Starting /dee2/code/volunteer_pipeline.sh ERR6133438 current disk space = 1546016247808 free memory = 1600476788 ERR6133438 SRAfilesize 73b07d50496eb1396d7ae92df70259cb ERR6133438.sra ERR6133438.sra file validated ERR6133438 is single end ERR6133438 is conventional basespace ERR6133438 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133438_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 35.243 37.0 33.0 37.0 33.0 37.0 2 36.42075 37.0 37.0 37.0 37.0 37.0 3 35.73175 37.0 37.0 37.0 33.0 37.0 4 35.46375 37.0 37.0 37.0 33.0 37.0 5 35.39875 37.0 37.0 37.0 33.0 37.0 6 35.62975 37.0 37.0 37.0 33.0 37.0 7 37.36475 37.0 37.0 40.0 33.0 40.0 8 37.376 37.0 37.0 40.0 33.0 40.0 9 37.43475 37.0 37.0 40.0 33.0 40.0 10-11 37.390125 37.0 37.0 40.0 33.0 40.0 12-13 37.253 37.0 37.0 40.0 33.0 40.0 14-15 37.275875 37.0 37.0 40.0 33.0 40.0 16-17 37.260125 37.0 37.0 40.0 33.0 40.0 18-19 37.408125 37.0 37.0 40.0 33.0 40.0 20-21 37.554249999999996 37.0 37.0 40.0 33.0 40.0 22-23 37.491375000000005 37.0 37.0 40.0 33.0 40.0 24-25 37.451499999999996 37.0 37.0 40.0 33.0 40.0 26-27 37.259125 37.0 37.0 40.0 33.0 40.0 28-29 37.323125000000005 37.0 37.0 40.0 33.0 40.0 30-31 37.28225 37.0 37.0 40.0 33.0 40.0 32-33 37.21225 37.0 37.0 40.0 33.0 40.0 34-35 37.01675 37.0 37.0 40.0 33.0 40.0 36-37 37.075375 37.0 37.0 40.0 33.0 40.0 38-39 36.907375 37.0 37.0 40.0 33.0 40.0 40-41 36.798 37.0 37.0 40.0 33.0 40.0 42-43 36.661249999999995 37.0 37.0 40.0 33.0 40.0 44-45 36.3745 37.0 37.0 40.0 33.0 40.0 46-47 36.40925 37.0 37.0 40.0 33.0 40.0 48-49 36.26112500000001 37.0 37.0 37.0 33.0 40.0 50-51 36.0035 37.0 37.0 37.0 33.0 40.0 52-53 35.793625 37.0 35.0 37.0 33.0 40.0 54-55 35.70475 37.0 33.0 37.0 33.0 40.0 56-57 35.658625 37.0 33.0 37.0 33.0 38.5 58-59 35.109625 37.0 33.0 37.0 33.0 37.0 60-61 34.96775 37.0 33.0 37.0 33.0 37.0 62-63 34.94925 37.0 33.0 37.0 33.0 37.0 64-65 34.507999999999996 37.0 33.0 37.0 30.0 37.0 66-67 34.433125000000004 37.0 33.0 37.0 30.0 37.0 68-69 33.256 35.0 33.0 35.0 30.0 37.0 70-71 33.557301835379604 35.0 33.0 37.0 27.0 37.0 72-73 34.281605270772445 37.0 33.0 37.0 30.0 37.0 74-75 34.56188810436599 37.0 33.0 37.0 33.0 37.0 76-77 34.41429435308209 37.0 33.0 37.0 33.0 37.0 78-79 34.382523228261235 37.0 33.0 37.0 33.0 37.0 80-81 34.30073658057487 37.0 33.0 37.0 33.0 37.0 82-83 33.97716560607954 37.0 33.0 37.0 30.0 37.0 84-85 33.9555588169041 37.0 33.0 37.0 27.0 37.0 86-87 34.04489528795811 37.0 33.0 37.0 30.0 37.0 88-89 34.14057591623036 37.0 33.0 37.0 33.0 37.0 90-91 33.77761780104712 37.0 33.0 37.0 27.0 37.0 92-93 33.715314136125656 35.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 6.0 21 7.0 22 11.0 23 13.0 24 11.0 25 16.0 26 37.0 27 41.0 28 41.0 29 52.0 30 61.0 31 86.0 32 129.0 33 160.0 34 236.0 35 486.0 36 931.0 37 1108.0 38 563.0 39 5.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 87.375 2.875 2.85 6.9 2 70.2377972465582 17.496871088861077 7.559449311639549 4.705882352941177 3 36.85 38.35 14.95 9.85 4 34.725 28.475 18.325 18.475 5 25.775 30.825000000000003 24.825 18.575 6 21.075 36.199999999999996 25.75 16.975 7 36.35 28.349999999999998 19.25 16.05 8 30.599999999999998 31.0 22.825 15.575 9 26.25 28.050000000000004 27.775 17.925 10-11 25.1 28.749999999999996 27.525 18.625 12-13 27.5875 25.85 29.275000000000002 17.2875 14-15 22.6 28.575 29.562500000000004 19.2625 16-17 23.625 31.3125 26.8125 18.25 18-19 23.8875 26.200000000000003 27.825 22.0875 20-21 25.0375 25.724999999999998 28.7 20.5375 22-23 26.0 24.4 28.487499999999997 21.1125 24-25 26.1 22.975 29.5375 21.3875 26-27 24.8125 25.0 31.612499999999997 18.575 28-29 24.962500000000002 26.35 28.425 20.2625 