Starting /dee2/code/volunteer_pipeline.sh ERR6133319 current disk space = 1548242210816 free memory = 1381407704 ERR6133319 SRAfilesize 29768db1bfd9fcb709758bf810b90c11 ERR6133319.sra ERR6133319.sra file validated ERR6133319 is single end ERR6133319 is conventional basespace ERR6133319 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133319_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 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.27325 37.0 33.0 37.0 33.0 37.0 2 36.4735 37.0 37.0 37.0 37.0 37.0 3 36.08 37.0 37.0 37.0 33.0 37.0 4 35.5655 37.0 37.0 37.0 33.0 37.0 5 35.605 37.0 37.0 37.0 33.0 37.0 6 35.89875 37.0 37.0 37.0 33.0 37.0 7 37.8015 40.0 37.0 40.0 33.0 40.0 8 37.79525 40.0 37.0 40.0 33.0 40.0 9 37.84475 40.0 37.0 40.0 33.0 40.0 10-11 37.778375 40.0 37.0 40.0 33.0 40.0 12-13 37.773250000000004 40.0 37.0 40.0 33.0 40.0 14-15 37.7175 40.0 37.0 40.0 33.0 40.0 16-17 37.632125 40.0 37.0 40.0 33.0 40.0 18-19 37.536375 40.0 37.0 40.0 33.0 40.0 20-21 37.372875 37.0 37.0 40.0 33.0 40.0 22-23 37.309 37.0 37.0 40.0 33.0 40.0 24-25 37.422875000000005 38.5 37.0 40.0 33.0 40.0 26-27 37.350625 37.0 37.0 40.0 33.0 40.0 28-29 37.21875 37.0 37.0 40.0 33.0 40.0 30-31 37.239875 37.0 37.0 40.0 33.0 40.0 32-33 37.1195 37.0 37.0 40.0 33.0 40.0 34-35 36.9975 37.0 37.0 40.0 33.0 40.0 36-37 36.829499999999996 37.0 37.0 40.0 33.0 40.0 38-39 36.7665 37.0 37.0 40.0 33.0 40.0 40-41 36.556375 37.0 37.0 40.0 33.0 40.0 42-43 36.197 37.0 37.0 40.0 33.0 40.0 44-45 35.927499999999995 37.0 35.0 40.0 33.0 40.0 46-47 35.623999999999995 37.0 33.0 40.0 33.0 40.0 48-49 35.5935 37.0 33.0 38.5 33.0 40.0 50-51 35.476749999999996 37.0 33.0 37.0 33.0 40.0 52-53 35.23925 37.0 33.0 37.0 30.0 40.0 54-55 35.133624999999995 37.0 33.0 37.0 30.0 40.0 56-57 34.8505 37.0 33.0 37.0 27.0 40.0 58-59 32.45225 33.0 30.0 37.0 24.5 37.0 60-61 33.978875 37.0 33.0 37.0 27.0 37.0 62-63 34.275499999999994 37.0 33.0 37.0 27.0 37.0 64-65 34.051375 37.0 33.0 37.0 27.0 37.0 66-67 33.802499999999995 37.0 33.0 37.0 27.0 37.0 68-69 33.232 35.0 33.0 37.0 27.0 37.0 70-71 33.397613430583505 35.0 33.0 37.0 27.0 37.0 72-73 33.602805086643215 37.0 33.0 37.0 27.0 37.0 74-75 33.67566319643157 37.0 33.0 37.0 27.0 37.0 76-77 33.77144723736643 37.0 33.0 37.0 27.0 37.0 78-79 33.614910655308776 37.0 33.0 37.0 27.0 37.0 80-81 33.52223398324139 37.0 33.0 37.0 27.0 37.0 82-83 33.19889508804981 37.0 33.0 37.0 27.0 37.0 84-85 33.228884822689395 37.0 33.0 37.0 27.0 37.0 86-87 33.12738419618529 37.0 33.0 37.0 27.0 37.0 88-89 33.26866485013624 37.0 33.0 37.0 27.0 37.0 90-91 33.010762942779294 37.0 33.0 37.0 27.0 37.0 92-93 32.98283378746594 35.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 9.0 21 21.0 22 19.0 23 21.0 24 39.0 25 38.0 26 33.0 27 39.0 28 57.0 29 68.0 30 84.0 31 102.0 32 131.0 33 183.0 34 246.0 35 444.0 36 785.0 37 958.0 38 704.0 39 19.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 83.275 3.925 4.625 8.175 2 63.824999999999996 21.625 9.825000000000001 4.725 3 31.55 38.3 17.424999999999997 12.725 4 31.974999999999998 27.200000000000003 21.125 19.7 5 20.974999999999998 30.65 29.4 18.975 6 19.825 36.875 27.875 15.425 7 34.4 27.150000000000002 23.599999999999998 14.85 8 29.725 28.000000000000004 25.7 16.575 9 26.325 25.95 29.325000000000003 18.4 10-11 24.762500000000003 27.525 29.212500000000002 18.5 12-13 25.6125 24.6625 30.7375 18.987499999999997 14-15 21.5375 28.025 30.887500000000003 19.55 16-17 24.925 30.225 27.150000000000002 17.7 18-19 23.9375 26.5875 28.199999999999996 21.275 20-21 24.2875 25.9625 28.7 21.05 22-23 27.075 24.0375 29.212500000000002 19.675 24-25 25.3 25.575 29.512500000000003 19.6125 26-27 26.3125 24.85 30.275000000000002 18.5625 28-29 25.45 26.525 28.012500000000003 20.0125 30-31 25.662499999999998 25.0125 29.4375 19.8875 32-33 23.6125 26.2875 30.025000000000002 20.075000000000003 34-35 24.15 25.775 