Starting /dee2/code/volunteer_pipeline.sh ERR6133337 current disk space = 1548129669120 free memory = 1603364368 ERR6133337 SRAfilesize 2e54a3f0dc632f169f54443699ff0e01 ERR6133337.sra ERR6133337.sra file validated ERR6133337 is single end ERR6133337 is conventional basespace ERR6133337 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133337_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 36.1895 37.0 37.0 37.0 33.0 37.0 2 36.66675 37.0 37.0 37.0 37.0 37.0 3 36.63325 37.0 37.0 37.0 37.0 37.0 4 36.32475 37.0 37.0 37.0 37.0 37.0 5 36.354 37.0 37.0 37.0 37.0 37.0 6 36.403 37.0 37.0 37.0 37.0 37.0 7 38.644 40.0 37.0 40.0 37.0 40.0 8 38.62575 40.0 37.0 40.0 37.0 40.0 9 38.66275 40.0 37.0 40.0 37.0 40.0 10-11 38.665375 40.0 37.0 40.0 37.0 40.0 12-13 38.605125 40.0 37.0 40.0 37.0 40.0 14-15 38.64 40.0 37.0 40.0 37.0 40.0 16-17 38.554125 40.0 37.0 40.0 37.0 40.0 18-19 38.518375 40.0 37.0 40.0 37.0 40.0 20-21 38.417375 40.0 37.0 40.0 37.0 40.0 22-23 38.389250000000004 40.0 37.0 40.0 37.0 40.0 24-25 38.283375 40.0 37.0 40.0 37.0 40.0 26-27 38.316125 40.0 37.0 40.0 37.0 40.0 28-29 38.356375 40.0 37.0 40.0 37.0 40.0 30-31 38.305125000000004 40.0 37.0 40.0 37.0 40.0 32-33 38.176125 40.0 37.0 40.0 37.0 40.0 34-35 38.032250000000005 40.0 37.0 40.0 37.0 40.0 36-37 37.946875 40.0 37.0 40.0 37.0 40.0 38-39 37.884875 38.5 37.0 40.0 37.0 40.0 40-41 37.717749999999995 37.0 37.0 40.0 35.0 40.0 42-43 37.624624999999995 37.0 37.0 40.0 37.0 40.0 44-45 37.468 37.0 37.0 40.0 33.0 40.0 46-47 37.38825 37.0 37.0 40.0 33.0 40.0 48-49 37.24625 37.0 37.0 40.0 33.0 40.0 50-51 37.12525 37.0 37.0 40.0 33.0 40.0 52-53 37.006375 37.0 37.0 38.5 33.0 40.0 54-55 36.8665 37.0 37.0 37.0 33.0 40.0 56-57 36.653999999999996 37.0 37.0 37.0 33.0 40.0 58-59 36.405125 37.0 37.0 37.0 33.0 40.0 60-61 36.376125 37.0 37.0 37.0 33.0 38.5 62-63 36.205625 37.0 37.0 37.0 33.0 37.0 64-65 36.05175 37.0 37.0 37.0 33.0 37.0 66-67 35.91675 37.0 37.0 37.0 33.0 37.0 68-69 35.036500000000004 35.0 35.0 37.0 33.0 37.0 70-71 35.24143044354839 37.0 33.0 37.0 33.0 37.0 72-73 35.72307638271516 37.0 37.0 37.0 33.0 37.0 74-75 35.62652022615977 37.0 37.0 37.0 33.0 37.0 76-77 35.69322435684607 37.0 37.0 37.0 33.0 37.0 78-79 35.71063308034297 37.0 37.0 37.0 33.0 37.0 80-81 35.607436267022166 37.0 37.0 37.0 33.0 37.0 82-83 35.463494402115685 37.0 35.0 37.0 33.0 37.0 84-85 35.504696245083395 37.0 37.0 37.0 33.0 37.0 86-87 35.45262716601454 37.0 35.0 37.0 33.0 37.0 88-89 35.56889323644494 37.0 35.0 37.0 33.0 37.0 90-91 35.4782001117943 37.0 35.0 37.0 33.0 37.0 92-93 35.31567915036333 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 7.0 22 2.0 23 10.0 24 7.0 25 10.0 26 10.0 27 13.0 28 14.0 29 22.0 30 32.0 31 40.0 32 39.0 33 59.0 34 103.0 35 188.0 36 829.0 37 1187.0 38 1364.0 39 63.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 65.975 8.525 8.475000000000001 17.025000000000002 2 50.55 25.900000000000002 13.700000000000001 9.85 3 34.125 36.625 15.55 13.700000000000001 4 29.775000000000002 30.4 19.45 20.375 5 27.575 27.400000000000002 25.45 19.575 6 20.525 37.574999999999996 23.5 18.4 7 37.85 25.05 19.950000000000003 17.150000000000002 8 27.650000000000002 26.375 24.5 21.475 9 25.275 29.7 26.650000000000002 18.375 10-11 25.4 28.962500000000002 27.125 18.512500000000003 12-13 23.5625 29.512500000000003 26.075 20.849999999999998 14-15 22.25 31.2125 27.125 19.412499999999998 16-17 26.35 28.1625 22.8875 22.6 18-19 26.7125 24.7875 28.812500000000004 19.6875 20-21 27.075 25.162499999999998 27.0625 20.7 22-23 30.099999999999998 23.35 26.950000000000003 19.6 24-25 24.224999999999998 25.55 27.9125 22.3125 26-27 26.75 24.25 27.1125 21.8875 28-29 25.4375 27.474999999999998 26.787499999999998 