Starting /dee2/code/volunteer_pipeline.sh ERR6133371 current disk space = 1548036661248 free memory = 1391718884 ERR6133371 SRAfilesize 2fb7b151959e5eefa11043993afc306e ERR6133371.sra ERR6133371.sra file validated ERR6133371 is single end ERR6133371 is conventional basespace ERR6133371 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133371_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 36.91325 37.0 37.0 37.0 37.0 37.0 2 36.8265 37.0 37.0 37.0 37.0 37.0 3 36.64575 37.0 37.0 37.0 37.0 37.0 4 36.19375 37.0 37.0 37.0 33.0 37.0 5 36.2165 37.0 37.0 37.0 33.0 37.0 6 36.341 37.0 37.0 37.0 37.0 37.0 7 38.348 40.0 37.0 40.0 37.0 40.0 8 38.3605 40.0 37.0 40.0 37.0 40.0 9 38.37625 40.0 37.0 40.0 37.0 40.0 10-11 38.31625 40.0 37.0 40.0 37.0 40.0 12-13 38.355875 40.0 37.0 40.0 37.0 40.0 14-15 38.267375 40.0 37.0 40.0 37.0 40.0 16-17 38.17400000000001 40.0 37.0 40.0 37.0 40.0 18-19 38.13075 40.0 37.0 40.0 35.0 40.0 20-21 37.978125000000006 40.0 37.0 40.0 33.0 40.0 22-23 37.9695 40.0 37.0 40.0 33.0 40.0 24-25 37.806124999999994 40.0 37.0 40.0 33.0 40.0 26-27 37.717749999999995 40.0 37.0 40.0 33.0 40.0 28-29 37.613249999999994 40.0 37.0 40.0 33.0 40.0 30-31 37.488 37.0 37.0 40.0 33.0 40.0 32-33 37.21025 37.0 37.0 40.0 33.0 40.0 34-35 36.96825 37.0 37.0 40.0 33.0 40.0 36-37 37.070875 37.0 37.0 40.0 33.0 40.0 38-39 37.0875 37.0 37.0 40.0 33.0 40.0 40-41 37.30675 37.0 37.0 40.0 33.0 40.0 42-43 37.27175 37.0 37.0 40.0 33.0 40.0 44-45 37.102875 37.0 37.0 40.0 33.0 40.0 46-47 36.912875 37.0 37.0 40.0 33.0 40.0 48-49 36.693625 37.0 37.0 40.0 33.0 40.0 50-51 36.682249999999996 37.0 37.0 40.0 33.0 40.0 52-53 36.499624999999995 37.0 37.0 37.0 33.0 40.0 54-55 36.352500000000006 37.0 37.0 37.0 33.0 40.0 56-57 36.094875 37.0 37.0 37.0 33.0 40.0 58-59 36.0 37.0 37.0 37.0 33.0 40.0 60-61 35.83 37.0 35.0 37.0 33.0 38.5 62-63 35.56425 37.0 33.0 37.0 33.0 37.0 64-65 35.31275 37.0 33.0 37.0 33.0 37.0 66-67 35.34325 37.0 33.0 37.0 33.0 37.0 68-69 34.342749999999995 35.0 33.0 37.0 30.0 37.0 70-71 34.56505063845769 37.0 33.0 37.0 33.0 37.0 72-73 34.97067799943784 37.0 33.0 37.0 33.0 37.0 74-75 35.01283291368001 37.0 33.0 37.0 33.0 37.0 76-77 34.905746213405564 37.0 33.0 37.0 33.0 37.0 78-79 34.96517022275172 37.0 33.0 37.0 33.0 37.0 80-81 34.89668689934244 37.0 33.0 37.0 33.0 37.0 82-83 34.509669781186545 37.0 33.0 37.0 33.0 37.0 84-85 34.58067657656089 37.0 33.0 37.0 33.0 37.0 86-87 34.47763659466328 37.0 33.0 37.0 33.0 37.0 88-89 34.4002541296061 37.0 33.0 37.0 33.0 37.0 90-91 34.05425667090216 37.0 33.0 37.0 30.0 37.0 92-93 33.896060991105465 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 7.0 21 6.0 22 8.0 23 4.0 24 12.0 25 9.0 26 16.0 27 20.0 28 19.0 29 41.0 30 51.0 31 75.0 32 99.0 33 104.0 34 206.0 35 361.0 36 848.0 37 1125.0 38 971.0 39 18.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 80.55 5.175 5.425 8.85 2 55.375 26.025 12.4 6.2 3 32.425 34.525 18.15 14.899999999999999 4 33.025 26.5 19.725 20.75 5 24.0 28.599999999999998 27.075 20.325 6 20.5 37.675 25.525 16.3 7 34.725 27.85 20.775 16.650000000000002 8 31.65 28.025 22.35 17.974999999999998 9 24.125 26.474999999999998 29.275000000000002 20.125 10-11 26.05 27.537499999999998 27.275 19.1375 12-13 29.8375 23.8625 27.525 18.775 14-15 22.7625 26.974999999999998 30.312499999999996 19.950000000000003 16-17 25.95 29.675 27.175 17.2 18-19 24.4375 25.937500000000004 27.625 22.0 20-21 26.187500000000004 26.7125 25.924999999999997 21.175 22-23 27.450000000000003 23.025000000000002 28.3625 21.1625 24-25 25.7875 23.35 28.9 21.9625 26-27 26.4625 25.087500000000002 28.3875 20.0625 28-29 