29.775000000000002 20.3 36-37 24.840605075634453 25.765720715089387 29.828728591073883 19.564945618202277 38-39 25.95648912228057 25.10627656914228 29.794948737184296 19.142285571392847 40-41 24.6125 25.5375 29.3875 20.4625 42-43 24.875 28.000000000000004 28.3125 18.8125 44-45 22.875 27.237499999999997 30.475 19.412499999999998 46-47 23.974999999999998 26.137500000000003 29.612500000000004 20.275000000000002 48-49 23.7625 25.837500000000002 30.099999999999998 20.3 50-51 23.04902451225613 25.975487743871934 30.427713856928463 20.54777388694347 52-53 26.375 26.6 27.325 19.7 54-55 23.35 28.299999999999997 29.4875 18.862499999999997 56-57 24.65 26.1625 30.012499999999996 19.175 58-59 23.8875 26.674999999999997 29.799999999999997 19.6375 60-61 25.0125 24.5625 30.7 19.725 62-63 23.1125 28.4125 31.075000000000003 17.4 64-65 23.150000000000002 28.4125 29.9875 18.45 66-67 23.8375 28.025 29.75 18.387500000000003 68-69 22.9375 26.337500000000002 30.25 20.474999999999998 70-71 23.05667001003009 26.74272818455366 30.15295887662989 20.04764292878636 72-73 25.399442049201117 24.93025615013949 31.334009637331985 18.336292163327418 74-75 22.878749038708023 26.365034606511152 29.902589079723146 20.853627275057676 76-77 22.484134179510427 26.77114363424427 30.060872943919183 20.683849242326126 78-79 25.153294194390085 25.244618395303327 30.658838878016958 18.943248532289626 80-81 23.22938689217759 28.4223044397463 30.391120507399577 17.957188160676534 82-83 23.35032188841202 25.456008583690988 32.711909871244636 18.48175965665236 84-85 23.0696159587461 24.83376306147374 32.69100284977609 19.405618130004072 86-87 21.59400544959128 27.329700272479563 30.940054495912804 20.13623978201635 88-89 21.852861035422343 28.896457765667577 31.103542234332426 18.147138964577657 90-91 23.555858310626704 27.452316076294274 30.449591280653955 18.542234332425068 92-93 23.201634877384198 29.809264305177113 29.223433242506815 17.76566757493188 >>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 0.0 18 0.0 19 0.0 20 1.0 21 1.5 22 2.0 23 5.5 24 8.5 25 7.0 26 12.0 27 15.5 28 16.0 29 21.5 30 35.5 31 58.0 32 79.5 33 90.0 34 99.0 35 126.0 36 151.0 37 180.0 38 197.0 39 194.5 40 207.0 41 218.0 42 210.5 43 202.5 44 196.0 45 210.0 46 220.5 47 198.5 48 174.0 49 154.5 50 163.0 51 147.0 52 111.0 53 114.0 54 113.5 55 75.5 56 52.0 57 58.5 58 49.5 59 29.0 60 17.0 61 24.0 62 20.0 63 10.5 64 16.5 65 19.5 66 14.0 67 9.0 68 7.0 69 5.5 70 5.0 71 5.0 72 7.5 73 7.5 74 4.0 75 2.5 76 1.0 77 0.5 78 0.5 79 0.0 80 0.0 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 0.0125 38-39 0.025 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.05 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 0.0 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 24.0 71 23.0 72 20.0 73 22.0 74 20.0 75 22.0 76 17.0 77 9.0 78 21.0 79 25.0 80 26.0 81 28.0 82 30.0 83 14.0 84 29.0 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 3670.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 84.725 #Duplication Level Percentage of deduplicated Percentage of total 1 94.2165830628504 79.825 2 3.511360283269401 5.949999999999999 3 0.6786662732369431 1.725 4 0.4426084390675715 1.5 5 0.23605783416937148 1.0 6 0.20655060489820007 1.05 7 0.08852168781351431 0.525 8 0.05901445854234287 0.4 9 0.11802891708468574 0.8999999999999999 >10 0.4426084390675715 7.124999999999999 >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 fail #Sequence Count Percentage Possible Source TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 44 1.0999999999999999 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 38 0.95 No Hit GGAGTCCTGAACTAGCTGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 23 0.575 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 21 0.525 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 21 0.525 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 17 