Starting /dee2/code/volunteer_pipeline.sh ERR6133310 current disk space = 1548416749568 free memory = 1598459600 ERR6133310 SRAfilesize 5cae3c666ff06496bd9264af70d6daa6 ERR6133310.sra ERR6133310.sra file validated ERR6133310 is single end ERR6133310 is conventional basespace ERR6133310 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133310_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 35.09325 37.0 33.0 37.0 33.0 37.0 2 36.3835 37.0 37.0 37.0 37.0 37.0 3 36.04275 37.0 37.0 37.0 33.0 37.0 4 35.68775 37.0 37.0 37.0 33.0 37.0 5 35.54125 37.0 37.0 37.0 33.0 37.0 6 35.84275 37.0 37.0 37.0 33.0 37.0 7 37.666 40.0 37.0 40.0 33.0 40.0 8 37.6545 40.0 37.0 40.0 33.0 40.0 9 37.80725 40.0 37.0 40.0 33.0 40.0 10-11 37.63825 40.0 37.0 40.0 33.0 40.0 12-13 37.55875 40.0 37.0 40.0 33.0 40.0 14-15 37.517375 40.0 37.0 40.0 33.0 40.0 16-17 37.38225 40.0 37.0 40.0 33.0 40.0 18-19 37.3125 37.0 37.0 40.0 33.0 40.0 20-21 37.130875 37.0 37.0 40.0 33.0 40.0 22-23 37.066625 37.0 37.0 40.0 33.0 40.0 24-25 37.21325 37.0 37.0 40.0 33.0 40.0 26-27 37.052125000000004 37.0 37.0 40.0 33.0 40.0 28-29 36.94 37.0 37.0 40.0 33.0 40.0 30-31 37.087 37.0 37.0 40.0 33.0 40.0 32-33 36.897375 37.0 37.0 40.0 33.0 40.0 34-35 36.695875 37.0 37.0 40.0 33.0 40.0 36-37 36.565124999999995 37.0 37.0 40.0 33.0 40.0 38-39 36.36525 37.0 37.0 40.0 33.0 40.0 40-41 36.213 37.0 37.0 40.0 33.0 40.0 42-43 35.96925 37.0 37.0 40.0 33.0 40.0 44-45 35.61775 37.0 33.0 40.0 30.0 40.0 46-47 35.335125000000005 37.0 33.0 37.0 30.0 40.0 48-49 35.21125 37.0 33.0 37.0 30.0 40.0 50-51 35.101749999999996 37.0 33.0 37.0 27.0 40.0 52-53 34.700374999999994 37.0 33.0 37.0 27.0 40.0 54-55 34.706875 37.0 33.0 37.0 27.0 40.0 56-57 34.331875 37.0 33.0 37.0 27.0 40.0 58-59 31.971375 33.0 30.0 37.0 24.5 37.0 60-61 33.535375 35.0 33.0 37.0 27.0 37.0 62-63 33.7085 37.0 33.0 37.0 27.0 37.0 64-65 33.592625 37.0 33.0 37.0 27.0 37.0 66-67 33.469375 37.0 33.0 37.0 27.0 37.0 68-69 32.905125 35.0 33.0 37.0 27.0 37.0 70-71 32.911065947843525 35.0 33.0 37.0 27.0 37.0 72-73 33.21255459688379 37.0 33.0 37.0 27.0 37.0 74-75 33.18524980309521 37.0 33.0 37.0 27.0 37.0 76-77 33.24387770559992 37.0 33.0 37.0 27.0 37.0 78-79 33.24284020678841 37.0 33.0 37.0 27.0 37.0 80-81 33.245210773251586 37.0 33.0 37.0 27.0 37.0 82-83 33.02201920372528 33.0 33.0 37.0 27.0 37.0 84-85 32.7356025611653 33.0 33.0 37.0 27.0 37.0 86-87 32.6495848469123 33.0 33.0 37.0 27.0 37.0 88-89 32.846912298910226 33.0 33.0 37.0 27.0 37.0 90-91 32.545407368967304 33.0 33.0 37.0 24.5 37.0 92-93 32.54021795537105 33.0 33.0 37.0 24.5 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 15.0 21 21.0 22 18.0 23 29.0 24 33.0 25 38.0 26 56.0 27 61.0 28 60.0 29 90.0 30 84.0 31 127.0 32 146.0 33 222.0 34 288.0 35 453.0 36 741.0 37 924.0 38 585.0 39 9.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 82.025 4.775 4.75 8.450000000000001 2 62.7 22.375 10.299999999999999 4.625 3 30.825000000000003 38.800000000000004 17.25 13.125 4 33.025 25.724999999999998 19.45 21.8 5 22.1 29.975 30.65 17.275 6 17.424999999999997 40.849999999999994 25.924999999999997 15.8 7 34.55 28.975 20.9 15.575 8 29.5 28.449999999999996 24.7 17.349999999999998 9 23.225 26.224999999999998 29.849999999999998 20.7 10-11 23.6125 26.674999999999997 29.549999999999997 20.1625 12-13 26.3125 25.174999999999997 28.449999999999996 20.0625 14-15 21.0 29.1625 30.275000000000002 19.5625 16-17 23.25 31.2 25.687500000000004 19.8625 18-19 22.875 26.5625 28.65 21.912499999999998 20-21 24.63115778944736 26.456614153538382 28.80720180045011 20.10502625656414 22-23 28.0875 23.1375 27.762500000000003 21.0125 24-25 25.687500000000004 