Starting /dee2/code/volunteer_pipeline.sh SRR12682230 current disk space = 1547272957952 free memory = 1601652576 SRR12682230 SRAfilesize df8f92597b21af5c872d3ba5ce16b9b4 SRR12682230.sra SRR12682230.sra file validated SRR12682230 is single end SRR12682230 is conventional basespace SRR12682230 read1 length is 58-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682230_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 58-150 %GC 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.39675 32.0 32.0 32.0 32.0 32.0 2 31.507 32.0 32.0 32.0 32.0 32.0 3 31.518 32.0 32.0 32.0 32.0 32.0 4 31.561 32.0 32.0 32.0 32.0 32.0 5 31.55325 32.0 32.0 32.0 32.0 32.0 6 34.7835 36.0 36.0 36.0 36.0 36.0 7 35.0875 36.0 36.0 36.0 36.0 36.0 8 34.90125 36.0 36.0 36.0 32.0 36.0 9 35.038 36.0 36.0 36.0 36.0 36.0 10-14 35.04225 36.0 36.0 36.0 36.0 36.0 15-19 34.97474999999999 36.0 36.0 36.0 35.2 36.0 20-24 34.86364999999999 36.0 36.0 36.0 32.8 36.0 25-29 34.6375 36.0 36.0 36.0 32.0 36.0 30-34 34.67954999999999 36.0 36.0 36.0 32.0 36.0 35-39 34.63645 36.0 36.0 36.0 32.0 36.0 40-44 34.5947 36.0 36.0 36.0 32.0 36.0 45-49 34.386849999999995 36.0 36.0 36.0 32.0 36.0 50-54 34.3606 36.0 36.0 36.0 32.0 36.0 55-59 34.18580823955989 36.0 36.0 36.0 32.0 36.0 60-64 34.03646448414467 36.0 36.0 36.0 32.0 36.0 65-69 33.96715224018389 36.0 36.0 36.0 31.0 36.0 70-74 33.95494257302825 36.0 36.0 36.0 31.0 36.0 75-79 33.79821711287721 36.0 36.0 36.0 28.0 36.0 80-84 33.80287158250198 36.0 36.0 36.0 27.0 36.0 85-89 33.746066426403544 36.0 36.0 36.0 28.0 36.0 90-94 33.56886930467631 36.0 36.0 36.0 27.0 36.0 95-99 33.54445869403716 36.0 36.0 36.0 27.0 36.0 100-104 33.51616000201756 36.0 36.0 36.0 27.0 36.0 105-109 33.20245390052765 36.0 32.8 36.0 27.0 36.0 110-114 33.06142762489751 36.0 32.0 36.0 27.0 36.0 115-119 32.604621138733464 36.0 32.0 36.0 27.0 36.0 120-124 32.00807086680222 34.4 32.0 36.0 24.6 36.0 125-129 31.823851720169284 33.6 32.0 36.0 23.4 36.0 130-134 31.44851590477212 32.0 32.0 36.0 21.0 36.0 135-139 31.43105514599368 32.0 32.0 36.0 21.0 36.0 140-144 31.733767631144712 34.4 32.0 36.0 21.0 36.0 145-149 31.379925167963137 32.0 32.0 36.0 18.2 36.0 150 26.153342070773263 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 2.0 20 2.0 21 6.0 22 12.0 23 12.0 24 22.0 25 32.0 26 67.0 27 71.0 28 83.0 29 109.0 30 137.0 31 165.0 32 276.0 33 412.0 34 960.0 35 1632.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 31.5 8.7 7.175 52.625 2 22.225 12.950000000000001 33.175 31.65 3 19.5 15.049999999999999 22.15 43.3 4 27.3 23.549999999999997 18.75 30.4 5 26.525 27.55 22.225 23.7 6 22.356495468277945 31.369587109768375 24.395770392749245 21.87814702920443 7 19.675 21.05 37.5 21.775 8 19.475 19.975 32.324999999999996 28.225 9 19.5 20.05 34.475 25.974999999999998 10-14 22.875 25.56 24.529999999999998 27.034999999999997 15-19 22.62 23.78 26.275 27.325 20-24 23.53 24.635 25.080000000000002 26.755000000000003 25-29 23.13 23.465 24.825 28.58 30-34 23.305 23.65 24.65 28.395 35-39 23.369999999999997 24.325 24.68 27.625 40-44 23.935000000000002 23.825 24.035 28.205000000000002 45-49 23.355 23.57 25.419999999999998 27.655 50-54 23.21 24.104999999999997 24.42 28.265 55-59 22.95114755737787 23.67118355917796 24.72123606180309 28.656432821641083 60-64 23.461730865432717 22.086043021510758 26.3831915957979 28.06903451725863 65-69 22.62506885672793 24.127397466072413 25.169011968551253 28.078521708648406 70-74 24.163326653306612 23.251503006012026 24.884769539078157 27.70040080160321 75-79 24.044977661763966 22.98077405752723 24.110235429948297 28.864012850760506 80-84 24.129942080080585 22.99672626542433 25.016368672878368 27.85696298161672 85-89 24.022318031955365 23.00278975399442 