Starting /dee2/code/volunteer_pipeline.sh SRR12682222 current disk space = 1547678044160 free memory = 1599625992 SRR12682222 SRAfilesize 19e9232ace3cd77f5d826a08dddcdd7e SRR12682222.sra SRR12682222.sra file validated SRR12682222 is single end SRR12682222 is conventional basespace SRR12682222 read1 length is 50-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682222_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 50-150 %GC 52 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.5515 32.0 32.0 32.0 32.0 32.0 2 31.5585 32.0 32.0 32.0 32.0 32.0 3 31.5345 32.0 32.0 32.0 32.0 32.0 4 31.62175 32.0 32.0 32.0 32.0 32.0 5 31.618 32.0 32.0 32.0 32.0 32.0 6 34.67225 36.0 36.0 36.0 36.0 36.0 7 35.171 36.0 36.0 36.0 36.0 36.0 8 35.10975 36.0 36.0 36.0 36.0 36.0 9 35.09575 36.0 36.0 36.0 36.0 36.0 10-14 35.07770000000001 36.0 36.0 36.0 36.0 36.0 15-19 35.069 36.0 36.0 36.0 36.0 36.0 20-24 34.9824 36.0 36.0 36.0 36.0 36.0 25-29 34.848850000000006 36.0 36.0 36.0 32.8 36.0 30-34 34.80815 36.0 36.0 36.0 32.0 36.0 35-39 34.7902 36.0 36.0 36.0 32.0 36.0 40-44 34.68435 36.0 36.0 36.0 32.8 36.0 45-49 34.49955 36.0 36.0 36.0 32.0 36.0 50-54 34.517546032877235 36.0 36.0 36.0 32.0 36.0 55-59 34.35216412309232 36.0 36.0 36.0 32.0 36.0 60-64 34.11006033567986 36.0 36.0 36.0 32.0 36.0 65-69 34.06658691416349 36.0 36.0 36.0 32.0 36.0 70-74 34.07022453211114 36.0 36.0 36.0 32.0 36.0 75-79 33.929664560096484 36.0 36.0 36.0 30.0 36.0 80-84 33.88401510124678 36.0 36.0 36.0 29.0 36.0 85-89 33.788607252715465 36.0 36.0 36.0 28.0 36.0 90-94 33.726357022350456 36.0 36.0 36.0 28.0 36.0 95-99 33.70276715406516 36.0 36.0 36.0 27.0 36.0 100-104 33.624174107157785 36.0 36.0 36.0 27.0 36.0 105-109 33.22238020453778 36.0 32.8 36.0 27.0 36.0 110-114 33.20262096525427 36.0 32.0 36.0 27.0 36.0 115-119 32.757859462009336 36.0 32.0 36.0 27.0 36.0 120-124 32.23590125899309 34.4 32.0 36.0 24.6 36.0 125-129 32.04768380705724 34.4 32.0 36.0 23.4 36.0 130-134 31.537428080249658 32.0 32.0 36.0 22.2 36.0 135-139 31.64620199884459 32.8 32.0 36.0 21.0 36.0 140-144 31.783309283232217 35.2 32.0 36.0 21.0 36.0 145-149 31.5252286122378 32.0 32.0 36.0 21.0 36.0 150 26.249205340114433 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 7.0 22 3.0 23 14.0 24 17.0 25 38.0 26 42.0 27 72.0 28 71.0 29 104.0 30 140.0 31 194.0 32 243.0 33 404.0 34 934.0 35 1716.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.4 9.125 8.625 52.849999999999994 2 22.725 12.049999999999999 32.425 32.800000000000004 3 22.15 14.45 19.875 43.525000000000006 4 28.349999999999998 22.925 17.474999999999998 31.25 5 26.5 26.924999999999997 21.775 24.8 6 23.251704115122443 30.19439535470841 23.605150214592275 22.948750315576874 7 17.45 21.7 40.1 20.75 8 20.625 17.4 31.175000000000004 30.8 9 21.175 19.45 32.2 27.175 10-14 23.14 24.490000000000002 24.36 28.01 15-19 23.75 23.11 25.235000000000003 27.905 20-24 24.495 24.12 24.68 26.705000000000002 25-29 23.244999999999997 22.935 24.11 29.709999999999997 30-34 23.935000000000002 22.215 25.155 28.694999999999997 35-39 23.98 23.205000000000002 24.215 28.599999999999998 40-44 24.64 23.375 23.73 28.255000000000003 45-49 24.779999999999998 23.225 24.2 27.794999999999998 50-54 22.774109643857543 24.044617847138856 24.67987194877951 28.501400560224088 55-59 23.772829622216662 23.057292969727293 24.728546409807358 28.441330998248688 60-64 22.884028229641125 21.99809800290305 26.13744431653236 28.980429450923467 65-69 22.825814850047564 23.13623391578631 24.938667200720975 29.09928403344515 70-74 24.0491104986219 22.716111250313205 25.031320471059885 28.20345778000501 75-79 24.863264589291987 22.660444578252797 24.356465452355863 28.11982538009935 80-84 24.240898333249408 22.297195226345735 24.553099350420464 28.90880708998439 85-89 23.479404918530513 22.082785143204127 