20.3 30-31 29.1125 26.224999999999998 25.45 19.2125 32-33 27.950000000000003 24.6 25.924999999999997 21.525 34-35 23.925 31.2875 24.6875 20.1 36-37 27.537499999999998 25.55 23.150000000000002 23.7625 38-39 30.925000000000004 23.3375 25.374999999999996 20.3625 40-41 25.45 24.9 29.462500000000002 20.1875 42-43 27.250000000000004 30.875000000000004 23.7875 18.087500000000002 44-45 24.2875 28.3875 27.9125 19.412499999999998 46-47 28.375 24.5625 24.575 22.4875 48-49 26.387500000000003 24.7375 25.95 22.925 50-51 22.5 29.375 26.887499999999996 21.2375 52-53 24.837500000000002 27.3625 24.6125 23.1875 54-55 24.75 26.75 26.35 22.15 56-57 26.887499999999996 29.25 24.6625 19.2 58-59 23.45 29.1625 27.437499999999996 19.950000000000003 60-61 29.675 26.075 24.85 19.400000000000002 62-63 22.6125 28.375 28.65 20.3625 64-65 22.325 34.5625 24.6625 18.45 66-67 25.35 31.8125 24.637500000000003 18.2 68-69 22.85 26.8 27.6 22.75 70-71 25.65261044176707 29.467871485943775 24.535642570281123 20.343875502008032 72-73 27.82376161976315 26.333885139437157 27.887431554819813 17.95492168597988 74-75 26.18463524854745 28.68947708198838 26.352485474499677 18.773402194964493 76-77 23.928384736016728 25.75797177208573 25.927861996863566 24.385781495033978 78-79 28.26086956521739 27.84994697773065 25.23860021208908 18.650583244962885 80-81 24.34829346949745 33.94248857833916 24.227358237033055 17.48185971513034 82-83 24.58904109589041 28.589041095890412 24.63013698630137 22.19178082191781 84-85 20.974930362116993 27.21448467966574 30.08356545961003 21.72701949860724 86-87 22.149245388485188 30.408049189491337 24.147568474007823 23.295136948015653 88-89 20.72386808272778 31.41419787590833 27.249860257126883 20.612073784237005 90-91 25.321408608160983 31.83342649524874 23.462828395751817 19.382336500838456 92-93 20.91950810508664 32.7417551704863 26.13191727221912 20.206819452207938 >>END_MODULE >>Per sequence GC content fail #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 1.0 18 2.0 19 1.0 20 1.0 21 2.0 22 3.0 23 3.0 24 3.5 25 4.5 26 11.0 27 18.0 28 22.0 29 27.5 30 30.0 31 30.0 32 36.0 33 53.5 34 59.5 35 66.5 36 99.0 37 151.0 38 173.0 39 157.0 40 172.5 41 185.0 42 196.0 43 213.0 44 181.5 45 161.5 46 156.5 47 150.5 48 142.5 49 146.5 50 175.5 51 198.5 52 188.0 53 192.5 54 271.5 55 233.5 56 119.5 57 95.5 58 75.0 59 44.0 60 27.0 61 19.5 62 21.5 63 17.5 64 11.5 65 14.5 66 13.5 67 8.5 68 13.5 69 15.0 70 6.5 71 3.0 72 2.5 73 1.5 74 1.0 75 1.0 76 0.5 77 0.0 78 0.0 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 32.0 71 22.0 72 39.0 73 23.0 74 23.0 75 19.0 76 32.0 77 25.0 78 26.0 79 26.0 80 24.0 81 41.0 82 36.0 83 30.0 84 24.0 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 3578.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 67.975 #Duplication Level Percentage of deduplicated Percentage of total 1 88.78264067671938 60.35 2 5.075395365943361 6.9 3 2.61125413755057 5.325 4 0.8091210003677823 2.1999999999999997 5 0.625229863920559 2.125 6 0.5884516366311144 2.4 7 0.2206693637366679 1.05 8 0.0735564545788893 0.4 9 0.18389113644722324 1.125 >10 0.9930121368150056 13.5 >50 0.0 0.0 >100 0.03677822728944465 4.625 >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 185 4.625 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 50 1.25 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 36 0.8999999999999999 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 32 0.8 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 29 0.7250000000000001 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 29 0.7250000000000001 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 27 0.675 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 