25.214303829571392 27.760588384478822 90-94 24.108971732896354 23.095043015157724 24.457189676362145 28.338795575583774 95-99 22.69404261938093 23.99543734121429 25.198320111992533 28.112199927412245 100-104 24.56399957721171 23.248071028432513 23.99323538737977 28.194694006976007 105-109 23.4324148405294 22.900846170535907 25.884139726621825 27.782599262312868 110-114 24.242763563070376 23.380549801242932 24.763451094563575 27.613235541123117 115-119 24.935717625058437 22.931276297335206 24.643525011687707 27.489481065918653 120-124 24.437082029572366 23.553592244923003 24.394134609485242 27.61519111601939 125-129 24.582790091264666 23.611473272490223 23.318122555410692 28.487614080834422 130-134 24.892076312491294 23.06085503411781 24.181868820498536 27.86519983289236 135-139 24.905211508438036 23.470373949892203 24.16177235893242 27.462642182737344 140-144 24.395273217543025 23.943215163771907 23.77666745975097 27.884844158934097 145-149 24.811378024455816 22.409157922122976 23.883444627525797 28.896019425895414 150 24.442988204456096 0.0 35.64875491480996 39.908256880733944 >>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 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 0.5 26 0.5 27 0.5 28 0.5 29 0.5 30 2.5 31 3.5 32 5.0 33 10.5 34 14.0 35 21.0 36 35.0 37 45.0 38 54.0 39 59.0 40 64.5 41 81.5 42 96.5 43 121.0 44 138.0 45 137.0 46 156.0 47 162.5 48 167.0 49 205.5 50 216.5 51 209.0 52 203.5 53 182.5 54 174.0 55 179.0 56 170.0 57 142.0 58 115.0 59 103.5 60 98.5 61 86.0 62 76.5 63 70.0 64 64.0 65 57.0 66 50.5 67 47.5 68 41.0 69 32.5 70 28.5 71 23.0 72 19.5 73 15.0 74 8.5 75 9.5 76 9.0 77 5.5 78 2.5 79 2.5 80 1.5 81 0.0 82 0.0 83 0.0 84 0.0 85 0.5 86 0.5 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 0.7000000000000001 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 0.0 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 58-59 1.0 60-61 1.0 62-63 1.0 64-65 3.0 66-67 1.0 68-69 0.0 70-71 1.0 72-73 1.0 74-75 5.0 76-77 4.0 78-79 4.0 80-81 5.0 82-83 10.0 84-85 17.0 86-87 8.0 88-89 17.0 90-91 13.0 92-93 21.0 94-95 22.0 96-97 14.0 98-99 30.0 100-101 41.0 102-103 27.0 104-105 40.0 106-107 51.0 108-109 38.0 110-111 46.0 112-113 62.0 114-115 68.0 116-117 59.0 118-119 52.0 120-121 71.0 122-123 97.0 124-125 65.0 126-127 68.0 128-129 81.0 130-131 87.0 132-133 70.0 134-135 65.0 136-137 89.0 138-139 53.0 140-141 70.0 142-143 69.0 144-145 68.0 146-147 106.0 148-149 752.0 150-151 1526.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 76.5 #Duplication Level Percentage of deduplicated Percentage of total 1 87.09150326797386 66.625 2 5.980392156862745 9.15 3 3.2679738562091507 7.5 4 1.3725490196078431 4.2 5 0.8169934640522877 3.125 6 0.32679738562091504 1.5 7 0.42483660130718953 2.275 8 0.32679738562091504 2.0 9 0.09803921568627451 0.675 >10 0.29411764705882354 2.9499999999999997 >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 CCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAATA 20 0.5 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 17 0.42500000000000004 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 13 0.325 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 13 0.325 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 12 0.3 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 11 0.27499999999999997 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 11 0.27499999999999997 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 11 0.27499999999999997 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 10 0.25 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 9 0.22499999999999998 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 9 0.22499999999999998 