Starting /dee2/code/volunteer_pipeline.sh ERR6133530 current disk space = 1544515121152 free memory = 1598489928 ERR6133530 SRAfilesize 0063bda487a322d3384dcd1de0107182 ERR6133530.sra ERR6133530.sra file validated ERR6133530 is single end ERR6133530 is conventional basespace ERR6133530 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133530_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 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.76025 33.0 33.0 37.0 27.0 37.0 2 36.0355 37.0 37.0 37.0 33.0 37.0 3 35.17325 37.0 33.0 37.0 33.0 37.0 4 35.32325 37.0 37.0 37.0 33.0 37.0 5 35.23225 37.0 37.0 37.0 33.0 37.0 6 35.576 37.0 37.0 37.0 33.0 37.0 7 37.35 37.0 37.0 40.0 33.0 40.0 8 37.45025 37.0 37.0 40.0 33.0 40.0 9 37.47325 37.0 37.0 40.0 33.0 40.0 10-11 37.474374999999995 37.0 37.0 40.0 33.0 40.0 12-13 37.40475 37.0 37.0 40.0 33.0 40.0 14-15 37.415875 37.0 37.0 40.0 33.0 40.0 16-17 37.336124999999996 37.0 37.0 40.0 33.0 40.0 18-19 37.315749999999994 37.0 37.0 40.0 33.0 40.0 20-21 37.15325 37.0 37.0 40.0 33.0 40.0 22-23 37.08675 37.0 37.0 40.0 33.0 40.0 24-25 37.166375 37.0 37.0 40.0 33.0 40.0 26-27 37.16725 37.0 37.0 40.0 33.0 40.0 28-29 37.01575 37.0 37.0 40.0 33.0 40.0 30-31 36.956625 37.0 37.0 40.0 33.0 40.0 32-33 36.77775 37.0 37.0 40.0 33.0 40.0 34-35 36.575 37.0 37.0 40.0 33.0 40.0 36-37 36.394999999999996 37.0 37.0 40.0 33.0 40.0 38-39 36.413624999999996 37.0 37.0 40.0 33.0 40.0 40-41 36.106750000000005 37.0 37.0 40.0 33.0 40.0 42-43 35.964375000000004 37.0 37.0 40.0 33.0 40.0 44-45 35.71125 37.0 33.0 37.0 33.0 40.0 46-47 35.506625 37.0 33.0 37.0 33.0 40.0 48-49 35.505125 37.0 33.0 37.0 33.0 40.0 50-51 35.38775 37.0 33.0 37.0 33.0 40.0 52-53 35.039125 37.0 33.0 37.0 30.0 40.0 54-55 35.06625 37.0 33.0 37.0 33.0 38.5 56-57 34.881375000000006 37.0 33.0 37.0 30.0 37.0 58-59 34.20925 37.0 33.0 37.0 27.0 37.0 60-61 34.397625000000005 37.0 33.0 37.0 27.0 37.0 62-63 34.429 37.0 33.0 37.0 27.0 37.0 64-65 34.433499999999995 37.0 33.0 37.0 27.0 37.0 66-67 34.395624999999995 37.0 33.0 37.0 27.0 37.0 68-69 33.554500000000004 35.0 33.0 37.0 27.0 37.0 70-71 33.696989773580185 35.0 33.0 37.0 27.0 37.0 72-73 34.10505398053343 37.0 33.0 37.0 27.0 37.0 74-75 34.179345336157084 37.0 33.0 37.0 27.0 37.0 76-77 34.09189376297071 37.0 33.0 37.0 27.0 37.0 78-79 34.09776883489464 37.0 33.0 37.0 27.0 37.0 80-81 33.972988291781135 37.0 33.0 37.0 27.0 37.0 82-83 33.80149752655632 37.0 33.0 37.0 27.0 37.0 84-85 33.70922787907644 37.0 33.0 37.0 27.0 37.0 86-87 33.67337579617835 37.0 33.0 37.0 27.0 37.0 88-89 33.77974522292993 37.0 33.0 37.0 27.0 37.0 90-91 33.54267515923567 37.0 33.0 37.0 27.0 37.0 92-93 33.3456050955414 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 8.0 21 9.0 22 19.0 23 17.0 24 29.0 25 40.0 26 41.0 27 47.0 28 50.0 29 80.0 30 82.0 31 94.0 32 140.0 33 180.0 34 238.0 35 440.0 36 967.0 37 920.0 38 588.0 39 11.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 89.725 2.375 2.4 5.5 2 76.125 14.75 4.875 4.25 3 38.05 37.85 13.55 10.549999999999999 4 34.35 28.050000000000004 18.099999999999998 19.5 5 25.874999999999996 32.125 23.549999999999997 18.45 6 21.2 38.15 23.674999999999997 16.975 7 37.25 28.225 18.125 16.400000000000002 8 31.974999999999998 31.85 21.925 14.249999999999998 9 27.725 27.625 26.5 18.15 10-11 28.799999999999997 27.6 25.75 17.849999999999998 12-13 30.25 26.487500000000004 26.325 16.9375 14-15 23.4625 29.425 28.012500000000003 19.1 16-17 24.4375 32.4625 24.4 18.7 18-19 23.1625 27.762500000000003 26.187500000000004 22.8875 20-21 25.740717589698715 25.54069258657332 26.20327540942618 