26.075 26.237500000000004 26.487500000000004 21.2 30-31 28.3125 25.0 26.0625 20.625 32-33 24.55 27.575 27.0125 20.8625 34-35 25.4375 25.5 27.187499999999996 21.875 36-37 25.5 24.887500000000003 26.825 22.787499999999998 38-39 25.412499999999998 24.9875 29.675 19.925 40-41 26.1 25.624999999999996 26.900000000000002 21.375 42-43 24.625 27.800000000000004 26.525 21.05 44-45 24.275 25.224999999999998 29.312500000000004 21.1875 46-47 26.025 23.4375 27.775 22.7625 48-49 25.162499999999998 25.15 28.299999999999997 21.3875 50-51 25.0375 25.624999999999996 28.512500000000003 20.825 52-53 25.887500000000003 25.0125 27.462500000000002 21.637500000000003 54-55 25.0625 25.4875 28.962500000000002 20.4875 56-57 25.05 26.0 29.125 19.825 58-59 23.8375 24.25 29.862499999999997 22.05 60-61 25.1875 24.625 29.512500000000003 20.674999999999997 62-63 23.0375 26.900000000000002 29.6375 20.424999999999997 64-65 24.25 26.8375 28.3625 20.549999999999997 66-67 26.424999999999997 27.0125 27.9375 18.625 68-69 24.2375 25.75 28.6625 21.349999999999998 70-71 24.83112334250688 24.630973229922443 29.359519639729797 21.178383787840882 72-73 27.02668838491417 25.435409096604435 27.75341435910287 19.784488159378526 74-75 23.838814963595283 27.981421039417526 28.48355510921416 19.696208887773032 76-77 23.1951618999622 26.823736928310442 28.272647095880053 21.708454075847296 78-79 25.79871195858063 25.584038388685443 28.778886223007955 19.838363429725973 80-81 24.279210925644918 27.9969650986343 28.654527061203844 19.069296914516944 82-83 24.718247435735087 24.718247435735087 28.947701658857795 21.615803469672027 84-85 23.93043036689095 24.590580170115526 30.69696584994287 20.782023613050654 86-87 23.418043202033036 25.997458703939007 29.834815756035578 20.749682337992375 88-89 23.532401524777637 28.132147395171536 29.224904701397712 19.110546378653112 90-91 25.756035578144854 25.94663278271919 29.35196950444727 18.945362134688693 92-93 23.722998729351968 27.24269377382465 29.05972045743329 19.974587039390087 >>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 1.0 16 2.0 17 18.5 18 21.0 19 4.5 20 1.5 21 1.0 22 0.5 23 1.0 24 3.0 25 2.5 26 2.5 27 8.5 28 14.5 29 16.0 30 19.5 31 26.0 32 29.0 33 43.5 34 65.5 35 84.5 36 97.5 37 105.5 38 120.5 39 154.0 40 168.0 41 188.5 42 208.0 43 194.5 44 185.5 45 183.0 46 211.5 47 212.0 48 181.5 49 187.0 50 192.0 51 182.5 52 168.0 53 158.5 54 154.5 55 119.0 56 84.0 57 77.0 58 67.0 59 54.0 60 49.0 61 49.5 62 41.5 63 28.0 64 27.5 65 25.5 66 18.0 67 13.5 68 9.5 69 7.5 70 5.0 71 2.0 72 1.5 73 3.0 74 3.5 75 1.0 76 0.0 77 0.5 78 0.5 79 0.0 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 0.0 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 0.0 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 0.0 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 6.0 71 1.0 72 5.0 73 3.0 74 4.0 75 9.0 76 7.0 77 3.0 78 5.0 79 3.0 80 0.0 81 1.0 82 9.0 83 2.0 84 7.0 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 3935.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.02499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 95.00147015583651 80.77499999999999 2 3.204939723610703 5.45 3 0.6468685680682152 1.6500000000000001 4 0.20582181711261394 0.7000000000000001 5 0.23522493384298734 1.0 6 0.08820935019112026 0.44999999999999996 7 0.058806233460746836 0.35000000000000003 8 0.058806233460746836 0.4 9 0.0 0.0 >10 0.4704498676859747 7.925 >50 0.029403116730373418 1.3 >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 GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 52 1.3 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 