30-31 26.150000000000002 25.75 27.6125 20.4875 32-33 23.1875 27.0 29.037499999999998 20.775 34-35 23.8375 25.662499999999998 29.175 21.325 36-37 23.425 24.175 29.675 22.725 38-39 25.75 24.337500000000002 30.15 19.7625 40-41 26.7125 23.7375 28.3125 21.2375 42-43 24.325 27.35 28.15 20.175 44-45 23.0375 25.5125 30.162499999999998 21.2875 46-47 23.7625 24.887500000000003 28.287499999999998 23.0625 48-49 24.45 24.175 31.45 19.925 50-51 24.975 25.4375 30.1875 19.400000000000002 52-53 24.925 27.237499999999997 28.012500000000003 19.825 54-55 24.325 28.175 29.2 18.3 56-57 24.5125 26.0 29.95 19.537499999999998 58-59 23.674999999999997 25.7375 29.25 21.337500000000002 60-61 24.0 25.7375 29.45 20.8125 62-63 23.0375 27.287499999999998 31.2375 18.4375 64-65 23.400000000000002 26.7625 29.912499999999998 19.925 66-67 23.775 27.3125 28.599999999999998 20.3125 68-69 23.075000000000003 26.9125 28.4375 21.575 70-71 25.453635339757223 23.901889625829057 29.408084094606433 21.236390939807283 72-73 25.486992585145156 25.424154832223202 29.19442000754053 19.894432575091116 74-75 22.64676113360324 27.201417004048583 29.972165991902834 20.179655870445345 76-77 22.51208959022652 25.731738355815732 30.38941206413846 21.366759989819293 78-79 23.162612035851474 24.571062740076822 31.997439180537775 20.268886043533932 80-81 23.735358475994335 27.558244304286266 29.746428111726093 18.959969107993306 82-83 22.94933264221848 25.77426461059997 31.696255021381365 19.58014772580018 84-85 23.520188161505292 23.637789102312816 31.817587874036324 21.024434862145565 86-87 22.42146596858639 26.086387434554975 32.74869109947644 18.7434554973822 88-89 21.19109947643979 28.1282722513089 31.2696335078534 19.410994764397905 90-91 25.091623036649214 27.382198952879584 28.494764397905758 19.031413612565444 92-93 22.198952879581153 28.664921465968586 30.0 19.13612565445026 >>END_MODULE >>Per sequence GC content pass #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 0.5 16 0.5 17 3.0 18 4.0 19 1.5 20 0.5 21 3.0 22 3.5 23 3.5 24 6.5 25 6.0 26 7.5 27 9.5 28 19.0 29 31.0 30 32.5 31 40.5 32 61.0 33 73.0 34 84.5 35 107.5 36 129.5 37 155.5 38 178.5 39 177.5 40 189.0 41 194.5 42 197.5 43 213.5 44 204.0 45 194.0 46 212.0 47 210.0 48 172.5 49 164.5 50 159.0 51 135.0 52 120.5 53 124.0 54 118.0 55 84.5 56 62.0 57 60.5 58 64.0 59 54.5 60 41.0 61 33.5 62 29.5 63 32.0 64 31.5 65 29.0 66 21.5 67 16.0 68 13.0 69 8.0 70 4.0 71 2.0 72 1.5 73 1.0 74 1.0 75 1.5 76 1.0 77 0.0 78 0.5 79 0.5 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 0.02612671456564337 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 9.0 71 6.0 72 13.0 73 14.0 74 12.0 75 11.0 76 12.0 77 12.0 78 12.0 79 10.0 80 9.0 81 15.0 82 13.0 83 17.0 84 15.0 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 3820.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 83.39999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 93.28537170263789 77.8 2 3.776978417266187 6.3 3 1.1091127098321343 2.775 4 0.6594724220623501 2.1999999999999997 5 0.2997601918465228 1.25 6 0.1498800959232614 0.75 7 0.08992805755395684 0.525 8 0.1199040767386091 0.8 9 0.1199040767386091 0.8999999999999999 >10 0.38968824940047964 6.7 >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 GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 38 0.95 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 35 0.8750000000000001 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 30 0.75 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 24 0.6 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 20 0.5 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 19 0.475 