25.162499999999998 29.1125 20.0375 26-27 24.4125 26.525 32.1 16.9625 28-29 25.137500000000003 27.775 26.887499999999996 20.200000000000003 30-31 25.85 26.437500000000004 28.0875 19.625 32-33 24.25 26.525 28.962500000000002 20.2625 34-35 24.14051756469559 27.86598324790599 27.378422302787847 20.615076884610577 36-37 25.825 25.337500000000002 28.0875 20.75 38-39 25.56278139069535 24.062031015507753 31.94097048524262 18.434217108554275 40-41 26.887499999999996 25.637500000000003 25.7875 21.6875 42-43 24.0780097512189 29.90373796724591 27.128391048881113 18.88986123265408 44-45 22.330582645661416 27.694423605901473 29.519879969992495 20.455113778444613 46-47 23.818454613653415 25.081270317579396 29.057264316079017 22.043010752688172 48-49 25.137500000000003 24.6 30.025000000000002 20.2375 50-51 24.415551943992998 26.96587073384173 29.016127015876986 19.602450306288286 52-53 25.06256256256256 27.790290290290294 27.402402402402405 19.744744744744743 54-55 24.9 27.6875 29.275000000000002 18.1375 56-57 26.25 26.1625 28.1375 19.45 58-59 23.6125 24.725 30.5375 21.125 60-61 24.375 26.7125 29.4375 19.475 62-63 20.8875 30.362499999999997 31.887500000000003 16.8625 64-65 22.475 28.325 29.825000000000003 19.375 66-67 24.224999999999998 29.012500000000003 27.3375 19.425 68-69 23.2375 27.750000000000004 27.237499999999997 21.775 70-71 24.824737105658485 27.01552328492739 28.329994992488732 19.82974461692539 72-73 25.69453174104337 24.764299182903834 29.000628535512256 20.54054054054054 74-75 22.742770551837353 28.261144083848972 29.67546407374669 19.32062129056699 76-77 22.409424879655436 26.640486445401574 27.818596402330886 23.13149227261211 78-79 23.539147040101845 25.436028007638445 30.795671546785485 20.22915340547422 80-81 22.4539406345957 28.825486182190378 30.232855680655067 18.487717502558855 82-83 22.982005141388175 25.5012853470437 30.347043701799485 21.169665809768638 84-85 23.624595469255663 22.614886731391586 32.71197411003236 21.048543689320386 86-87 21.795537104307215 25.83030617540218 31.551634665282823 20.822522055007784 88-89 20.939283860923716 30.851063829787233 29.346133886870785 18.863518422418267 90-91 25.54488842760768 26.20653866113129 28.98287493513233 19.2656979761287 92-93 21.56201349247535 30.669434353918007 28.632589517384538 19.135962636222107 >>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 20.5 18 22.5 19 2.0 20 2.0 21 2.5 22 2.0 23 4.5 24 5.5 25 3.5 26 10.0 27 21.0 28 22.0 29 20.5 30 33.5 31 46.5 32 62.5 33 78.5 34 88.5 35 97.0 36 121.0 37 173.0 38 199.0 39 182.0 40 165.5 41 180.0 42 208.5 43 222.0 44 207.5 45 177.5 46 192.0 47 184.5 48 150.0 49 157.0 50 173.0 51 172.0 52 146.0 53 145.0 54 134.0 55 81.0 56 53.0 57 56.0 58 50.5 59 37.5 60 32.0 61 32.0 62 27.5 63 18.5 64 17.5 65 18.0 66 12.0 67 11.0 68 9.0 69 6.5 70 9.0 71 11.0 72 7.5 73 3.5 74 4.0 75 4.5 76 2.5 77 0.5 78 0.0 79 0.0 80 0.0 81 0.5 82 1.0 83 0.5 84 0.5 85 0.5 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 0.025 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 0.0125 36-37 0.0 38-39 0.05 40-41 0.0 42-43 0.0125 44-45 0.025 46-47 0.025 48-49 0.0 50-51 0.0125 52-53 0.1 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 12.0 71 8.0 72 5.0 73 12.0 74 7.0 75 6.0 76 6.0 77 12.0 78 9.0 79 12.0 80 6.0 81 9.0 82 12.0 83 13.0 84 17.0 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 3854.