0.42500000000000004 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 16 0.4 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 16 0.4 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 15 0.375 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 14 0.35000000000000003 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 14 0.35000000000000003 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCTGC 13 0.325 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 12 0.3 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 11 0.27499999999999997 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 10 0.25 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 9 0.22499999999999998 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 9 0.22499999999999998 No Hit GATCAAATTCGAGTTCGAGCCGGTAGATACTATCGATTAATAGATAAAAC 9 0.22499999999999998 No Hit GGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAG 9 0.22499999999999998 No Hit GGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAG 8 0.2 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 8 0.2 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 7 0.17500000000000002 No Hit CAACATAGGTCATCGAAAAGATCTCGGACGACTCACCAAAGCACGAAAGC 7 0.17500000000000002 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 7 0.17500000000000002 No Hit GGTCTTGATCCCTCTGTGTTTCCCGTGTAACGGCTACTGATCCAGTGGTT 6 0.15 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 6 0.15 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 6 0.15 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAATCCTCTTAACT 6 0.15 No Hit GGACATTTCTTCGAACAAATTCGAATAGTGAGACGCATTAAAACGCAATT 6 0.15 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 6 0.15 No Hit TCAGTGTCGGCCCAGCAGAGTGCTTTCGCCGTTGGTGTTCTTTCCGATCT 6 0.15 No Hit GGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTC 5 0.125 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 5 0.125 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 5 0.125 No Hit GAAGGCGATCAAATTCGAGTTCGAGCCGGTAGATACTATCGATTAATAGA 5 0.125 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 5 0.125 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 5 0.125 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 5 0.125 No Hit GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAAATTCGTTGACAA 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 0.025 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 0.037500000000000006 0.0 0.0 0.0 0.0 60-61 0.0625 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 0.0875 0.0 0.0 0.0 0.0 68-69 0.1 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.175 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.175 0.0 0.0 0.0 0.0 78-79 0.1875 0.0 0.0 0.0125 0.0 80-81 0.2 0.0 0.0 0.025 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269217 READS because READLEN < 1 Read 269217 spots for ERR6133319.sra Written 269217 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra Rejected 269201 READS because READLEN < 1 Read 269201 spots for ERR6133319.sra Written 269201 spots for ERR6133319.sra SRR ids: ['ERR6133319.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_gjspjtjh ERR6133319.sra spots: 5384036 blocks: [[1, 269201], [269202, 538402], [538403, 807603], [807604, 1076804], [1076805, 1346005], [1346006, 1615206], [1615207, 1884407], [1884408, 2153608], [2153609, 2422809], [2422810, 2692010], [2692011, 2961211], [2961212, 3230412], [3230413, 3499613], [3499614, 3768814], [3768815, 4038015], [4038016, 4307216], [4307217, 4576417], [4576418, 4845618], [4845619, 5114819], [5114820, 5384036]] ERR6133319 file size 1183050 ERR6133319 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 ERR6133319 ERR6133319_1.fastq Input file: ERR6133319_1.fastq trimmed: ERR6133319-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 00:32:45 2024 >> started Sat Dec 7 00:32:48 2024 >> done (3.178s) 5384036 reads