26 0.65 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 25 0.625 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 24 0.6 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 24 0.6 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 23 0.575 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 21 0.525 No Hit GGGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTA 20 0.5 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 17 0.42500000000000004 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 16 0.4 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 15 0.375 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 14 0.35000000000000003 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 14 0.35000000000000003 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 12 0.3 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 12 0.3 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 12 0.3 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 11 0.27499999999999997 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 11 0.27499999999999997 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 10 0.25 No Hit GTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGT 10 0.25 No Hit GAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCTG 10 0.25 No Hit AACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGA 10 0.25 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 9 0.22499999999999998 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 9 0.22499999999999998 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 9 0.22499999999999998 No Hit GGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGAT 9 0.22499999999999998 No Hit GTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCT 9 0.22499999999999998 No Hit GTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAA 8 0.2 No Hit GGCCCGGACCCTGTCGCCCCACGAGGCGCCGTCAACGAGTCGGGTTGTTT 8 0.2 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 7 0.17500000000000002 No Hit CAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTAT 7 0.17500000000000002 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 7 0.17500000000000002 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 7 0.17500000000000002 No Hit TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTT 7 0.17500000000000002 No Hit GGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCT 7 0.17500000000000002 No Hit GGAGTTTGGCTGGGGCGGCACATCTGTTAAAAGATAACGCAGGTGTCCTA 6 0.15 No Hit GCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATG 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 6 0.15 No Hit CAAATAGGTCAACCTTTTAAACTGCCTGCTGAATCCATGAGCAGGCAAGA 6 0.15 No Hit CGAGTCGGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTC 6 0.15 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 6 0.15 No Hit GGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAG 6 0.15 No Hit GGAGATTCCCAAATAGGTCAACCTTTTAAACTGCCTGCTGAATCCATGAG 6 0.15 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 6 0.15 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 6 0.15 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 6 0.15 No Hit GTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCC 6 0.15 No Hit GAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCACCC 6 0.15 No Hit CGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAG 6 0.15 No Hit GTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTA 6 0.15 No Hit GGTTGAGTGCCGCACCCTAGATGGCTAAAGTCCAGTAGCCGAAAGCATCA 6 0.15 No Hit CAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTT 5 0.125 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 5 0.125 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 5 0.125 