72723370279893 37.0 33.0 37.0 27.0 37.0 82-83 33.62372132583749 37.0 33.0 37.0 27.0 37.0 84-85 33.505744716023585 37.0 33.0 37.0 27.0 37.0 86-87 33.33504757006943 37.0 33.0 37.0 27.0 37.0 88-89 33.59629724865003 37.0 33.0 37.0 27.0 37.0 90-91 33.33941887374647 37.0 33.0 37.0 27.0 37.0 92-93 33.192465929544866 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 12.0 21 14.0 22 22.0 23 34.0 24 24.0 25 39.0 26 49.0 27 48.0 28 47.0 29 78.0 30 86.0 31 109.0 32 135.0 33 182.0 34 205.0 35 438.0 36 923.0 37 901.0 38 645.0 39 9.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 88.47500000000001 2.175 2.9000000000000004 6.45 2 71.5 16.525000000000002 7.324999999999999 4.65 3 35.025 38.7 14.224999999999998 12.049999999999999 4 34.8 25.85 18.325 21.025 5 24.6 31.0 24.85 19.55 6 19.25 40.0 24.775 15.975 7 35.85 29.349999999999998 19.1 15.7 8 30.425 29.299999999999997 24.099999999999998 16.175 9 26.0 29.25 26.3 18.45 10-11 24.637500000000003 27.437499999999996 27.800000000000004 20.125 12-13 28.787499999999998 25.525 25.5125 20.175 14-15 23.325000000000003 29.775000000000002 27.675 19.225 16-17 25.0625 30.25 25.4375 19.25 18-19 23.6375 26.525 27.3 22.537499999999998 20-21 26.85 26.0625 26.6 20.4875 22-23 27.325 23.825 26.125 22.725 24-25 25.25 25.2 26.85 22.7 26-27 24.5125 26.487500000000004 30.2 18.8 28-29 25.4375 26.1625 26.487500000000004 21.912499999999998 30-31 26.625 25.0625 26.937499999999996 21.375 32-33 24.675 26.85 27.224999999999998 21.25 34-35 26.137500000000003 25.4625 26.7625 21.637500000000003 36-37 25.374999999999996 25.124999999999996 27.275 22.225 38-39 25.35334584115072 25.47842401500938 30.24390243902439 18.92432770481551 40-41 26.69003505257887 26.139208813219827 26.12669003505258 21.044066099148722 42-43 26.22827853481685 29.203650456307038 24.815601950243778 19.75246905863233 44-45 24.05 26.0625 28.599999999999998 21.2875 46-47 24.337500000000002 23.9875 27.8125 23.8625 48-49 24.887500000000003 24.5625 29.812499999999996 20.7375 50-51 24.6625 26.1 28.7 20.5375 52-53 24.78386167146974 27.352462097481517 26.663325397819822 21.200350833228917 54-55 25.074999999999996 27.5125 27.650000000000002 19.7625 56-57 26.75 25.5 27.275 20.474999999999998 58-59 23.9125 24.712500000000002 28.549999999999997 22.825 60-61 25.0375 25.337500000000002 28.549999999999997 21.075 62-63 22.5 27.8875 31.2875 18.325 64-65 22.0625 28.6375 28.599999999999998 20.7 66-67 24.840605075634453 26.615826978372297 28.641080135016878 19.90248781097637 68-69 22.162499999999998 27.85 27.6375 22.35 70-71 25.772550982109344 25.472288252220693 27.786813461779058 20.968347303890905 72-73 25.951513628941086 23.803542268559227 28.576811958296695 21.66813214420299 74-75 23.550176500252142 27.861825516893596 28.265254664649518 20.32274331820474 76-77 23.62254591513616 26.48511716276124 28.30905636478784 21.583280557314758 78-79 24.209323002667343 24.933316397815318 28.896227613362125 21.961132986155214 80-81 23.351613314628235 28.19793393699783 29.486034944522384 18.96441780385155 82-83 23.3367451381781 25.396622313203686 29.823439099283522 21.4431934493347 84-85 24.348272762296137 23.205342237061767 30.653653525105945 21.79273147553615 86-87 22.499357161223966 26.857804062741064 30.534841861661093 20.107996914373874 88-89 21.95937258935459 29.12059655438416 29.53201337104654 19.38801748521471 90-91 26.1635381846233 25.893545898688608 28.95345847261507 18.989457444073025 92-93 21.895088711751093 30.4834147595783 28.413473900745696 19.20802262792492 >>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 0.5 17 8.5 18 10.0 19 2.0 20 0.5 21 3.5 22 5.5 23 9.5 24 11.0 25 6.5 26 8.0 27 8.5 28 17.5 29 28.5 30 31.0 31 38.5 32 46.5 33 58.5 34 58.5 35 64.5 36 102.5 37 137.0 38 160.5 39 163.0 40 165.5 41 179.5 42 203.0 43 225.5 44 195.5 45 170.5 46 205.5 47 204.5 48 175.0 49 156.5 50 146.0 51 155.0 52 151.0 53 174.0 54 160.0 55 90.0 56 72.5 57 84.0 58 77.0 59 63.5 60 53.0 61 42.5 62 33.5 63 35.0 64 34.5 65 27.0 66 21.0 67 20.5 68 19.0 69 16.0 70 12.5 71 8.0 72 8.0 73 5.5 74 1.5 75 1.5 76 2.0 77 1.0 78 0.5 79 0.5 80 1.0 81 0.5 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 0.0 38-39 0.0625 40-41 0.15 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.2375 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 0.0125 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 9.0 72 7.0 73 8.0 74 6.0 75 12.0 76 7.0 77 3.0 78 9.0 79 8.0 80 7.0 81 7.0 82 4.0 83 8.0 84 9.0 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 3889.