22.515314414301788 22-23 27.750000000000004 23.0625 27.55 21.637500000000003 24-25 27.474999999999998 24.125 26.2875 22.112499999999997 26-27 26.424999999999997 24.575 29.1125 19.8875 28-29 26.737499999999997 25.4 26.137500000000003 21.725 30-31 27.625 24.975 26.5125 20.8875 32-33 24.5 27.425 26.775 21.3 34-35 26.241400875547217 25.090681676047527 26.941838649155724 21.72607879924953 36-37 25.7375 24.5375 28.475 21.25 38-39 26.625 25.174999999999997 28.050000000000004 20.150000000000002 40-41 28.03551331749406 24.90934100287608 26.09728648243091 20.95785919719895 42-43 24.8654736578651 26.479789763483918 26.442247528469526 22.212489050181457 44-45 23.87145179442291 25.30949105914718 29.386019757409027 21.433037389020885 46-47 23.95 24.087500000000002 28.6625 23.3 48-49 25.15 24.5375 30.099999999999998 20.2125 50-51 26.5 25.337500000000002 27.9375 20.225 52-53 25.78466925096911 26.62248343128673 26.73502563461298 20.857821683131174 54-55 25.2875 26.75 28.075 19.8875 56-57 26.25 25.0 28.0625 20.6875 58-59 24.7875 25.374999999999996 26.937499999999996 22.900000000000002 60-61 24.087500000000002 25.387500000000003 28.775000000000002 21.75 62-63 24.3625 25.662499999999998 30.425 19.55 64-65 25.75 26.0125 28.1625 20.075000000000003 66-67 25.35 25.650000000000002 28.375 20.625 68-69 23.0125 27.425 27.8875 21.675 70-71 26.08478179317244 24.97186444916844 27.397774165311993 21.54557959234713 72-73 25.366587291640556 25.35405439278105 27.823035468103775 21.45632284747462 74-75 23.810719216769172 27.086732772687334 28.969499184134555 20.133048826408935 76-77 23.083700440528634 25.626179987413465 29.314033983637504 21.97608558842039 78-79 24.35978302005803 24.952693326605274 29.784281569320047 20.90324208401665 80-81 25.601722827463895 26.43780086141373 29.199391943248038 18.761084367874332 82-83 24.53357025003173 25.19355248127935 29.737276304099503 20.535600964589413 84-85 24.45914991091881 23.084754390430135 30.733010944260624 21.72308475439043 86-87 23.070063694267514 25.197452229299362 31.65605095541401 20.076433121019107 88-89 22.522292993630575 27.044585987261144 30.203821656050955 20.229299363057322 90-91 24.929936305732483 25.796178343949045 29.605095541401273 19.668789808917197 92-93 23.70700636942675 28.280254777070063 28.53503184713376 19.477707006369428 >>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 0.5 17 5.0 18 4.5 19 1.0 20 1.5 21 1.0 22 0.5 23 3.5 24 5.5 25 3.0 26 5.5 27 9.5 28 14.0 29 18.0 30 16.5 31 19.5 32 34.5 33 53.5 34 60.0 35 66.0 36 99.0 37 128.0 38 148.0 39 158.0 40 162.5 41 171.0 42 199.0 43 229.0 44 212.5 45 189.0 46 216.5 47 229.5 48 201.0 49 186.5 50 176.0 51 152.0 52 116.5 53 128.0 54 120.0 55 79.5 56 74.5 57 75.5 58 72.0 59 63.5 60 59.5 61 54.0 62 48.5 63 43.0 64 41.5 65 45.5 66 33.0 67 19.5 68 22.0 69 20.5 70 12.5 71 11.0 72 8.5 73 4.0 74 3.0 75 2.5 76 1.5 77 1.0 78 0.5 79 1.5 80 1.0 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 0.0125 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 0.0625 36-37 0.0 38-39 0.0 40-41 0.0375 42-43 0.11249999999999999 44-45 0.0375 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0375 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 3.0 71 6.0 72 3.0 73 2.0 74 5.0 75 6.0 76 5.0 77 4.0 78 5.0 79 11.0 80 6.0 81 3.0 82 3.0 83 5.0 84 8.0 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 3925.