37 0.9249999999999999 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 37 0.9249999999999999 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 35 0.8750000000000001 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 31 0.775 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 24 0.6 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 22 0.5499999999999999 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 21 0.525 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 16 0.4 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 14 0.35000000000000003 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 13 0.325 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 12 0.3 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 12 0.3 No Hit CTGAGCCGTGCTCTCTTCTGTGTACATCTCATGTCATTTTAGCGATTCTC 11 0.27499999999999997 No Hit GGGGGTCGCAGTGACCAGGCCCGGGCGACTGTTTACCAAAAACACAGGTC 11 0.27499999999999997 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 11 0.27499999999999997 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 10 0.25 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 8 0.2 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 8 0.2 No Hit AATCGCTTTTGCTTTCTTTTCCTCTGGCTACTAAGATGTTTCAGTTCGCC 7 0.17500000000000002 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 7 0.17500000000000002 No Hit GGTCTTGATCCCTCTGTGTTTCCCGTGTAACGGCTACTGATCCAGTGGTT 6 0.15 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 6 0.15 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 5 0.125 No Hit GGATCGGTTGAAGCGTGCGGCGTCTCTGTCTATGTATTACTGTTTTATGC 5 0.125 No Hit AGTATGGCATCGGTTACATACTTCAGTGCCGTAGCGCCTGGTATGAGCCT 5 0.125 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 5 0.125 No Hit CACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCT 5 0.125 No Hit TAGTTTCCACCGCCTGTCCAGGGTTGAGCCCTGGGATTTGACGGCGGACT 5 0.125 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 5 0.125 No Hit AACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGC 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 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 0.0 0.0 0.0 0.0 74-75 0.0 0.0 0.0 0.0 0.0 76-77 0.0 0.0 0.0 0.0 0.0 78-79 0.0 0.0 0.0 0.0 0.0 80-81 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra Rejected 146255 READS because READLEN < 1 Read 146255 spots for ERR6133371.sra Written 146255 spots for ERR6133371.sra Rejected 146253 READS because READLEN < 1 Read 146253 spots for ERR6133371.sra Written 146253 spots for ERR6133371.sra SRR ids: ['ERR6133371.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_teal2qcb ERR6133371.sra spots: 2925062 blocks: [[1, 146253], [146254, 292506], [292507, 438759], [438760, 585012], [585013, 731265], [731266, 877518], [877519, 1023771], [1023772, 1170024], [1170025, 1316277], [1316278, 1462530], [1462531, 1608783], [1608784, 1755036], [1755037, 1901289], [1901290, 2047542], [2047543, 2193795], [2193796, 2340048], [2340049, 2486301], [2486302, 2632554], [2632555, 2778807], [2778808, 2925062]] ERR6133371 file size 647081 ERR6133371 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 ERR6133371 ERR6133371_1.fastq Input file: ERR6133371_1.fastq trimmed: ERR6133371-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 01:53:04 2024 >> started Sat Dec 7 01:53:07 2024 >> done (3.363s) 2925062 reads processed; of these: 90 ( 0.00%) short reads filtered out after trimming by size control 4 ( 0.00%) empty reads filtered out after trimming by size control 2924968 (100.00%) reads available; of these: 119819 ( 4.10%) trimmed reads available after processing 