Starting /dee2/code/volunteer_pipeline.sh ERR6133512 current disk space = 1544390983680 free memory = 1474425396 ERR6133512 SRAfilesize 6c23ae502fd839a0993e31dd94a28c72 ERR6133512.sra ERR6133512.sra file validated ERR6133512 is single end ERR6133512 is conventional basespace ERR6133512 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133512_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 36.581 37.0 37.0 37.0 37.0 37.0 2 36.82825 37.0 37.0 37.0 37.0 37.0 3 36.559 37.0 37.0 37.0 37.0 37.0 4 36.03075 37.0 37.0 37.0 33.0 37.0 5 36.118 37.0 37.0 37.0 33.0 37.0 6 36.403 37.0 37.0 37.0 37.0 37.0 7 38.457 40.0 37.0 40.0 37.0 40.0 8 38.51125 40.0 37.0 40.0 37.0 40.0 9 38.5555 40.0 37.0 40.0 37.0 40.0 10-11 38.51049999999999 40.0 37.0 40.0 37.0 40.0 12-13 38.449625 40.0 37.0 40.0 37.0 40.0 14-15 38.431 40.0 37.0 40.0 37.0 40.0 16-17 38.345124999999996 40.0 37.0 40.0 37.0 40.0 18-19 38.272499999999994 40.0 37.0 40.0 37.0 40.0 20-21 38.2675 40.0 37.0 40.0 37.0 40.0 22-23 38.413375 40.0 37.0 40.0 37.0 40.0 24-25 38.337374999999994 40.0 37.0 40.0 37.0 40.0 26-27 38.296125 40.0 37.0 40.0 37.0 40.0 28-29 38.25 40.0 37.0 40.0 37.0 40.0 30-31 38.286500000000004 40.0 37.0 40.0 37.0 40.0 32-33 38.300875000000005 40.0 37.0 40.0 37.0 40.0 34-35 38.233000000000004 40.0 37.0 40.0 37.0 40.0 36-37 38.146375 40.0 37.0 40.0 37.0 40.0 38-39 37.978375 37.0 37.0 40.0 37.0 40.0 40-41 37.785375 37.0 37.0 40.0 37.0 40.0 42-43 37.761250000000004 37.0 37.0 40.0 37.0 40.0 44-45 37.578875 37.0 37.0 40.0 37.0 40.0 46-47 37.477875 37.0 37.0 40.0 37.0 40.0 48-49 37.317375 37.0 37.0 40.0 37.0 40.0 50-51 37.096125 37.0 37.0 37.0 33.0 40.0 52-53 36.701625 37.0 37.0 37.0 33.0 40.0 54-55 36.63525 37.0 37.0 37.0 33.0 40.0 56-57 36.529250000000005 37.0 37.0 37.0 33.0 40.0 58-59 36.144125 37.0 37.0 37.0 33.0 37.0 60-61 36.183375 37.0 37.0 37.0 33.0 37.0 62-63 36.058125000000004 37.0 37.0 37.0 33.0 37.0 64-65 36.038875000000004 37.0 37.0 37.0 33.0 37.0 66-67 36.017125 37.0 37.0 37.0 33.0 37.0 68-69 35.071 35.0 35.0 37.0 33.0 37.0 70-71 35.248380522088354 37.0 33.0 37.0 33.0 37.0 72-73 35.77485184367523 37.0 37.0 37.0 33.0 37.0 74-75 35.757885872291936 37.0 37.0 37.0 33.0 37.0 76-77 35.68785656472154 37.0 35.0 37.0 33.0 37.0 78-79 35.586432413718185 37.0 33.0 37.0 33.0 37.0 80-81 35.463625539115455 37.0 33.0 37.0 33.0 37.0 82-83 35.466417149271734 37.0 33.0 37.0 33.0 37.0 84-85 35.28843315189209 37.0 33.0 37.0 33.0 37.0 86-87 35.19097863360591 37.0 33.0 37.0 33.0 37.0 88-89 35.191638090213665 37.0 33.0 37.0 33.0 37.0 90-91 35.10894223160116 37.0 33.0 37.0 33.0 37.0 92-93 35.06858348720654 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 3.0 22 1.0 23 6.0 24 4.0 25 3.0 26 8.0 27 12.0 28 13.0 29 15.0 30 16.0 31 20.0 32 37.0 33 65.0 34 99.0 35 271.0 36 997.0 37 1485.0 38 920.0 39 24.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 84.85000000000001 3.5999999999999996 3.125 8.425 2 68.75 18.325 8.525 4.3999999999999995 3 33.85 37.85 15.875 12.425 4 33.15 26.025 20.1 20.724999999999998 5 23.05 30.175 29.349999999999998 17.424999999999997 6 19.175 36.075 27.1 17.65 7 33.575 30.425 20.275000000000002 15.725 8 28.000000000000004 31.674999999999997 25.074999999999996 15.25 9 25.525 28.000000000000004 29.175 17.299999999999997 10-11 22.8375 28.712500000000002 29.0875 19.3625 12-13 25.900000000000002 27.6625 28.875 17.5625 14-15 21.625 30.575000000000003 29.45 18.35 16-17 22.9875 31.924999999999997 26.05 19.037499999999998 18-19 22.775000000000002 27.625 28.525 21.075 20-21 23.7 26.087500000000002 29.762499999999996 20.45 22-23 25.8 24.95 27.950000000000003 21.3 24-25 25.2 25.974999999999998 28.225 20.599999999999998 26-27 24.125 26.1 31.75 18.025 28-29 24.9125 28.212500000000002 28.262500000000003 18.6125 30-31 24.425 26.775 28.5875 20.2125 32-33 23.3375 26.200000000000003 29.6875 20.775 34-35 24.1875 27.9125 27.8625 20.0375 36-37 24.25 27.0875 27.800000000000004 20.8625 38-39 25.825 25.35 31.35 17.474999999999998 40-41 27.37961225766104 25.37836147592245 27.19199499687305 20.050031269543464 42-43 25.159434788045516 28.148055520820307 27.085156933850197 19.607352757283984 44-45 22.25 28.075 29.425 20.25 46-47 22.525000000000002 26.200000000000003 29.912499999999998 21.3625 48-49 24.0375 25.674999999999997 31.65 18.637500000000003 50-51 23.22790348793599 27.165895736967123 30.753844230528816 18.85235654456807 52-53 23.776662484316187 29.648682559598495 27.289836888331244 19.284818067754077 54-55 