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 86.125 #Duplication Level Percentage of deduplicated Percentage of total 1 93.933236574746 80.9 2 3.74455732946299 6.45 3 0.9579100145137881 2.475 4 0.40638606676342526 1.4000000000000001 5 0.29027576197387517 1.25 6 0.08708272859216255 0.44999999999999996 7 0.11611030478955006 0.7000000000000001 8 0.14513788098693758 1.0 9 0.029027576197387515 0.22499999999999998 >10 0.2612481857764877 3.8 >50 0.029027576197387515 1.35 >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 54 1.35 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 24 0.6 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 22 0.5499999999999999 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 22 0.5499999999999999 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 19 0.475 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 16 0.4 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 15 0.375 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 12 0.3 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 11 0.27499999999999997 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 11 0.27499999999999997 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 9 0.22499999999999998 No Hit GGACAAGATTAAGGAGAAGCTGCCTGGCCAGCACTGAGCGCCTCGCAGTC 8 0.2 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 8 0.2 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 8 0.2 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 8 0.2 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 8 0.2 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 7 0.17500000000000002 No Hit GGGGAAGAAGAAGCACCACTTCTTCGGCTAGCTTTTGCTGCTAGCTGATG 7 0.17500000000000002 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 7 0.17500000000000002 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 6 0.15 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 6 0.15 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GGGATGGAGATGGCCGCGGAGAACGGCGGCTGCGGCTGCAGCACCTGCAA 5 0.125 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 5 0.125 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 5 0.125 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 5 0.125 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 5 0.125 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 5 0.125 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 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 0.0125 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.025 0.0 0.0 0.0 0.0 76-77 0.025 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 pass >>END_MODULE Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148577 READS because READLEN < 1 Read 148577 spots for ERR6133530.sra Written 148577 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra Rejected 148564 READS because READLEN < 1 Read 148564 spots for ERR6133530.sra Written 148564 spots for ERR6133530.sra SRR ids: ['ERR6133530.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_gzlom8ua ERR6133530.sra spots: 2971293 blocks: [[1, 148564], [148565, 297128], [297129, 445692], [445693, 594256], [594257, 742820], [742821, 891384], [891385, 1039948], [1039949, 1188512], [1188513, 1337076], [1337077, 1485640], [1485641, 1634204], [1634205, 1782768], [1782769, 1931332], [1931333, 2079896], [2079897, 2228460], [2228461, 2377024], [2377025, 2525588], [2525589, 2674152], [2674153, 2822716], [2822717, 2971293]] ERR6133530 file size 657347 ERR6133530 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 ERR6133530 ERR6133530_1.fastq Input file: ERR6133530_1.fastq trimmed: ERR6133530-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 08:03:07 2024 >> started Sat Dec 7 08:03:09 2024 >> done (1.756s) 2971293 reads processed; of these: 67 ( 0.00%) short reads filtered out after trimming by size control 15 ( 