25.118915089565835 29.31889484869952 90-94 24.686256504438322 22.074278134884196 24.829099071523313 28.410366289154165 95-99 22.782393312348418 22.808194437277464 24.85680375664379 29.552608493730325 100-104 23.96303685813294 23.044208757744407 24.52483461094193 28.46791977318072 105-109 24.3932626594199 23.30624764569768 24.3932626594199 27.90722703546252 110-114 24.964052649043246 23.692069461342772 23.797146333370204 27.54673155624378 115-119 24.559490328875626 22.61378637433278 24.829248694254723 27.997474602536876 120-124 24.887258733690096 22.921051049245385 24.598641091936745 27.593049125127774 125-129 24.55884219880665 23.32106131776057 23.422622825948967 28.697473657483812 130-134 24.897931865336993 21.986480155277423 23.820360082993105 29.29522789639248 135-139 25.429406314589126 22.85653196493479 23.88995795025301 27.82410377022308 140-144 24.79257060211616 23.140747507041183 22.630737611326786 29.43594427951587 145-149 25.771553170077155 21.578329419657834 23.25561891982556 29.394498490439453 150 26.255562619198987 0.0 33.248569612205976 40.49586776859504 >>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 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 2.0 32 4.0 33 4.5 34 7.0 35 11.5 36 33.5 37 48.0 38 40.5 39 47.0 40 54.0 41 55.5 42 68.5 43 89.5 44 110.5 45 124.0 46 141.0 47 171.0 48 197.0 49 216.0 50 224.5 51 209.5 52 200.0 53 200.0 54 190.0 55 183.5 56 168.5 57 146.0 58 127.5 59 109.0 60 105.0 61 91.5 62 74.0 63 76.5 64 76.0 65 63.5 66 43.0 67 42.5 68 49.0 69 43.5 70 34.0 71 25.5 72 25.0 73 23.5 74 15.0 75 11.0 76 15.0 77 10.5 78 5.0 79 4.0 80 1.5 81 0.0 82 0.5 83 0.5 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 0.5 100 1.0 >>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 0.975 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.010021546324597884 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 50-54 3.0 55-59 1.0 60-64 1.0 65-69 1.0 70-74 5.0 75-79 10.0 80-84 19.0 85-89 23.0 90-94 41.0 95-99 52.0 100-104 89.0 105-109 95.0 110-114 119.0 115-119 150.0 120-124 174.0 125-129 169.0 130-134 171.0 135-139 176.0 140-144 194.0 145-149 934.0 150-151 1573.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.425 #Duplication Level Percentage of deduplicated Percentage of total 1 84.74633980251957 62.224999999999994 2 7.388491658154579 10.85 3 3.6431733060946545 8.025 4 1.634320735444331 4.8 5 0.8852570650323459 3.25 6 0.4766768811712632 2.1 7 0.34048348655090227 1.7500000000000002 8 0.2383384405856316 1.4000000000000001 9 0.17024174327545114 1.125 >10 0.4766768811712632 4.475 >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 CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 23 0.575 No Hit CCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAATA 18 0.44999999999999996 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 14 0.35000000000000003 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 13 0.325 No Hit CTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACAC 12 0.3 No Hit CTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTG 12 0.3 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 12 0.3 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 11 0.27499999999999997 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 11 0.27499999999999997 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 11 0.27499999999999997 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 11 0.27499999999999997 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 11 0.27499999999999997 No Hit CTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTCC 10 0.25 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 10 0.25 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 9 0.22499999999999998 No Hit CCCGCGTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGT 9 0.22499999999999998 