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 19 0.475 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 17 0.42500000000000004 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 16 0.4 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 14 0.35000000000000003 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 13 0.325 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 12 0.3 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 11 0.27499999999999997 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 9 0.22499999999999998 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 9 0.22499999999999998 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 9 0.22499999999999998 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 9 0.22499999999999998 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 8 0.2 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 8 0.2 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 8 0.2 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 8 0.2 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 7 0.17500000000000002 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 7 0.17500000000000002 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 7 0.17500000000000002 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 6 0.15 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 6 0.15 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 6 0.15 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 6 0.15 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 6 0.15 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 5 0.125 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 5 0.125 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 5 0.125 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 5 0.125 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 5 0.125 No Hit GGACATCAGAAAGTATACTGTGTTTTACCACCCTAATTAAGTAAACAACT 5 0.125 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 5 0.125 No Hit GGGTGTGAGCTGGAGAGACGATCGGGTCTCTCAGCCGGCGTCTTCATCAG 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 0.0 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 0.0125 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.025 0.0 0.0 0.0 0.0 16-17 0.025 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 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 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 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312656 READS because READLEN < 1 Read 312656 spots for ERR6133438.sra Written 312656 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra Rejected 312645 READS because READLEN < 1 Read 312645 spots for ERR6133438.sra Written 312645 spots for ERR6133438.sra SRR ids: ['ERR6133438.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_u6ua8sbc ERR6133438.sra spots: 6252911 blocks: [[1, 312645], [312646, 625290], [625291, 937935], [937936, 1250580], [1250581, 1563225], [1563226, 1875870], [1875871, 2188515], [2188516, 2501160], [2501161, 2813805], [2813806, 3126450], [3126451, 3439095], [3439096, 3751740], [3751741, 4064385], [4064386, 4377030], [4377031, 4689675], [4689676, 5002320], [5002321, 5314965], [5314966, 5627610], [5627611, 5940255], [5940256, 6252911]] ERR6133438 file size 1380464 ERR6133438 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 ERR6133438 ERR6133438_1.fastq Input file: ERR6133438_1.fastq trimmed: ERR6133438-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 05:39:39 2024 >> started Sat Dec 7 05:39:42 2024 >> done (2.959s) 6252911 reads processed; of these: 2318 ( 0.04%) short reads filtered out after trimming by size