24.046517444041516 29.02338376891334 29.19844941853195 17.731649368513192 56-57 26.375 26.187500000000004 28.1625 19.275000000000002 58-59 25.1875 24.887500000000003 28.749999999999996 21.175 60-61 24.75 27.5125 29.475 18.2625 62-63 22.15 29.075 31.8625 16.9125 64-65 22.287499999999998 29.212500000000002 30.725 17.775 66-67 23.425 27.875 29.9625 18.7375 68-69 21.65 27.975 28.375 22.0 70-71 23.897795591182362 27.429859719438877 28.632264529058116 20.04008016032064 72-73 24.936804853387258 25.429726996966632 29.42366026289181 20.209807886754298 74-75 25.655383049121916 26.762534996182236 28.87503181471112 18.70705013998473 76-77 23.406705912464805 28.12899923214743 28.551318146915794 19.912976708471973 78-79 22.934124017016888 25.87340466675261 31.5199174938765 19.672553822354004 80-81 21.643052125308724 29.87131158195762 31.002209801117896 17.483426491615756 82-83 21.626569037656903 28.360355648535563 29.06642259414226 20.94665271966527 84-85 23.87784651836251 25.37843885744373 31.3676451230749 19.376069501118863 86-87 22.276444209970983 27.472962279082036 30.836190978633603 19.414402532313375 88-89 20.28488525455025 29.504088630968084 30.031653917172253 20.179372197309416 90-91 26.1012925349512 26.747560010551307 28.462147190714848 18.689000263782642 92-93 21.26088103402796 31.310999736217354 28.699551569506728 18.728567660247954 >>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 4.5 18 4.5 19 0.5 20 2.5 21 3.0 22 3.5 23 5.5 24 7.0 25 9.5 26 13.0 27 17.5 28 21.0 29 23.5 30 28.0 31 40.5 32 55.0 33 73.5 34 78.5 35 85.5 36 102.5 37 148.0 38 226.5 39 225.0 40 208.5 41 211.0 42 235.5 43 275.5 44 234.5 45 221.5 46 238.0 47 214.0 48 196.5 49 187.0 50 164.5 51 141.5 52 126.5 53 137.0 54 120.0 55 63.0 56 39.0 57 36.0 58 34.5 59 24.5 60 17.5 61 16.0 62 13.0 63 9.0 64 6.0 65 6.0 66 6.0 67 7.5 68 6.5 69 4.5 70 3.5 71 3.0 72 2.0 73 0.5 74 0.0 75 0.0 76 0.0 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 0.0625 42-43 0.0375 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0125 52-53 0.375 54-55 0.0375 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 16.0 71 19.0 72 18.0 73 12.0 74 12.0 75 8.0 76 16.0 77 16.0 78 9.0 79 22.0 80 11.0 81 8.0 82 18.0 83 9.0 84 15.0 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 3791.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 74.9 #Duplication Level Percentage of deduplicated Percentage of total 1 91.98931909212284 68.89999999999999 2 4.105473965287049 6.15 3 1.5020026702269693 3.375 4 0.5674232309746329 1.7000000000000002 5 0.36715620827770357 1.375 6 0.16688918558077437 0.75 7 0.16688918558077437 0.8750000000000001 8 0.10013351134846463 0.6 9 0.10013351134846463 0.675 >10 0.8344459279038717 10.7 >50 0.10013351134846463 4.9 >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 GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 74 1.8499999999999999 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 62 1.55 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 60 1.5 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 47 1.175 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 27 0.675 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 26 0.65 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 22 0.5499999999999999 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 22 0.5499999999999999 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 21 0.525 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 21 0.525 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 20 0.5 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 19 0.475 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 17 0.42500000000000004 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 16 0.4 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 15 0.375 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 14 0.35000000000000003 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 13 0.325 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 13 0.325 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 13 0.325 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 12 0.3 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 12 0.3 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 12 0.3 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 12 0.3 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 11 0.27499999999999997 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 11 0.27499999999999997 