processed; of these: 576 ( 0.01%) short reads filtered out after trimming by size control 72 ( 0.00%) empty reads filtered out after trimming by size control 5383388 (99.99%) reads available; of these: 83637 ( 1.55%) trimmed reads available after processing 5299751 (98.45%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 67 0.00% 19 211 0.00% 20 94 0.00% 21 134 0.00% 22 144 0.00% 23 41 0.00% 24 55 0.00% 25 31 0.00% 26 36 0.00% 27 47 0.00% 28 128 0.00% 29 98 0.00% 30 86 0.00% 31 128 0.00% 32 154 0.00% 33 49 0.00% 34 59 0.00% 35 393 0.01% 36 623 0.01% 37 80 0.00% 38 136 0.00% 39 605 0.01% 40 391 0.01% 41 185 0.00% 42 34 0.00% 43 46 0.00% 44 61 0.00% 45 42 0.00% 46 31 0.00% 47 24 0.00% 48 28 0.00% 49 28 0.00% 50 37 0.00% 51 210 0.00% 52 45 0.00% 53 32 0.00% 54 29 0.00% 55 27 0.00% 56 42 0.00% 57 52 0.00% 58 66 0.00% 59 38 0.00% 60 84 0.00% 61 37 0.00% 62 7 0.00% 63 6 0.00% 64 12 0.00% 65 17 0.00% 66 15 0.00% 67 38 0.00% 68 59 0.00% 69 286 0.01% 70 30637 0.57% 71 27315 0.51% 72 28302 0.53% 73 25968 0.48% 74 26969 0.50% 75 25635 0.48% 76 25487 0.47% 77 26414 0.49% 78 27322 0.51% 79 28904 0.54% 80 34003 0.63% 81 35861 0.67% 82 36472 0.68% 83 31507 0.59% 84 32510 0.60% 85 276 0.01% 86 433 0.01% 87 761 0.01% 88 1334 0.02% 89 2289 0.04% 90 4589 0.09% 91 14075 0.26% 92 49859 0.93% 93 4861058 90.30% 5383388 reads passed initial QC criterion=sequence-density sequence-density=0.57 sequence-density-rank=1 fanout-score=5.40 fanout-score-rank=16 prefix-density=1.72 prefix-fanout=1.8 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.05 sequence-density-rank=26 fanout-score=87.83 fanout-score-rank=1 prefix-density=0.53 prefix-fanout=8.6 sequence=GAAGAAGAATGTTGGTGAAATCAATTTGCTTTTTTTTTGGGGAATGGACTGGATGATGGTATGTGATTGTGGAGCAATGCATGCTTGTTGGATGTGTACTTGTACTATGGTGTAACCAATGTAAAAAA Started job on | Dec 07 00:34:18 Started mapping on | Dec 07 00:34:19 Finished on | Dec 07 00:34:42 Mapping speed, Million of reads per hour | 842.56 Number of input reads | 5383016 Average input read length | 71 UNIQUE READS: Uniquely mapped reads number | 3038931 Uniquely mapped reads % | 56.45% Average mapped length | 70.21 Number of splices: Total | 76465 Number of splices: Annotated (sjdb) | 54795 Number of splices: GT/AG | 71025 Number of splices: GC/AG | 1628 Number of splices: AT/AC | 92 Number of splices: Non-canonical | 3720 Mismatch rate per base, % | 1.97% Deletion rate per base | 0.16% Deletion average length | 1.99 Insertion rate per base | 0.10% Insertion average length | 1.76 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1250226 % of reads mapped to multiple loci | 23.23% Number of reads mapped to too many loci | 190731 % of reads mapped to too many loci | 3.54% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 16.56% % of reads unmapped: other | 0.22% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1093859 1093859 1093859 N_multimapping 1250226 1250226 1250226 N_noFeature 226722 254705 2899979 N_ambiguous 124270 13386 258 UnstrandedReadsAssigned:2687939 PositiveStrandReadsAssigned:2770840 NegativeStrandReadsAssigned:138694 Dataset is classified positive stranded MeadianReadLen=73 20thPercentileLength=73 echo kmer=69 ERR6133319 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: ERR6133319-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,383,016 reads, 3,071,016 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,095 rounds 52973 ERR6133319.ke.tsv 35125 ERR6133319.se.tsv 88098 total ==> ERR6133319.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 57 18.062 PNS24243 293 194 0 0 KQK14069 1603 1504 1 0.289067 KQK14071 474 375 0 0 ==> ERR6133319.se.tsv <== BRADI_1g14170v3 1 BRADI_1g53295v3 103 BRADI_1g59795v3 17 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 54 BRADI_1g74790v3 52 BRADI_1g09890v3 0 BRADI_1g77505v3 100 BRADI_1g48960v3 0 ERR6133319 completed mapping pipeline successfully