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 70.575 #Duplication Level Percentage of deduplicated Percentage of total 1 90.47113000354233 63.849999999999994 2 4.746723343960326 6.7 3 1.4523556500177117 3.075 4 0.8855827134254338 2.5 5 0.602196245129295 2.125 6 0.28338646829613884 1.2 7 0.2479631597591215 1.225 8 0.17711654268508678 1.0 9 0.10626992561105207 0.675 >10 0.9210060219624512 13.475000000000001 >50 0.10626992561105207 4.175 >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 56 1.4000000000000001 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 56 1.4000000000000001 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 55 1.375 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 50 1.25 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 39 0.975 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 39 0.975 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 29 0.7250000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 28 0.7000000000000001 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 28 0.7000000000000001 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 26 0.65 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 24 0.6 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 22 0.5499999999999999 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 22 0.5499999999999999 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 20 0.5 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 20 0.5 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 20 0.5 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 19 0.475 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 18 0.44999999999999996 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 15 0.375 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 15 0.375 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 14 0.35000000000000003 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 13 0.325 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 13 0.325 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 12 0.3 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 12 0.3 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 11 0.27499999999999997 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 10 0.25 No Hit GGAAAAGAGGGGTTACTTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 10 0.25 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 10 0.25 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 9 0.22499999999999998 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 9 0.22499999999999998 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 9 0.22499999999999998 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 8 0.2 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 8 0.2 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 8 0.2 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 8 0.2 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 8 0.2 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 7 0.17500000000000002 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 7 0.17500000000000002 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 7 0.17500000000000002 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 7 0.17500000000000002 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 7 0.17500000000000002 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 7 0.17500000000000002 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 7 0.17500000000000002 No Hit GGGGGTCGCAGTGACCAGGCCCGGGCGACTGTTTACCAAAAACACAGGTC 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 6 0.15 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 6 0.15 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 6 0.15 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 6 0.15 No Hit GGGAAACAACGACGTCATCATCGACATGATATATTGCTGCTATTTTCCAC 6 0.15 No Hit GGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTG 6 0.15 No Hit AATCGCTTTTGCTTTCTTTTCCTCTGGCTACTAAGATGTTTCAGTTCGCC 5 0.125 No Hit GATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGGG 5 0.125 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGA 5 0.125 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 5 0.125 No Hit AACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCG 5 0.125 No Hit GGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTACCTGCT 5 0.125 No Hit AGTATGGCATCGGTTACATACTTCAGTGCCGTAGCGCCTGGTATGAGCCT 5 0.125 No Hit GAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGC 5 0.125 No Hit GAAATCTTTGGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGG 5 0.125 No Hit GGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAA 5 0.125 No Hit GGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAGTTTTT 5 0.125 No Hit GATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAG 5 0.125 No Hit GGGACAGTCGGGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGA 5 0.125 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 5 0.125 No Hit GGAGTATATGTACTCGCTATTTTCCAGTACTGCATGCCGGATGGCTCGAT 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 0.075 0.0 0.0 0.0 0.0 42-43 0.075 0.0 0.0 0.0 0.0 44-45 0.075 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.075 0.0 0.0 0.0 0.0 58-59 0.075 0.0 0.0 0.0 0.0 60-61 0.075 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 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.0875 0.0 0.0 0.0 0.0 72-73 0.125 0.0 0.0 0.0 0.0 74-75 0.125 0.0 0.0 0.0 0.0 76-77 0.125 0.0 0.0 0.0 0.0 78-79 0.125 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TGCACCT 35 3.8063803E-4 49.714283 7 CACCTGG 35 3.8063803E-4 49.714283 9 ATGCACC 35 3.8063803E-4 49.714283 6 GCACCTG 35 3.8063803E-4 49.714283 8 GGGAAAT 35 3.8063803E-4 49.714283 1 AAATGCA 40 7.354886E-4 43.5 4 GGAAATG 40 7.354886E-4 43.5 2 GAAATGC 50 0.00220463 34.8 3 AATGCAC 60 0.005388326 29.0 5 CTAATCG 55 0.0043939254 19.772726 24-25 GCCTGTG 55 0.0043939254 19.772726 44-45 GCTTTAG 60 0.0072673126 18.125 34-35 >>END_MODULE Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131680 READS because READLEN < 1 Read 131680 spots for ERR6133310.sra Written 131680 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra Rejected 131671 READS because READLEN < 1 Read 131671 spots for ERR6133310.sra Written 131671 spots for ERR6133310.sra SRR ids: ['ERR6133310.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_4lw9qikc ERR6133310.sra spots: 2633429 blocks: [[1, 131671], [131672, 263342], [263343, 395013], [395014, 526684], [526685, 658355], [658356, 790026], [790027, 921697], [921698, 1053368], [1053369, 1185039], [1185040, 1316710], [1316711, 1448381], [1448382, 1580052], [1580053, 1711723], [1711724, 1843394], [1843395, 1975065], [1975066, 2106736], [2106737, 2238407], [2238408, 2370078], [2370079, 2501749], [2501750, 2633429]] ERR6133310 file size 581129 ERR6133310 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 ERR6133310 ERR6133310_1.fastq Input file: ERR6133310_1.fastq trimmed: ERR6133310-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 00:22:25 2024 >> started Sat Dec 7 00:22:26 2024 >> done (1.536s) 2633429 reads processed; of these: 212 ( 0.01%) short reads filtered out after trimming by size control 26 ( 0.00%) empty reads filtered out after trimming by size control 2633191 (99.99%) reads available; of these: 45856 ( 1.74%) trimmed reads available after processing 2587335 (98.26%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 22 0.00% 19 67 0.00% 20 31 0.00% 21 41 0.00% 22 48 0.00% 23 8 0.00% 24 16 0.00% 25 16 0.00% 26 4 0.00% 27 18 0.00% 28 35 0.00% 