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 9 0.22499999999999998 No Hit GCCCGTTCCCTTGGCTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGG 9 0.22499999999999998 No Hit CCCACTTATCCTACACCTCTCAAGTCATTTCACAAAGTCGGACTAGAGTC 9 0.22499999999999998 No Hit CTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGCACGT 8 0.2 No Hit CCCCGCTCAGGCATAGTTCACCATCTTTCGGGTCCCGACAGGCGTGCTCC 8 0.2 No Hit CCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGC 8 0.2 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 8 0.2 No Hit GTGCGACGTGGGGCTGGATCTCAGTGGATCGTGGCAGCAAGGCCACTCTG 8 0.2 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 8 0.2 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 8 0.2 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 7 0.17500000000000002 No Hit CACGTCAGTATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCC 7 0.17500000000000002 No Hit CTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCC 7 0.17500000000000002 No Hit CCCGAGCCCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGT 7 0.17500000000000002 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 7 0.17500000000000002 No Hit CCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAG 7 0.17500000000000002 No Hit CAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGA 7 0.17500000000000002 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 7 0.17500000000000002 No Hit CCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTC 7 0.17500000000000002 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 7 0.17500000000000002 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 6 0.15 No Hit GTTCGATTAGTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCAC 6 0.15 No Hit CTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCT 6 0.15 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 6 0.15 No Hit GTGCGGTGCTCTTCCGGCCACTGGACCCTACCTCCGGCTGAACCGATTCC 6 0.15 No Hit CTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAA 6 0.15 No Hit CTCATTCCAATTACCAGACACTAATGTGCCCGGTATTGTTATTTATTGTC 6 0.15 No Hit CCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTAAT 6 0.15 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 6 0.15 No Hit CCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCT 6 0.15 No Hit CGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCG 6 0.15 No Hit CGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCC 6 0.15 No Hit CTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATT 6 0.15 No Hit CGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGCAT 6 0.15 No Hit CCCGATTCCATGGCGCGGCTCACCGGAGCAGCCGCGCCGTCCTACCTATT 5 0.125 No Hit ACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTCGCGACG 5 0.125 No Hit CCGGAATCGAACCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCC 5 0.125 No Hit GCAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTCG 5 0.125 No Hit AGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGC 5 0.125 No Hit CGGAAACCTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGG 5 0.125 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 5 0.125 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 5 0.125 No Hit CCCTTGTCCGTACCAGTTCTGAGTCGACTGTTCAGCGCTCGGGGAAAGCC 5 0.125 No Hit GCCCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGC 5 0.125 No Hit GGACGCATCGCCGGCCCCCATCCGCTTCCCTCCCGGCAATTTCAAGCACT 5 0.125 No Hit GTGGGAATCTCGTTAATCCATTCATGCGCGTCACTAATTAGATGACGAGG 5 0.125 No Hit CGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCC 5 0.125 No Hit CCCGACTCGTTGACGGCGCCTCGTGGGGCGACAGGGTCCGGGCCGGACGG 5 0.125 No Hit GTCAAATTAAGCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTC 5 0.125 No Hit CTTGGCTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTT 5 0.125 No Hit CTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGGCTCCAGCTATC 5 0.125 No Hit GTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGC 5 0.125 No Hit CGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTAC 5 0.125 No Hit GTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCAT 5 0.125 No Hit CGCGGCACGGTCATCAGTAGGGTAAAACTAACCTGTCTCACGACGGTCTA 5 0.125 No Hit CCCGCATCGCCAGTTCTGCTTACCAAAAATGGCCCACTTGGAGCTCCCGA 5 0.125 No Hit CCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACC 5 0.125 No Hit GTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGA 5 0.125 No Hit CTCCAATGGATCCTCGTTAAGGGATTTAGATTGTACTCATTCCAATTACC 5 0.125 No Hit CATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACC 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 82-83 0.0 0.0 0.0 0.0 0.0 84-85 0.0 0.0 0.0 0.0 0.0 86-87 0.0 0.0 0.0 0.0 0.0 88-89 0.0 0.0 0.0 0.0 0.0 90-91 0.0 0.0 0.0 0.0 0.0 92-93 0.0 0.0 0.0 0.0 0.0 94-95 0.0 0.0 0.0 0.0 0.0 96-97 0.0 0.0 0.0 0.0 0.0 98-99 0.0 0.0 0.0 0.0 0.0 100-101 0.0 0.0 0.0 0.0 0.0 102-103 0.0 0.0 0.0 0.0 0.0 104-105 0.0 0.0 0.0 0.0 0.0 106-107 0.0125 0.0 0.0 0.0 0.0 108-109 0.025 0.0 0.0 0.0 0.0 110-111 0.025 0.0 0.0 0.0 0.0 112-113 0.025 0.0 0.0 0.0 0.0 114-115 0.025 0.0 0.0 0.0 0.0 116-117 0.025 0.0 0.0 0.0 0.0 118-119 0.05 0.0 0.0 0.0 0.0 120-121 0.05 0.0 0.0 0.0 0.0 122-123 0.05 0.0 0.0 0.0 0.0 124-125 0.05 0.0 0.0 0.0 0.0 126-127 0.05 0.0 0.0 0.0 0.0 128-129 0.0625 0.0 0.0 0.0 0.0 130-131 0.0875 0.0 0.0 0.0 0.0 132-133 0.125 0.0 0.0 0.0 0.0 134-135 0.15 0.0 0.0 0.0 0.0 136-137 0.15 0.0 0.0 0.0 0.0 138 0.15 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440901 READS because READLEN < 1 Read 1440901 spots for SRR12682222.sra Written 1440901 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra Rejected 1440884 READS because READLEN < 1 Read 1440884 spots for SRR12682222.sra Written 1440884 spots for SRR12682222.sra SRR ids: ['SRR12682222.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd__l0lw5la SRR12682222.sra spots: 28817697 blocks: [[1, 1440884], [1440885, 2881768], [2881769, 4322652], [4322653, 5763536], [5763537, 7204420], [7204421, 8645304], [8645305, 10086188], [10086189, 11527072], [11527073, 12967956], [12967957, 14408840], [14408841, 15849724], [15849725, 17290608], [17290609, 18731492], [18731493, 20172376], [20172377, 21613260], [21613261, 23054144], [23054145, 24495028], [24495029, 25935912], [25935913, 27376796], [27376797, 28817697]] SRR12682222 file size 9045639 SRR12682222 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 SRR12682222 SRR12682222_1.fastq Input file: SRR12682222_1.fastq trimmed: SRR12682222-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 03:15:02 2024 >> started Sat Dec 7 03:15:21 2024 >> done (18.402s) 28817697 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 2807 ( 0.01%) empty reads filtered out after trimming by size control 28814890 (99.99%) reads available; of these: 14383 ( 0.05%) trimmed reads available after processing 28800507 (99.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 22 9 0.00% 23 11 0.00% 24 17 0.00% 25 23 0.00% 26 31 0.00% 27 46 0.00% 28 70 0.00% 29 61 0.00% 30 97 0.00% 31 103 0.00% 32 116 0.00% 33 130 0.00% 34 148 0.00% 35 169 0.00% 36 234 0.00% 37 265 0.00% 38 275 0.00% 39 362 0.00% 40 455 0.00% 41 478 0.00% 42 523 0.00% 43 534 0.00% 44 557 0.00% 45 636 0.00% 46 671 0.00% 47 874 0.00% 48 1069 0.00% 49 1175 0.00% 50 1411 0.00% 51 1445 0.01% 52 1593 0.01% 53 1627 0.01% 54 1726 0.01% 55 1985 0.01% 56 2168 0.01% 57 2368 0.01% 58 2907 0.01% 59 3211 0.01% 60 3564 0.01% 61 3917 0.01% 62 4363 0.02% 63 4578 0.02% 64 4877 0.02% 65 5228 0.02% 66 5740 0.02% 67 6463 0.02% 68 6888 0.02% 69 7505 0.03% 70 7819 0.03% 71 9437 0.03% 72 10585 0.04% 73 11844 0.04% 74 12842 0.04% 75 13641 0.05% 76 14711 0.05% 77 15455 0.05% 78 17083 0.06% 79 19354 0.07% 80 20643 0.07% 81 22607 0.08% 82 25579 0.09% 83 26909 0.09% 84 30356 0.11% 85 34473 0.12% 