2805149 (95.90%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 10 0.00% 20 5 0.00% 21 3 0.00% 22 1 0.00% 23 2 0.00% 24 3 0.00% 25 3 0.00% 26 5 0.00% 27 3 0.00% 28 8 0.00% 29 25 0.00% 30 4 0.00% 31 7 0.00% 32 1 0.00% 33 2 0.00% 34 1 0.00% 35 6 0.00% 36 5 0.00% 37 0 0.00% 38 6 0.00% 39 9 0.00% 40 18 0.00% 41 13 0.00% 42 10 0.00% 43 16 0.00% 44 9 0.00% 45 25 0.00% 46 57 0.00% 47 81 0.00% 48 155 0.01% 49 1012 0.03% 50 269 0.01% 51 270 0.01% 52 292 0.01% 53 391 0.01% 54 404 0.01% 55 423 0.01% 56 501 0.02% 57 519 0.02% 58 618 0.02% 59 654 0.02% 60 820 0.03% 61 684 0.02% 62 766 0.03% 63 927 0.03% 64 873 0.03% 65 1008 0.03% 66 1042 0.04% 67 1121 0.04% 68 1346 0.05% 69 674 0.02% 70 4470 0.15% 71 4603 0.16% 72 5912 0.20% 73 5181 0.18% 74 5419 0.19% 75 6099 0.21% 76 5412 0.19% 77 5843 0.20% 78 6613 0.23% 79 7205 0.25% 80 7120 0.24% 81 7077 0.24% 82 8466 0.29% 83 10259 0.35% 84 9168 0.31% 85 4945 0.17% 86 5645 0.19% 87 6537 0.22% 88 8376 0.29% 89 8383 0.29% 90 11030 0.38% 91 12310 0.42% 92 13672 0.47% 93 2740110 93.68% 2924968 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=5.08 fanout-score-rank=27 prefix-density=0.67 prefix-fanout=3.7 sequence=ATGCATGCATGC criterion=fanout-score sequence-density=0.01 sequence-density-rank=44 fanout-score=48.81 fanout-score-rank=1 prefix-density=0.08 prefix-fanout=3.1 sequence=GGCAAGGTCCTGGGTGCCTTCCTGGAAGGAGGGTCGCCAGACGAGAACAACGCCATTGCCAAGGTCGCGAGAGCTCAGCCACCCGTCTCCAGCGTAGAGGAGCTCAAGAAGGAGGGTCTCCAGTTCGCCAGCAAGATCTGACTGGTCTGAGCCGTGCTCTCTTCTGTGTACATCTCATGTCATTTTAGCGATTCTCGTGTGGTTGATGTGTTACACAGATACTACCTACCATAGCTCATTACACGATACTCTTTCTTTC Started job on | Dec 07 01:53:26 Started mapping on | Dec 07 01:53:26 Finished on | Dec 07 01:53:56 Mapping speed, Million of reads per hour | 351.00 Number of input reads | 2924968 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2220521 Uniquely mapped reads % | 75.92% Average mapped length | 91.85 Number of splices: Total | 150752 Number of splices: Annotated (sjdb) | 127765 Number of splices: GT/AG | 143323 Number of splices: GC/AG | 3331 Number of splices: AT/AC | 47 Number of splices: Non-canonical | 4051 Mismatch rate per base, % | 0.50% Deletion rate per base | 0.04% Deletion average length | 1.72 Insertion rate per base | 0.02% Insertion average length | 1.64 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 610981 % of reads mapped to multiple loci | 20.89% Number of reads mapped to too many loci | 19317 % of reads mapped to too many loci | 0.66% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.46% % of reads unmapped: other | 0.08% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 93466 93466 93466 N_multimapping 610981 610981 610981 N_noFeature 98415 124288 2116240 N_ambiguous 85893 7550 173 UnstrandedReadsAssigned:2036213 PositiveStrandReadsAssigned:2088683 NegativeStrandReadsAssigned:104108 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133371 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: ERR6133371-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,924,968 reads, 2,452,092 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,180 rounds 52973 ERR6133371.ke.tsv 35125 ERR6133371.se.tsv 88098 total ==> ERR6133371.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 68 27.2717 PNS24243 293 194 0 0 KQK14069 1603 1504 51 18.6586 KQK14071 474 375 1 1.46732 ==> ERR6133371.se.tsv <== BRADI_1g14170v3 52 BRADI_1g53295v3 58 BRADI_1g59795v3 11 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 26 BRADI_1g74790v3 36 BRADI_1g09890v3 0 BRADI_1g77505v3 74 BRADI_1g48960v3 0 ERR6133371 completed mapping pipeline successfully