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 9 0.22499999999999998 No Hit CCCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTA 8 0.2 No Hit CCCCCATCCGCTTCCCTCCCGGCAATTTCAAGCACTCTTTGACTCTCTTT 8 0.2 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 8 0.2 No Hit GCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGC 8 0.2 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 8 0.2 No Hit CATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCTTTTATCTAAT 8 0.2 No Hit CCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCT 8 0.2 No Hit CCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAG 8 0.2 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 8 0.2 No Hit CACCATCTTTCGGGTCCCGACAGGCGTGCTCCAACTCGAACCCTTCACAG 8 0.2 No Hit CCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCA 7 0.17500000000000002 No Hit CAGAGCGATGGCTTGCTTTGAGCACTCTAATTTCTTCAAAGTAACGATGC 7 0.17500000000000002 No Hit CCCGGCTTCCGGTTCATCCCGCATCGCCAGTTCTGCTTACCAAAAATGGC 7 0.17500000000000002 No Hit CGGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTT 7 0.17500000000000002 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 7 0.17500000000000002 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 7 0.17500000000000002 No Hit CTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAG 7 0.17500000000000002 No Hit GTCGTCTGCAAAGGATTCAGCCCGCCGCCCGTGGGGAAGGGAGCTTCGAG 7 0.17500000000000002 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 7 0.17500000000000002 No Hit GGCTTGCTTTGAGCACTCTAATTTCTTCAAAGTAACGATGCCGGAGGCAC 7 0.17500000000000002 No Hit CCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGAC 7 0.17500000000000002 No Hit CATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACC 7 0.17500000000000002 No Hit CCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAA 7 0.17500000000000002 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 6 0.15 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 6 0.15 No Hit CTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTG 6 0.15 No Hit GCACGTACCATCAAACAAACTATAACTGATTTAATGAGCCATTCGCAGTT 6 0.15 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 6 0.15 No Hit CACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTT 6 0.15 No Hit TGATAGAACTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGG 6 0.15 No Hit GTGCGACGTGGGGCTGGATCTCAGTGGATCGTGGCAGCAAGGCCACTCTG 6 0.15 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 6 0.15 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 6 0.15 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 5 0.125 No Hit CCCCGCTCAGGCATAGTTCACCATCTTTCGGGTCCCGACAGGCGTGCTCC 5 0.125 No Hit GTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTGGCAGC 5 0.125 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 5 0.125 No Hit GCCCGTTCCCTTGGCTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGG 5 0.125 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 5 0.125 No Hit CTTGGCAAATGCTTTCGCAGTTGTTCGTCTTTCATAAATCCAAGAATTTC 5 0.125 No Hit AGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCC 5 0.125 No Hit GCAGAAATCACATTGCGTCAGCATCCGCGAGGACCATCGCAATGCTTTGT 5 0.125 No Hit CGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCC 5 0.125 No Hit GTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTCGCG 5 0.125 No Hit GTCGGGGTTTGTTGCACGTATTAGCTCTAGAATTACTACGGTTATCCGAG 5 0.125 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 5 0.125 No Hit CCCGACAGGCGTGCTCCAACTCGAACCCTTCACAGAAGATCAGGGTCGGC 5 0.125 No Hit CGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACT 5 0.125 No Hit GTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGC 5 0.125 No Hit CCATGCTAATGTATCCAGAGCGATGGCTTGCTTTGAGCACTCTAATTTCT 5 0.125 No Hit