0.00%) empty reads filtered out after trimming by size control 2971211 (100.00%) reads available; of these: 49381 ( 1.66%) trimmed reads available after processing 2921830 (98.34%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 12 0.00% 19 21 0.00% 20 9 0.00% 21 5 0.00% 22 11 0.00% 23 5 0.00% 24 2 0.00% 25 2 0.00% 26 2 0.00% 27 6 0.00% 28 7 0.00% 29 25 0.00% 30 6 0.00% 31 6 0.00% 32 5 0.00% 33 6 0.00% 34 4 0.00% 35 51 0.00% 36 227 0.01% 37 5 0.00% 38 12 0.00% 39 41 0.00% 40 30 0.00% 41 11 0.00% 42 6 0.00% 43 2 0.00% 44 4 0.00% 45 8 0.00% 46 5 0.00% 47 0 0.00% 48 4 0.00% 49 4 0.00% 50 8 0.00% 51 6 0.00% 52 1 0.00% 53 3 0.00% 54 2 0.00% 55 1 0.00% 56 5 0.00% 57 5 0.00% 58 2 0.00% 59 2 0.00% 60 9 0.00% 61 7 0.00% 62 0 0.00% 63 0 0.00% 64 6 0.00% 65 6 0.00% 66 6 0.00% 67 10 0.00% 68 24 0.00% 69 52 0.00% 70 4571 0.15% 71 4363 0.15% 72 4619 0.16% 73 4223 0.14% 74 4131 0.14% 75 4204 0.14% 76 3727 0.13% 77 3980 0.13% 78 4440 0.15% 79 4828 0.16% 80 4314 0.15% 81 4642 0.16% 82 5124 0.17% 83 5269 0.18% 84 4345 0.15% 85 184 0.01% 86 241 0.01% 87 508 0.02% 88 693 0.02% 89 1256 0.04% 90 2789 0.09% 91 8163 0.27% 92 33861 1.14% 93 2856037 96.12% 2971211 reads passed initial QC criterion=sequence-density sequence-density=0.50 sequence-density-rank=1 fanout-score=6.59 fanout-score-rank=21 prefix-density=0.77 prefix-fanout=4.3 sequence=ATGCATGCATGC criterion=fanout-score sequence-density=0.02 sequence-density-rank=30 fanout-score=93.71 fanout-score-rank=1 prefix-density=0.20 prefix-fanout=9.8 sequence=TGAAGAAGAATTGGAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGA Started job on | Dec 07 08:03:22 Started mapping on | Dec 07 08:03:22 Finished on | Dec 07 08:03:26 Mapping speed, Million of reads per hour | 2674.09 Number of input reads | 2971211 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2366929 Uniquely mapped reads % | 79.66% Average mapped length | 92.27 Number of splices: Total | 168304 Number of splices: Annotated (sjdb) | 145333 Number of splices: GT/AG | 164277 Number of splices: GC/AG | 2714 Number of splices: AT/AC | 71 Number of splices: Non-canonical | 1242 Mismatch rate per base, % | 0.41% Deletion rate per base | 0.04% Deletion average length | 1.83 Insertion rate per base | 0.02% Insertion average length | 1.84 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 550223 % of reads mapped to multiple loci | 18.52% Number of reads mapped to too many loci | 15367 % of reads mapped to too many loci | 0.52% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.27% % of reads unmapped: other | 0.03% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 54059 54059 54059 N_multimapping 550223 550223 550223 N_noFeature 125657 148761 2264669 N_ambiguous 87838 8694 234 UnstrandedReadsAssigned:2153434 PositiveStrandReadsAssigned:2209474 NegativeStrandReadsAssigned:102026 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133530 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: ERR6133530-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,971,211 reads, 2,608,331 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,022 rounds 52973 ERR6133530.ke.tsv 35125 ERR6133530.se.tsv 88098 total ==> ERR6133530.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 104 38.1411 PNS24243 293 194 0 0 KQK14069 1603 1504 92 30.7789 KQK14071 474 375 0 0 ==> ERR6133530.se.tsv <== BRADI_1g14170v3 92 BRADI_1g53295v3 32 BRADI_1g59795v3 20 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 40 BRADI_1g74790v3 23 BRADI_1g09890v3 0 BRADI_1g77505v3 62 BRADI_1g48960v3 0 ERR6133530 completed mapping pipeline successfully