86 39122 0.14% 87 41757 0.14% 88 43404 0.15% 89 46273 0.16% 90 50945 0.18% 91 53325 0.19% 92 61750 0.21% 93 68679 0.24% 94 70378 0.24% 95 78264 0.27% 96 86663 0.30% 97 90323 0.31% 98 103313 0.36% 99 105370 0.37% 100 105545 0.37% 101 108550 0.38% 102 120656 0.42% 103 129392 0.45% 104 137449 0.48% 105 135478 0.47% 106 145750 0.51% 107 157164 0.55% 108 148650 0.52% 109 168098 0.58% 110 167764 0.58% 111 179460 0.62% 112 197347 0.68% 113 188959 0.66% 114 206555 0.72% 115 220654 0.77% 116 226355 0.79% 117 218566 0.76% 118 217614 0.76% 119 230487 0.80% 120 243782 0.85% 121 233396 0.81% 122 257147 0.89% 123 260498 0.90% 124 251443 0.87% 125 257287 0.89% 126 266149 0.92% 127 260342 0.90% 128 264560 0.92% 129 285097 0.99% 130 265703 0.92% 131 265716 0.92% 132 268660 0.93% 133 273277 0.95% 134 265196 0.92% 135 269111 0.93% 136 273626 0.95% 137 280772 0.97% 138 268821 0.93% 139 274315 0.95% 140 270411 0.94% 141 261171 0.91% 142 260964 0.91% 143 254075 0.88% 144 269477 0.94% 145 256657 0.89% 146 321113 1.11% 147 504523 1.75% 148 1130412 3.92% 149 3878971 13.46% 150 11396118 39.55% 28814890 reads passed initial QC criterion=sequence-density sequence-density=1.38 sequence-density-rank=1 fanout-score=2.83 fanout-score-rank=32 prefix-density=1.40 prefix-fanout=2.8 sequence=CCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGGTCAGACCGGGCCTTGGAGCCAAAAGGAGGGGACTTGCCCCGCTTCCGACCCACGGAATAAGTAAAATAACGTTAAAAGTAGTGGTATTTCACTTGCGCCCGTAAAGGCTCCCACTTATCCTACACCTCTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=33 fanout-score=40.36 fanout-score-rank=1 prefix-density=1.84 prefix-fanout=1.0 sequence=TGGGTAATTTGTGCGCCTGCTGC Started job on | Dec 07 03:15:46 Started mapping on | Dec 07 03:15:46 Finished on | Dec 07 03:17:36 Mapping speed, Million of reads per hour | 943.03 Number of input reads | 28814890 Average input read length | 138 UNIQUE READS: Uniquely mapped reads number | 8782306 Uniquely mapped reads % | 30.48% Average mapped length | 138.21 Number of splices: Total | 3465735 Number of splices: Annotated (sjdb) | 3269885 Number of splices: GT/AG | 3418782 Number of splices: GC/AG | 41642 Number of splices: AT/AC | 2747 Number of splices: Non-canonical | 2564 Mismatch rate per base, % | 0.25% Deletion rate per base | 0.01% Deletion average length | 1.81 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1158450 % of reads mapped to multiple loci | 4.02% Number of reads mapped to too many loci | 16166658 % of reads mapped to too many loci | 56.11% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.44% % of reads unmapped: other | 7.95% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 18874134 18874134 18874134 N_multimapping 1158450 1158450 1158450 N_noFeature 587694 8566530 652637 N_ambiguous 187013 832 37164 UnstrandedReadsAssigned:8007599 PositiveStrandReadsAssigned:214944 NegativeStrandReadsAssigned:8092505 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=124 echo kmer=119 SRR12682222 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: SRR12682222-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 28,814,890 reads, 8,294,030 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,048 rounds 52973 SRR12682222.ke.tsv 35125 SRR12682222.se.tsv 88098 total ==> SRR12682222.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 30.645 5.75623 PNS24249 1928 1829 65.5615 6.36276 PNS24246 1044 945 30.645 5.75623 PNS24248 1044 945 30.645 5.75623 PNS24244 1471 1372 79.5034 10.2859 PNS24243 293 194 2 1.82995 KQK14069 1603 1504 3724.25 439.543 KQK14071 474 375 138.845 65.7217 ==> SRR12682222.se.tsv <== BRADI_1g14170v3 4093 BRADI_1g53295v3 34 BRADI_1g59795v3 146 BRADI_1g07683v3 0 BRADI_1g00485v3 8 BRADI_1g20270v3 716 BRADI_1g74790v3 164 BRADI_1g09890v3 0 BRADI_1g77505v3 92 BRADI_1g48960v3 1 SRR12682222 completed mapping pipeline successfully