GTCGGATTCCCCTTGTCCGTACCAGTTCTGAGTCGACTGTTCAGCGCTCG 5 0.125 No Hit CTAATTTCTTCAAAGTAACGATGCCGGAGGCACGACCCGGCCAATTAAGG 5 0.125 No Hit CCTTGGCAAATGCTTTCGCAGTTGTTCGTCTTTCATAAATCCAAGAATTT 5 0.125 No Hit CCCGCATCGCCAGTTCTGCTTACCAAAAATGGCCCACTTGGAGCTCCCGA 5 0.125 No Hit GTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGA 5 0.125 No Hit GTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTT 5 0.125 No Hit GTCCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGA 5 0.125 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 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 0.0 0.0 0.0 0.0 0.0 108-109 0.0 0.0 0.0 0.0 0.0 110-111 0.0 0.0 0.0 0.0 0.0 112-113 0.0 0.0 0.0 0.0 0.0 114-115 0.0 0.0 0.0 0.0 0.0 116-117 0.0 0.0 0.0 0.0 0.0 118-119 0.0 0.0 0.0 0.0 0.0 120-121 0.0 0.0 0.0 0.0 0.0 122-123 0.037500000000000006 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 0.05 0.0 0.0 0.0 0.0 130-131 0.05 0.0 0.0 0.0 0.0 132-133 0.0625 0.0 0.0 0.0 0.0 134-135 0.075 0.0 0.0 0.0 0.0 136-137 0.075 0.0 0.0 0.0 0.0 138 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TGGTAAC 10 0.009148636 131.5 6 CCTGTGG 10 0.009148636 131.5 2 CCCTGTG 10 0.009148636 131.5 1 CTGTGGT 10 0.009148636 131.5 3 GTGGTAA 10 0.009148636 131.5 5 GGTAACT 10 0.009148636 131.5 7 >>END_MODULE Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459939 READS because READLEN < 1 Read 1459939 spots for SRR12682230.sra Written 1459939 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra Rejected 1459921 READS because READLEN < 1 Read 1459921 spots for SRR12682230.sra Written 1459921 spots for SRR12682230.sra SRR ids: ['SRR12682230.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_60sjbnpj SRR12682230.sra spots: 29198438 blocks: [[1, 1459921], [1459922, 2919842], [2919843, 4379763], [4379764, 5839684], [5839685, 7299605], [7299606, 8759526], [8759527, 10219447], [10219448, 11679368], [11679369, 13139289], [13139290, 14599210], [14599211, 16059131], [16059132, 17519052], [17519053, 18978973], [18978974, 20438894], [20438895, 21898815], [21898816, 23358736], [23358737, 24818657], [24818658, 26278578], [26278579, 27738499], [27738500, 29198438]] SRR12682230 file size 9118585 SRR12682230 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 SRR12682230 SRR12682230_1.fastq Input file: SRR12682230_1.fastq trimmed: SRR12682230-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 03:58:58 2024 >> started Sat Dec 7 03:59:16 2024 >> done (18.364s) 29198438 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 2204 ( 0.01%) empty reads filtered out after trimming by size control 29196234 (99.99%) reads available; of these: 14687 ( 0.05%) trimmed reads available after processing 29181547 (99.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 1 0.00% 19 0 0.00% 20 1 0.00% 21 0 0.00% 22 26 0.00% 23 25 0.00% 24 36 0.00% 25 42 0.00% 26 61 0.00% 27 59 0.00% 28 77 0.00% 29 101 0.00% 30 138 0.00% 31 135 0.00% 32 180 0.00% 33 211 0.00% 34 200 0.00% 35 295 0.00% 36 278 0.00% 37 345 0.00% 38 441 0.00% 39 563 0.00% 40 648 0.00% 41 790 0.00% 42 706 0.00% 43 857 0.00% 44 853 0.00% 45 822 0.00% 46 905 0.00% 47 1183 0.00% 48 1481 0.01% 49 1717 0.01% 50 1917 0.01% 51 2063 0.01% 52 2253 0.01% 53 2360 0.01% 54 2462 0.01% 55 2645 0.01% 56 2839 0.01% 57 3185 0.01% 58 3910 0.01% 59 4363 0.01% 60 4703 0.02% 61 5250 0.02% 62 5789 0.02% 63 6026 0.02% 64 6226 0.02% 65 6801 0.02% 66 7577 0.03% 67 8235 0.03% 68 8806 0.03% 69 9689 0.03% 70 10017 0.03% 71 11990 0.04% 72 13457 0.05% 73 14774 0.05% 74 15548 0.05% 75 16980 0.06% 76 18524 0.06% 77 19785 0.07% 78 20873 0.07% 79 23742 0.08% 80 25872 0.09% 81 27817 0.10% 82 31074 0.11% 83 32640 0.11% 84 36168 0.12% 85 41382 0.14% 86 47131 0.16% 87 49704 0.17% 