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 77.95 #Duplication Level Percentage of deduplicated Percentage of total 1 92.01411161000641 71.72500000000001 2 4.329698524695318 6.75 3 1.3149454778704297 3.075 4 0.7697241821680565 2.4 5 0.28864656831302116 1.125 6 0.2565747273893521 1.2 7 0.1603592046183451 0.8750000000000001 8 0.032071840923669014 0.2 9 0.12828736369467605 0.8999999999999999 >10 0.6735086593970494 10.2 >50 0.032071840923669014 1.55 >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 GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 62 1.55 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 34 0.8500000000000001 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 32 0.8 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 32 0.8 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 31 0.775 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 30 0.75 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 23 0.575 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 23 0.575 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 22 0.5499999999999999 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 21 0.525 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 20 0.5 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 17 0.42500000000000004 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 15 0.375 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 14 0.35000000000000003 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 13 0.325 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 13 0.325 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 12 0.3 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 11 0.27499999999999997 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 11 0.27499999999999997 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 11 0.27499999999999997 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 10 0.25 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 9 0.22499999999999998 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 9 0.22499999999999998 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 9 0.22499999999999998 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 9 0.22499999999999998 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 8 0.2 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 7 0.17500000000000002 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 7 0.17500000000000002 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 7 0.17500000000000002 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 7 0.17500000000000002 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 7 0.17500000000000002 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 6 0.15 No Hit GGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGA 6 0.15 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 6 0.15 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 6 0.15 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 6 0.15 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GGGCGTGGCGTTCATGAACAAGTGAAACCTTATGGCTGGATGGGTCATCG 6 0.15 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 5 0.125 No Hit GAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCG 5 0.125 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 5 0.125 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 5 0.125 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 5 0.125 No Hit GGTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATC 5 0.125 No Hit GGAGTGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTAAT 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 0.0125 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 0.025 0.0 0.0 0.0 0.0 30-31 0.037500000000000006 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 0.0625 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 0.075 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.075 0.0 0.0 0.0 0.0 80-81 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGGAAGA 15 8.9253974E-4 86.475 1 >>END_MODULE Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157660 READS because READLEN < 1 Read 157660 spots for ERR6133569.sra Written 157660 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra Rejected 157656 READS because READLEN < 1 Read 157656 spots for ERR6133569.sra Written 157656 spots for ERR6133569.sra SRR ids: ['ERR6133569.