control 22 ( 0.00%) empty reads filtered out after trimming by size control 6250571 (99.96%) reads available; of these: 82196 ( 1.32%) trimmed reads available after processing 6168375 (98.68%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 63 0.00% 19 76 0.00% 20 35 0.00% 21 34 0.00% 22 36 0.00% 23 22 0.00% 24 21 0.00% 25 16 0.00% 26 15 0.00% 27 18 0.00% 28 22 0.00% 29 25 0.00% 30 13 0.00% 31 17 0.00% 32 36 0.00% 33 12 0.00% 34 10 0.00% 35 15 0.00% 36 8 0.00% 37 16 0.00% 38 34 0.00% 39 56 0.00% 40 120 0.00% 41 51 0.00% 42 41 0.00% 43 119 0.00% 44 38 0.00% 45 29 0.00% 46 29 0.00% 47 34 0.00% 48 30 0.00% 49 41 0.00% 50 33 0.00% 51 73 0.00% 52 39 0.00% 53 39 0.00% 54 39 0.00% 55 33 0.00% 56 22 0.00% 57 35 0.00% 58 22 0.00% 59 24 0.00% 60 22 0.00% 61 27 0.00% 62 4 0.00% 63 8 0.00% 64 5 0.00% 65 8 0.00% 66 16 0.00% 67 31 0.00% 68 76 0.00% 69 204 0.00% 70 19365 0.31% 71 19072 0.31% 72 20552 0.33% 73 18983 0.30% 74 19939 0.32% 75 20053 0.32% 76 17906 0.29% 77 17872 0.29% 78 20770 0.33% 79 22978 0.37% 80 20817 0.33% 81 21973 0.35% 82 23513 0.38% 83 27095 0.43% 84 21505 0.34% 85 164 0.00% 86 327 0.01% 87 532 0.01% 88 971 0.02% 89 2028 0.03% 90 4486 0.07% 91 13203 0.21% 92 55027 0.88% 93 5859548 93.74% 6250571 reads passed initial QC criterion=sequence-density sequence-density=0.55 sequence-density-rank=1 fanout-score=5.25 fanout-score-rank=21 prefix-density=0.76 prefix-fanout=3.8 sequence=ATGCATGCATGC criterion=fanout-score sequence-density=0.02 sequence-density-rank=28 fanout-score=220.11 fanout-score-rank=1 prefix-density=0.57 prefix-fanout=8.6 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTT Started job on | Dec 07 05:39:56 Started mapping on | Dec 07 05:39:56 Finished on | Dec 07 05:40:03 Mapping speed, Million of reads per hour | 3214.58 Number of input reads | 6250571 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 4716318 Uniquely mapped reads % | 75.45% Average mapped length | 91.69 Number of splices: Total | 219172 Number of splices: Annotated (sjdb) | 179043 Number of splices: GT/AG | 207057 Number of splices: GC/AG | 5331 Number of splices: AT/AC | 69 Number of splices: Non-canonical | 6715 Mismatch rate per base, % | 0.50% Deletion rate per base | 0.05% Deletion average length | 1.87 Insertion rate per base | 0.02% Insertion average length | 1.74 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1398090 % of reads mapped to multiple loci | 22.37% Number of reads mapped to too many loci | 31741 % of reads mapped to too many loci | 0.51% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.63% % of reads unmapped: other | 0.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 136163 136163 136163 N_multimapping 1398090 1398090 1398090 N_noFeature 304099 346151 4498316 N_ambiguous 195371 19560 743 UnstrandedReadsAssigned:4216848 PositiveStrandReadsAssigned:4350607 NegativeStrandReadsAssigned:217259 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133438 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: ERR6133438-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 6,250,571 reads, 5,294,224 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,145 rounds 52973 ERR6133438.ke.tsv 35125 ERR6133438.se.tsv 88098 total ==> ERR6133438.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 169 31.2501 PNS24243 293 194 0 0 KQK14069 1603 1504 118 19.9046 KQK14071 474 375 0 0 ==> ERR6133438.se.tsv <== BRADI_1g14170v3 118 BRADI_1g53295v3 209 BRADI_1g59795v3 55 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 98 BRADI_1g74790v3 35 BRADI_1g09890v3 0 BRADI_1g77505v3 114 BRADI_1g48960v3 0 ERR6133438 completed mapping pipeline successfully