Starting /dee2/code/volunteer_pipeline.sh ERR6133488 current disk space = 1544670629888 free memory = 1598078212 ERR6133488 SRAfilesize 7fd766ca7980822deb4d335abb7d9412 ERR6133488.sra ERR6133488.sra file validated ERR6133488 is single end ERR6133488 is conventional basespace ERR6133488 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133488_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.46775 37.0 33.0 37.0 33.0 37.0 2 36.47025 37.0 37.0 37.0 37.0 37.0 3 35.64575 37.0 37.0 37.0 33.0 37.0 4 35.236 37.0 37.0 37.0 33.0 37.0 5 35.24075 37.0 37.0 37.0 33.0 37.0 6 35.607 37.0 37.0 37.0 33.0 37.0 7 37.29925 37.0 37.0 40.0 33.0 40.0 8 37.29225 37.0 37.0 40.0 33.0 40.0 9 37.28525 37.0 37.0 40.0 33.0 40.0 10-11 37.2405 37.0 37.0 40.0 33.0 40.0 12-13 37.25475 37.0 37.0 40.0 33.0 40.0 14-15 37.179249999999996 37.0 37.0 40.0 33.0 40.0 16-17 37.143375 37.0 37.0 40.0 33.0 40.0 18-19 36.914500000000004 37.0 37.0 40.0 33.0 40.0 20-21 36.747 37.0 37.0 40.0 33.0 40.0 22-23 36.673874999999995 37.0 37.0 40.0 33.0 40.0 24-25 36.607875 37.0 37.0 40.0 33.0 40.0 26-27 36.78375 37.0 37.0 40.0 33.0 40.0 28-29 36.773375 37.0 37.0 40.0 33.0 40.0 30-31 36.676 37.0 37.0 40.0 33.0 40.0 32-33 36.651875 37.0 37.0 40.0 33.0 40.0 34-35 36.548625 37.0 37.0 40.0 33.0 40.0 36-37 36.40112499999999 37.0 37.0 40.0 33.0 40.0 38-39 36.32125 37.0 37.0 40.0 33.0 40.0 40-41 36.11125 37.0 37.0 40.0 33.0 40.0 42-43 36.119375 37.0 37.0 40.0 33.0 40.0 44-45 36.122875 37.0 37.0 40.0 33.0 40.0 46-47 36.0015 37.0 37.0 38.5 33.0 40.0 48-49 35.9225 37.0 37.0 37.0 33.0 40.0 50-51 35.7735 37.0 35.0 37.0 33.0 40.0 52-53 35.482875 37.0 33.0 37.0 33.0 40.0 54-55 35.374125 37.0 33.0 37.0 33.0 40.0 56-57 35.220875 37.0 33.0 37.0 33.0 38.5 58-59 34.24625 37.0 33.0 37.0 27.0 37.0 60-61 34.6905 37.0 33.0 37.0 30.0 37.0 62-63 34.577875 37.0 33.0 37.0 27.0 37.0 64-65 34.552625 37.0 33.0 37.0 33.0 37.0 66-67 34.4975 37.0 33.0 37.0 33.0 37.0 68-69 33.744749999999996 35.0 33.0 37.0 30.0 37.0 70-71 33.79079396984925 35.0 33.0 37.0 27.0 37.0 72-73 34.28196720207126 37.0 33.0 37.0 27.0 37.0 74-75 34.19124828268174 37.0 33.0 37.0 27.0 37.0 76-77 34.05367344097073 37.0 33.0 37.0 27.0 37.0 78-79 34.012133346977905 37.0 33.0 37.0 27.0 37.0 80-81 33.83097768969062 37.0 33.0 37.0 27.0 37.0 82-83 33.820053485706666 37.0 33.0 37.0 27.0 37.0 84-85 33.46700211489626 35.0 33.0 37.0 27.0 37.0 86-87 33.26702412868633 35.0 33.0 37.0 27.0 37.0 88-89 33.492761394101876 37.0 33.0 37.0 27.0 37.0 90-91 33.29048257372654 33.0 33.0 37.0 27.0 37.0 92-93 33.22721179624665 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 7.0 21 9.0 22 20.0 23 21.0 24 26.0 25 25.0 26 34.0 27 32.0 28 54.0 29 70.0 30 87.0 31 114.0 32 148.0 33 189.0 34 267.0 35 489.0 36 872.0 37 979.0 38 543.0 39 14.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 89.64999999999999 2.875 2.675 4.8 2 72.85000000000001 15.6 7.3 4.25 3 36.3 38.925 13.950000000000001 10.825 4 33.7 28.775000000000002 17.75 19.775000000000002 5 23.95 31.75 26.525 17.775 6 20.200000000000003 38.0 24.65 17.150000000000002 7 35.425000000000004 28.925 19.725 15.925 8 30.325000000000003 29.425 24.025 16.225 9 26.700000000000003 28.475 27.375 17.45 10-11 25.124999999999996 28.9125 27.9375 18.025 12-13 26.974999999999998 26.887499999999996 27.9125 18.224999999999998 14-15 22.35 30.012499999999996 28.7375 18.9 16-17 23.7375 30.925000000000004 26.1125 19.225 18-19 23.9875 26.375 28.3125 21.325 20-21 25.0375 25.775 28.537499999999998 20.65 22-23 26.5625 23.4875 28.050000000000004 21.9 24-25 25.4 24.587500000000002 28.65 21.3625 26-27 24.25 26.025 30.4 19.325 28-29 25.4625 27.650000000000002 27.8875 19.0 30-31 