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_m5vb1scj ERR6133569.sra spots: 3153124 blocks: [[1, 157656], [157657, 315312], [315313, 472968], [472969, 630624], [630625, 788280], [788281, 945936], [945937, 1103592], [1103593, 1261248], [1261249, 1418904], [1418905, 1576560], [1576561, 1734216], [1734217, 1891872], [1891873, 2049528], [2049529, 2207184], [2207185, 2364840], [2364841, 2522496], [2522497, 2680152], [2680153, 2837808], [2837809, 2995464], [2995465, 3153124]] ERR6133569 file size 696583 ERR6133569 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 ERR6133569 ERR6133569_1.fastq Input file: ERR6133569_1.fastq trimmed: ERR6133569-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 08:48:58 2024 >> started Sat Dec 7 08:49:00 2024 >> done (2.161s) 3153124 reads processed; of these: 208 ( 0.01%) short reads filtered out after trimming by size control 29 ( 0.00%) empty reads filtered out after trimming by size control 3152887 (99.99%) reads available; of these: 68877 ( 2.18%) trimmed reads available after processing 3084010 (97.82%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 57 0.00% 19 87 0.00% 20 34 0.00% 21 36 0.00% 22 37 0.00% 23 18 0.00% 24 20 0.00% 25 19 0.00% 26 10 0.00% 27 27 0.00% 28 36 0.00% 29 28 0.00% 30 19 0.00% 31 28 0.00% 32 46 0.00% 33 28 0.00% 34 26 0.00% 35 176 0.01% 36 645 0.02% 37 30 0.00% 38 69 0.00% 39 170 0.01% 40 152 0.00% 41 39 0.00% 42 16 0.00% 43 18 0.00% 44 32 0.00% 45 8 0.00% 46 17 0.00% 47 12 0.00% 48 18 0.00% 49 11 0.00% 50 12 0.00% 51 63 0.00% 52 19 0.00% 53 14 0.00% 54 10 0.00% 55 8 0.00% 56 13 0.00% 57 7 0.00% 58 11 0.00% 59 5 0.00% 60 18 0.00% 61 11 0.00% 62 6 0.00% 63 2 0.00% 64 1 0.00% 65 8 0.00% 66 5 0.00% 67 11 0.00% 68 36 0.00% 69 70 0.00% 70 7858 0.25% 71 7312 0.23% 72 7787 0.25% 73 6544 0.21% 74 6936 0.22% 75 6623 0.21% 76 5987 0.19% 77 5974 0.19% 78 6714 0.21% 79 7429 0.24% 80 6509 0.21% 81 7269 0.23% 82 8440 0.27% 83 7678 0.24% 84 7064 0.22% 85 130 0.00% 86 274 0.01% 87 410 0.01% 88 760 0.02% 89 1524 0.05% 90 3174 0.10% 91 9510 0.30% 92 49418 1.57% 93 2979264 94.49% 3152887 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=32 prefix-density=0.47 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.10 sequence-density-rank=14 fanout-score=25.96 fanout-score-rank=1 prefix-density=1.52 prefix-fanout=1.7 sequence=TGCTGCAGCAGCTTAATTTGCATGCCAGGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACCATGAACCGATCCAAGGCTAGCTGCACAAGCTAGGCCCTTATTTCCCT Started job on | Dec 07 08:49:12 Started mapping on | Dec 07 08:49:12 Finished on | Dec 07 08:49:18 Mapping speed, Million of reads per hour | 1891.73 Number of input reads | 3152887 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2123672 Uniquely mapped reads % | 67.36% Average mapped length | 92.00 Number of splices: Total | 114917 Number of splices: Annotated (sjdb) | 95852 Number of splices: GT/AG | 110468 Number of splices: GC/AG | 2539 Number of splices: AT/AC | 65 Number of splices: Non-canonical | 1845 Mismatch rate per base, % | 0.41% Deletion rate per base | 0.04% Deletion average length | 1.82 Insertion rate per base | 0.02% Insertion average length | 2.32 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 951207 % of reads mapped to multiple loci | 30.17% Number of reads mapped to too many loci | 30040 % of reads mapped to too many loci | 0.95% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.46% % of reads unmapped: other | 0.06% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 78008 78008 78008 N_multimapping 951207 951207 951207 N_noFeature 146622 166971 2031728 N_ambiguous 79638 7995 313 UnstrandedReadsAssigned:1897412 PositiveStrandReadsAssigned:1948706 NegativeStrandReadsAssigned:91631 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133569 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: ERR6133569-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,152,887 reads, 2,585,704 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 994 rounds 52973 ERR6133569.ke.tsv 35125 ERR6133569.se.tsv 88098 total ==> ERR6133569.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 86 31.7296 PNS24243 293 194 0 0 KQK14069 1603 1504 160 53.8509 KQK14071 474 375 0 0 ==> ERR6133569.se.tsv <== BRADI_1g14170v3 160 BRADI_1g53295v3 33 BRADI_1g59795v3 22 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 23 BRADI_1g74790v3 14 BRADI_1g09890v3 0 BRADI_1g77505v3 40 BRADI_1g48960v3 0 ERR6133569 completed mapping pipeline successfully