29 34 0.00% 30 30 0.00% 31 40 0.00% 32 26 0.00% 33 23 0.00% 34 20 0.00% 35 139 0.01% 36 345 0.01% 37 43 0.00% 38 55 0.00% 39 212 0.01% 40 100 0.00% 41 72 0.00% 42 4 0.00% 43 9 0.00% 44 16 0.00% 45 11 0.00% 46 11 0.00% 47 6 0.00% 48 8 0.00% 49 7 0.00% 50 7 0.00% 51 30 0.00% 52 11 0.00% 53 9 0.00% 54 4 0.00% 55 6 0.00% 56 14 0.00% 57 17 0.00% 58 20 0.00% 59 7 0.00% 60 15 0.00% 61 12 0.00% 62 2 0.00% 63 4 0.00% 64 4 0.00% 65 5 0.00% 66 6 0.00% 67 10 0.00% 68 24 0.00% 69 66 0.00% 70 6853 0.26% 71 5827 0.22% 72 6968 0.26% 73 5645 0.21% 74 6217 0.24% 75 6481 0.25% 76 5037 0.19% 77 5255 0.20% 78 6490 0.25% 79 7344 0.28% 80 6567 0.25% 81 7214 0.27% 82 8356 0.32% 83 8731 0.33% 84 6797 0.26% 85 141 0.01% 86 244 0.01% 87 413 0.02% 88 698 0.03% 89 1401 0.05% 90 2662 0.10% 91 7932 0.30% 92 29313 1.11% 93 2488815 94.52% 2633191 reads passed initial QC criterion=sequence-density sequence-density=0.64 sequence-density-rank=1 fanout-score=2.34 fanout-score-rank=30 prefix-density=0.72 prefix-fanout=2.1 sequence=TGTACATTTGAACCCTGACTACACATATACACACATATACATGTAATATTATACAATCTGTCGAGTATGTGTTGGTTCATACTTA criterion=fanout-score sequence-density=0.01 sequence-density-rank=34 fanout-score=85.72 fanout-score-rank=1 prefix-density=0.28 prefix-fanout=2.1 sequence=CAAGGAAGGCGTCGCCAACGGAACCCTCAAGCTCGTGGGCGGCCACTACGACTTCGTCTCCGGCAAGTTCGACACATGGGAGCTCTAAGTCCTCTCATCCGGTTAACTCCTATACATACAACGTATACTTATACATACAGATATGGAGATGACCCTACAGATCGATCCATTGATGTGGATGCGATGCCATGGAGTATATGTACTCGCTATTTTCCAGTACTGCATGCCGGATGGCTCGATGTGAATTTGTAATAAGCAATAGAAGTTTCTACCATTTTCTGACGTGGGGTTGTACTTGTGATGCGTAATTTGGTCATCTTGTGACCAAAAGACATCAACTATATAATTATAATACCATTTTCATCAAGACTCTGTATTT Started job on | Dec 07 00:22:40 Started mapping on | Dec 07 00:22:40 Finished on | Dec 07 00:22:46 Mapping speed, Million of reads per hour | 1579.91 Number of input reads | 2633191 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 1510843 Uniquely mapped reads % | 57.38% Average mapped length | 91.81 Number of splices: Total | 57654 Number of splices: Annotated (sjdb) | 45032 Number of splices: GT/AG | 54200 Number of splices: GC/AG | 1315 Number of splices: AT/AC | 74 Number of splices: Non-canonical | 2065 Mismatch rate per base, % | 0.45% Deletion rate per base | 0.05% Deletion average length | 1.84 Insertion rate per base | 0.03% Insertion average length | 1.46 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1033965 % of reads mapped to multiple loci | 39.27% Number of reads mapped to too many loci | 43015 % of reads mapped to too many loci | 1.63% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.59% % of reads unmapped: other | 0.13% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 88383 88383 88383 N_multimapping 1033965 1033965 1033965 N_noFeature 134370 148408 1444745 N_ambiguous 58833 6739 240 UnstrandedReadsAssigned:1317640 PositiveStrandReadsAssigned:1355696 NegativeStrandReadsAssigned:65858 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133310 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: ERR6133310-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,633,191 reads, 2,130,282 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,015 rounds 52973 ERR6133310.ke.tsv 35125 ERR6133310.se.tsv 88098 total ==> ERR6133310.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 26 11.6903 PNS24243 293 194 0 0 KQK14069 1603 1504 1 0.410165 KQK14071 474 375 0 0 ==> ERR6133310.se.tsv <== BRADI_1g14170v3 1 BRADI_1g53295v3 3 BRADI_1g59795v3 10 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 24 BRADI_1g74790v3 9 BRADI_1g09890v3 0 BRADI_1g77505v3 37 BRADI_1g48960v3 0 ERR6133310 completed mapping pipeline successfully