26.724999999999998 25.324999999999996 27.6 20.349999999999998 32-33 24.4875 26.8625 28.175 20.474999999999998 34-35 24.8125 25.7875 28.375 21.025 36-37 23.75 24.462500000000002 29.4375 22.35 38-39 25.481852315394242 25.344180225281605 30.888610763454317 18.285356695869837 40-41 26.057042782086565 24.893670252689517 27.645734300725543 21.403552664498374 42-43 23.76547068383548 29.141142642830353 27.028378547318415 20.06500812601575 44-45 23.6125 26.687499999999996 30.062499999999996 19.6375 46-47 23.625 25.5 28.125 22.75 48-49 23.7875 24.5375 31.637500000000003 20.0375 50-51 23.6125 27.5125 28.9 19.975 52-53 25.272385723231057 27.22604884157796 27.551659361302445 19.949906073888542 54-55 22.925 28.462500000000002 29.562500000000004 19.05 56-57 24.765595699462434 25.428178522315285 29.203650456307038 20.60257532191524 58-59 24.575 24.9375 29.475 21.0125 60-61 25.0125 25.25 30.3875 19.35 62-63 21.625 28.7 31.525 18.15 64-65 23.325000000000003 28.549999999999997 28.749999999999996 19.375 66-67 24.6 28.15 28.712500000000002 18.5375 68-69 23.575 27.875 27.712500000000002 20.837500000000002 70-71 25.17543859649123 26.604010025062657 27.368421052631582 20.852130325814535 72-73 25.91185410334346 25.506585612968593 28.508105369807495 20.073454913880447 74-75 23.25076608784474 26.698161389172625 28.932584269662918 21.118488253319715 76-77 23.265095918630102 26.908716364104546 29.226213467233165 20.599974250032187 78-79 23.417228853139598 25.67462376751427 31.097560975609756 19.810586403736377 80-81 23.578726748755567 29.630599947602832 29.2376211684569 17.5530521351847 82-83 23.217356793226617 25.955814261145655 30.109802883979363 20.717026061648365 84-85 24.060954417858575 24.060954417858575 30.87822483625184 20.99986632803101 86-87 23.632707774798927 26.715817694369974 30.40214477211796 19.249329758713138 88-89 21.72922252010724 29.101876675603215 29.785522788203757 19.383378016085793 90-91 25.49597855227882 27.64075067024129 28.55227882037534 18.31099195710456 92-93 21.58176943699732 30.361930294906163 29.329758713136727 18.726541554959788 >>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 4.0 18 5.5 19 2.5 20 1.5 21 2.5 22 3.0 23 3.5 24 4.0 25 4.5 26 9.5 27 16.0 28 22.5 29 25.0 30 33.0 31 45.0 32 54.0 33 68.0 34 87.0 35 108.5 36 137.0 37 159.0 38 177.5 39 189.5 40 201.5 41 211.0 42 215.0 43 222.0 44 210.5 45 196.0 46 210.0 47 194.5 48 151.5 49 153.0 50 154.5 51 137.5 52 126.0 53 137.5 54 133.0 55 84.5 56 62.0 57 69.0 58 63.0 59 43.5 60 30.0 61 33.0 62 32.5 63 27.5 64 23.0 65 18.5 66 17.5 67 18.0 68 15.5 69 12.0 70 7.5 71 4.0 72 4.5 73 4.0 74 2.5 75 1.5 76 0.5 77 0.5 78 0.5 79 1.0 80 1.0 81 0.0 82 0.0 83 0.5 84 0.5 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 0.125 40-41 0.075 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.1875 54-55 0.0 56-57 0.0125 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 20.0 71 25.0 72 14.0 73 15.0 74 20.0 75 14.0 76 17.0 77 15.0 78 12.0 79 22.0 80 18.0 81 21.0 82 15.0 83 21.0 84 21.0 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 3730.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 82.475 #Duplication Level Percentage of deduplicated Percentage of total 1 93.69505910882086 77.275 2 3.7587147620491055 6.2 3 0.8790542588663232 2.175 4 0.5153076689906032 1.7000000000000002 5 0.2121855107608366 0.8750000000000001 6 0.12124886329190664 0.6 7 0.1515610791148833 0.8750000000000001 8 0.06062443164595332 0.4 9 0.03031221582297666 0.22499999999999998 >10 0.5456198848135798 8.325000000000001 >50 0.03031221582297666 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 GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 54 1.35 