88 52339 0.18% 89 55095 0.19% 90 60233 0.21% 91 62450 0.21% 92 70760 0.24% 93 77425 0.27% 94 79933 0.27% 95 89133 0.31% 96 95560 0.33% 97 100358 0.34% 98 113997 0.39% 99 114839 0.39% 100 117222 0.40% 101 121055 0.41% 102 130539 0.45% 103 141681 0.49% 104 146653 0.50% 105 148411 0.51% 106 157415 0.54% 107 168471 0.58% 108 161652 0.55% 109 178451 0.61% 110 178315 0.61% 111 190908 0.65% 112 207564 0.71% 113 200983 0.69% 114 217562 0.75% 115 231355 0.79% 116 237497 0.81% 117 228984 0.78% 118 226387 0.78% 119 240174 0.82% 120 257404 0.88% 121 245361 0.84% 122 267687 0.92% 123 276369 0.95% 124 263584 0.90% 125 267529 0.92% 126 275068 0.94% 127 267290 0.92% 128 273202 0.94% 129 291490 1.00% 130 275489 0.94% 131 276762 0.95% 132 280268 0.96% 133 285214 0.98% 134 274480 0.94% 135 281033 0.96% 136 286600 0.98% 137 288901 0.99% 138 273408 0.94% 139 280903 0.96% 140 275076 0.94% 141 267409 0.92% 142 269401 0.92% 143 263744 0.90% 144 277955 0.95% 145 264602 0.91% 146 327608 1.12% 147 523759 1.79% 148 1134484 3.89% 149 3936059 13.48% 150 10996940 37.67% 29196234 reads passed initial QC criterion=sequence-density sequence-density=0.75 sequence-density-rank=1 fanout-score=2.71 fanout-score-rank=29 prefix-density=2.02 prefix-fanout=1.0 sequence=CTTGGATGTGGCAGCCGTTTCTC criterion=fanout-score sequence-density=0.06 sequence-density-rank=32 fanout-score=39.88 fanout-score-rank=1 prefix-density=2.12 prefix-fanout=1.2 sequence=CCCCCGGAATAAGTA Started job on | Dec 07 03:59:40 Started mapping on | Dec 07 03:59:40 Finished on | Dec 07 04:01:08 Mapping speed, Million of reads per hour | 1194.39 Number of input reads | 29196234 Average input read length | 137 UNIQUE READS: Uniquely mapped reads number | 11461141 Uniquely mapped reads % | 39.26% Average mapped length | 137.33 Number of splices: Total | 4649733 Number of splices: Annotated (sjdb) | 4388625 Number of splices: GT/AG | 4587684 Number of splices: GC/AG | 55356 Number of splices: AT/AC | 3330 Number of splices: Non-canonical | 3363 Mismatch rate per base, % | 0.25% Deletion rate per base | 0.01% Deletion average length | 1.67 Insertion rate per base | 0.00% Insertion average length | 1.13 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1172712 % of reads mapped to multiple loci | 4.02% Number of reads mapped to too many loci | 13991764 % of reads mapped to too many loci | 47.92% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.13% % of reads unmapped: other | 6.67% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 16562381 16562381 16562381 N_multimapping 1172712 1172712 1172712 N_noFeature 711166 11178153 801643 N_ambiguous 232827 1293 41429 UnstrandedReadsAssigned:10517148 PositiveStrandReadsAssigned:281695 NegativeStrandReadsAssigned:10618069 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=122 echo kmer=117 SRR12682230 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: SRR12682230-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 29,196,234 reads, 10,885,835 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,039 rounds 52973 SRR12682230.ke.tsv 35125 SRR12682230.se.tsv 88098 total ==> SRR12682230.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 32.6799 4.95952 PNS24249 1928 1829 41.4961 3.25375 PNS24246 1044 945 32.6799 4.95952 PNS24248 1044 945 32.6799 4.95952 PNS24244 1471 1372 114.464 11.9648 PNS24243 293 194 0 0 KQK14069 1603 1504 3250.46 309.947 KQK14071 474 375 164.601 62.9494 ==> SRR12682230.se.tsv <== BRADI_1g14170v3 3639 BRADI_1g53295v3 53 BRADI_1g59795v3 186 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 675 BRADI_1g74790v3 272 BRADI_1g09890v3 0 BRADI_1g77505v3 129 BRADI_1g48960v3 0 SRR12682230 completed mapping pipeline successfully