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 5 0.125 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 5 0.125 No Hit GGGAATTTCCGGTGGAGCGGTGAAATGCATTGAGATCGGAAAGAACACCA 5 0.125 No Hit CTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGT 5 0.125 No Hit GCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGA 5 0.125 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 5 0.125 No Hit CGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTC 5 0.125 No Hit GTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTC 5 0.125 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 5 0.125 No Hit GAGTCGGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCC 5 0.125 No Hit GGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAA 5 0.125 No Hit GCACCCTAGATGGCTAAAGTCCAGTAGCCGAAAGCATCACTAGCTTACGC 5 0.125 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 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 0.0125 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 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.1 0.0 0.0 0.0 0.0 36-37 0.1 0.0 0.0 0.0 0.0 38-39 0.1 0.0 0.0 0.0 0.0 40-41 0.1 0.0 0.0 0.0 0.0 42-43 0.1 0.0 0.0 0.0 0.0 44-45 0.1 0.0 0.0 0.0 0.0 46-47 0.125 0.0 0.0 0.0 0.0 48-49 0.125 0.0 0.0 0.0 0.0 50-51 0.125 0.0 0.0 0.0 0.0 52-53 0.125 0.0 0.0 0.0 0.0 54-55 0.125 0.0 0.0 0.0 0.0 56-57 0.125 0.0 0.0 0.0 0.0 58-59 0.125 0.0 0.0 0.0 0.0 60-61 0.125 0.0 0.0 0.0 0.0 62-63 0.125 0.0 0.0 0.0 0.0 64-65 0.125 0.0 0.0 0.0 0.0 66-67 0.15 0.0 0.0 0.0 0.0 68-69 0.15 0.0 0.0 0.0 0.0 70-71 0.15 0.0 0.0 0.0 0.0 72-73 0.15 0.0 0.0 0.0 0.0 74-75 0.16249999999999998 0.0 0.0 0.0 0.0 76-77 0.1875 0.0 0.0 0.0 0.0 78-79 0.2 0.0 0.0 0.0 0.0 80-81 0.2 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGAGAGC 25 0.00726044 50.97 2 GGGAGAG 25 0.00726044 50.97 1 AGAGCAA 25 0.00726044 50.97 4 GAGAGCA 25 0.00726044 50.97 3 ATCACTA 15 0.008096185 49.97059 84-85 CACTAGC 15 0.008096185 49.97059 86-87 GCATCAC 15 0.008096185 49.97059 82-83 AAGCATC 15 0.008096185 49.97059 80-81 CCGAAAG 20 5.764783E-4 46.231297 76-77 >>END_MODULE Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41805 READS because READLEN < 1 Read 41805 spots for ERR6133337.sra Written 41805 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra Rejected 41804 READS because READLEN < 1 Read 41804 spots for ERR6133337.sra Written 41804 spots for ERR6133337.sra SRR ids: ['ERR6133337.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_mo0r4nhb ERR6133337.sra spots: 836081 blocks: [[1, 41804], [41805, 83608], [83609, 125412], [125413, 167216], [167217, 209020], [209021, 250824], [250825, 292628], [292629, 334432], [334433, 376236], [376237, 418040], [418041, 459844], [459845, 501648], [501649, 543452], [543453, 585256], [585257, 627060], [627061, 668864], [668865, 710668], [710669, 752472], [752473, 794276], [794277, 836081]] ERR6133337 file size 181557 ERR6133337 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 ERR6133337 ERR6133337_1.fastq Input file: ERR6133337_1.fastq trimmed: ERR6133337-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 00:57:01 2024 >> started Sat Dec 7 00:57:02 2024 >> done (0.697s) 836081 reads processed; of these: 49 ( 0.01%) short reads filtered out after trimming by size control 2 ( 0.00%) empty reads filtered out after trimming by size control 836030 (99.99%) reads available; of these: 6230 ( 0.75%) trimmed reads available after processing 829800 (99.25%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 16 0.00% 20 7 0.00% 21 0 0.00% 22 6 0.00% 23 5 0.00% 24 8 0.00% 25 4 0.00% 26 4 0.00% 27 6 0.00% 28 8 0.00% 29 267 0.03% 30 11 0.00% 31 6 0.00% 32 20 0.00% 33 655 0.08% 34 7 0.00% 35 25 0.00% 36 7 0.00% 37 12 0.00% 38 