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 39 0.975 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 29 0.7250000000000001 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 27 0.675 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 26 0.65 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 22 0.5499999999999999 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 21 0.525 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 19 0.475 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 18 0.44999999999999996 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 18 0.44999999999999996 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 15 0.375 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 15 0.375 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 14 0.35000000000000003 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 13 0.325 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 12 0.3 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 11 0.27499999999999997 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 11 0.27499999999999997 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 10 0.25 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 9 0.22499999999999998 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 8 0.2 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 8 0.2 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 7 0.17500000000000002 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 7 0.17500000000000002 No Hit GGGCTCGAGGAGCATATGTACATTTGAACCCTGACTACACATATACACAC 7 0.17500000000000002 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 7 0.17500000000000002 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 7 0.17500000000000002 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 6 0.15 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 6 0.15 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 6 0.15 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 5 0.125 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 5 0.125 No Hit GGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAA 5 0.125 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 5 0.125 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 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 0.025 0.0 0.0 0.0 0.0 2 0.05 0.0 0.0 0.0 0.0 3 0.05 0.0 0.0 0.0 0.0 4 0.05 0.0 0.0 0.0 0.0 5 0.05 0.0 0.0 0.0 0.0 6 0.05 0.0 0.0 0.0 0.0 7 0.05 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 0.075 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 pass >>END_MODULE Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71669 READS because READLEN < 1 Read 71669 spots for ERR6133488.sra Written 71669 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra Rejected 71650 READS because READLEN < 1 Read 71650 spots for ERR6133488.sra Written 71650 spots for ERR6133488.sra SRR ids: ['ERR6133488.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_fwbrwqcz ERR6133488.sra spots: 1433019 blocks: [[1, 71650], [71651, 143300], [143301, 214950], [214951, 286600], [286601, 358250], [358251, 429900], [429901, 501550], [501551, 573200], [573201, 644850], [644851, 716500], [716501, 788150], [788151, 859800], [859801, 931450], [931451, 1003100], [1003101, 1074750], [1074751, 1146400], [1146401, 1218050], [1218051, 1289700], [1289701, 1361350], [1361351, 1433019]] ERR6133488 file size 313700 ERR6133488 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 ERR6133488 ERR6133488_1.fastq Input file: ERR6133488_1.fastq trimmed: ERR6133488-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 07:08:30 2024 >> started Sat Dec 7 07:08:31 2024 >> done (0.959s) 1433019 reads processed; of these: 102 ( 0.01%) short reads filtered out after trimming by size control 17 ( 0.00%) empty reads filtered out after trimming by size control 1432900 (99.99%) reads available; of these: 24488 ( 1.71%) trimmed reads available after processing 1408412 (98.29%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 18 0.00% 19 29 0.00% 20 18 0.00% 21 17 0.00% 22 27 0.00% 23 6 0.00% 24 3 0.00% 25 3 0.00% 26 4 0.00% 27 4 0.00% 28 14 0.00% 29 26 0.00% 30 6 0.00% 31 13 0.00% 32 17 0.00% 33 6 0.00% 34 12 0.00% 35 55 0.00% 36 261 0.02% 37 12 0.00% 38 17 0.00% 39 46 0.00% 40 47 0.00% 41 20 0.00% 42 9 0.00% 43 10 0.00% 44 18 0.00% 45 4 0.00% 46 6 0.00% 47 6 0.00% 48 1 0.00% 49 5 0.00% 50 7 0.00% 51 33 0.00% 52 8 0.00% 53 4 0.00% 54 1 0.00% 55 4 0.00% 56 6 0.00% 57 10 0.00% 58 6 0.00% 59 4 0.00% 60 6 0.00% 61 5 0.00% 62 0 0.00% 63 1 0.00% 64 1 0.00% 65 2 0.00% 66 3 0.00% 67 5 0.00% 68 18 0.00% 69 55 0.00% 70 6884 0.48% 71 6568 0.46% 72 7008 0.49% 73 6105 0.43% 74 6442 0.45% 75 6531 0.46% 76 5633 0.39% 77 6055 0.42% 78 6804 0.47% 79 7850 0.55% 80 6880 0.48% 81 7532 0.53% 82 8253 0.58% 83 8773 0.61% 84 7104 0.50% 85 44 0.00% 86 109 0.01% 87 130 0.01% 88 276 0.02% 89 484 0.03% 90 1096 0.08% 91 3420 0.24% 92 16368 1.14% 93 1305632 91.12% 1432900 reads passed initial QC criterion=sequence-density sequence-density=0.76 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=33 prefix-density=0.76 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.02 sequence-density-rank=33 fanout-score=171.58 fanout-score-rank=1 prefix-density=0.48 prefix-fanout=5.9 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTT Started job on | Dec 07 07:08:42 Started mapping on | Dec 07 07:08:42 Finished on | Dec 07 07:08:46 Mapping speed, Million of reads per hour | 1289.61 Number of input reads | 1432900 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 1053514 Uniquely mapped reads % | 73.52% Average mapped length | 91.41 Number of splices: Total | 46083 Number of splices: Annotated (sjdb) | 39184 Number of splices: GT/AG | 44497 Number of splices: GC/AG | 1293 Number of splices: AT/AC | 16 Number of splices: Non-canonical | 277 Mismatch rate per base, % | 0.29% Deletion rate per base | 0.02% Deletion average length | 1.46 Insertion rate per base | 0.00% Insertion average length | 1.48 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 345094 % of reads mapped to multiple loci | 24.08% Number of reads mapped to too many loci | 13184 % of reads mapped to too many loci | 0.92% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.41% % of reads unmapped: other | 0.06% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 34292 34292 34292 N_multimapping 345094 345094 345094 N_noFeature 65084 74891 1005329 N_ambiguous 43117 4675 161 UnstrandedReadsAssigned:945313 PositiveStrandReadsAssigned:973948 NegativeStrandReadsAssigned:48024 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133488 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: ERR6133488-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 1,432,900 reads, 1,196,386 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 940 rounds 52973 ERR6133488.ke.tsv 35125 ERR6133488.se.tsv 88098 total ==> ERR6133488.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 16 13.3087 PNS24243 293 194 0 0 KQK14069 1603 1504 23 17.4522 KQK14071 474 375 0 0 ==> ERR6133488.se.tsv <== BRADI_1g14170v3 23 BRADI_1g53295v3 26 BRADI_1g59795v3 9 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 15 BRADI_1g74790v3 11 BRADI_1g09890v3 0 BRADI_1g77505v3 30 BRADI_1g48960v3 0 ERR6133488 completed mapping pipeline successfully