19 0.00% 39 33 0.00% 40 38 0.00% 41 15 0.00% 42 4 0.00% 43 13 0.00% 44 10 0.00% 45 6 0.00% 46 8 0.00% 47 8 0.00% 48 3 0.00% 49 6 0.00% 50 7 0.00% 51 27 0.00% 52 9 0.00% 53 11 0.00% 54 5 0.00% 55 8 0.00% 56 8 0.00% 57 11 0.00% 58 4 0.00% 59 7 0.00% 60 11 0.00% 61 16 0.00% 62 2 0.00% 63 1 0.00% 64 2 0.00% 65 7 0.00% 66 6 0.00% 67 15 0.00% 68 12 0.00% 69 38 0.00% 70 5731 0.69% 71 5463 0.65% 72 5951 0.71% 73 5573 0.67% 74 5266 0.63% 75 4940 0.59% 76 4906 0.59% 77 5413 0.65% 78 5479 0.66% 79 5918 0.71% 80 5728 0.69% 81 7587 0.91% 82 8102 0.97% 83 6730 0.80% 84 8259 0.99% 85 37 0.00% 86 43 0.01% 87 79 0.01% 88 115 0.01% 89 169 0.02% 90 321 0.04% 91 753 0.09% 92 2546 0.30% 93 739470 88.45% 836030 reads passed initial QC criterion=sequence-density sequence-density=5.81 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=20 prefix-density=5.88 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=45 fanout-score=29.37 fanout-score-rank=1 prefix-density=0.26 prefix-fanout=1.3 sequence=GAAATAGGATCTAAACAAGGAAGAGCACTTGCCATTCGTTGGTTATTAGAAGCATCCCAAAAGCGTCCGGGTCGAAATATGGCTTTCAAATTAAGTTCCGAATTAGTAGATGCTGCCAAAGGGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAGGCAAATAGAGCTCTTGCACATTTTCGTTAATCCATGAACAGAATCTAGGTATGTAGACACATGGATCCATACATCTCGATCGGAAAAGAATCAATAGAAGGAGAATCGGACGATATCTTTCTCGAAACAAAC Potential 3prime adapter identified. Now checking if in reference sequence Warning: gzbuffer added in zlib v1.2.3.5. Unable to change buffer size from default of 8192. 1 reads; of these: 1 (100.00%) were unpaired; of these: 0 (0.00%) aligned 0 times 0 (0.00%) aligned exactly 1 time 1 (100.00%) aligned >1 times 100.00% overall alignment rate Potential adapter found in reference sequence. Continuing without clipping. Started job on | Dec 07 00:57:17 Started mapping on | Dec 07 00:57:17 Finished on | Dec 07 00:57:21 Mapping speed, Million of reads per hour | 752.43 Number of input reads | 836030 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 363519 Uniquely mapped reads % | 43.48% Average mapped length | 89.92 Number of splices: Total | 13741 Number of splices: Annotated (sjdb) | 11246 Number of splices: GT/AG | 12901 Number of splices: GC/AG | 326 Number of splices: AT/AC | 19 Number of splices: Non-canonical | 495 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.04% Deletion average length | 1.64 Insertion rate per base | 0.02% Insertion average length | 1.79 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 397207 % of reads mapped to multiple loci | 47.51% Number of reads mapped to too many loci | 49054 % of reads mapped to too many loci | 5.87% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.87% % of reads unmapped: other | 0.27% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 75304 75304 75304 N_multimapping 397207 397207 397207 N_noFeature 29742 33505 347783 N_ambiguous 13884 1922 48 UnstrandedReadsAssigned:319893 PositiveStrandReadsAssigned:328092 NegativeStrandReadsAssigned:15688 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133337 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: ERR6133337-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 836,030 reads, 495,569 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 893 rounds 52973 ERR6133337.ke.tsv 35125 ERR6133337.se.tsv 88098 total ==> ERR6133337.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 14 27.5384 PNS24243 293 194 0 0 KQK14069 1603 1504 5 8.97196 KQK14071 474 375 0 0 ==> ERR6133337.se.tsv <== BRADI_1g14170v3 5 BRADI_1g53295v3 3 BRADI_1g59795v3 2 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 1 BRADI_1g74790v3 6 BRADI_1g09890v3 0 BRADI_1g77505v3 7 BRADI_1g48960v3 0 ERR6133337 completed mapping pipeline successfully