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 11 0.27499999999999997 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 11 0.27499999999999997 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 10 0.25 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 9 0.22499999999999998 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 9 0.22499999999999998 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 9 0.22499999999999998 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 8 0.2 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 8 0.2 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 8 0.2 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 7 0.17500000000000002 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 7 0.17500000000000002 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 7 0.17500000000000002 No Hit GGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCA 7 0.17500000000000002 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 7 0.17500000000000002 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 6 0.15 No Hit CGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAG 6 0.15 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 6 0.15 No Hit GGAAATGGTGAAGATGATACGAATATGCCGGCCGGGTGCTGATATTGTGA 6 0.15 No Hit GGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAA 6 0.15 No Hit TAATTAAGAATCAAGTCATCTCATTCTCATCTATGCAATTGCAAACACAA 5 0.125 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 5 0.125 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 5 0.125 No Hit GGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGAT 5 0.125 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 5 0.125 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 5 0.125 No Hit GGCCGATTAATCTTCCAATATGCTAGTTTCAACAACTCTCGTTCTTTACA 5 0.125 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 5 0.125 No Hit GGATTCCGGCGGAACAAACTAAAATCTAGTACTGCTCTTGTATTGGATCT 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 0.025 0.0 0.0 0.0 0.0 16-17 0.025 0.0 0.0 0.0 0.0 18-19 0.025 0.0 0.0 0.0 0.0 20-21 0.025 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 0.037500000000000006 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 0.05 0.0 0.0 0.0 0.0 36-37 0.075 0.0 0.0 0.0 0.0 38-39 0.075 0.0 0.0 0.0 0.0 40-41 0.075 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 0.1 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 0.125 0.0 0.0 0.0 0.0 68-69 0.125 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.125 0.0 0.0 0.0 0.0 74-75 0.1375 0.0 0.0 0.0 0.0 76-77 0.15 0.0 0.0 0.0 0.0 78-79 0.15 0.0 0.0 0.0 0.0 80-81 0.15 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGAATTT 15 9.0703985E-4 86.125 1 >>END_MODULE Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100395 READS because READLEN < 1 Read 100395 spots for ERR6133512.sra Written 100395 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra Rejected 100388 READS because READLEN < 1 Read 100388 spots for ERR6133512.sra Written 100388 spots for ERR6133512.sra SRR ids: ['ERR6133512.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_pava8qkh ERR6133512.sra spots: 2007767 blocks: [[1, 100388], [100389, 200776], [200777, 301164], [301165, 401552], [401553, 501940], [501941, 602328], [602329, 702716], [702717, 803104], [803105, 903492], [903493, 1003880], [1003881, 1104268], [1104269, 1204656], [1204657, 1305044], [1305045, 1405432], [1405433, 1505820], [1505821, 1606208], [1606209, 1706596], [1706597, 1806984], [1806985, 1907372], [1907373, 2007767]] ERR6133512 file size 441670 ERR6133512 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 ERR6133512 ERR6133512_1.fastq Input file: ERR6133512_1.fastq trimmed: ERR6133512-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 07:38:22 2024 >> started Sat Dec 7 07:38:28 2024 >> done (5.860s) 2007767 reads processed; of these: 290 ( 0.01%) short reads filtered out after trimming by size control 22 ( 0.00%) empty reads filtered out after trimming by size control 2007455 (99.98%) reads available; of these: 9788 ( 0.49%) trimmed reads available after processing 1997667 (99.51%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 39 0.00% 19 114 0.01% 20 29 0.00% 21 26 0.00% 22 39 0.00% 23 8 0.00% 24 14 0.00% 25 14 0.00% 26 21 0.00% 27 18 0.00% 28 43 0.00% 29 101 0.01% 30 19 0.00% 31 28 0.00% 32 54 0.00% 33 24 0.00% 34 31 0.00% 35 141 0.01% 36 450 0.02% 37 26 0.00% 38 55 0.00% 39 106 0.01% 40 167 0.01% 41 64 0.00% 42 13 0.00% 43 27 0.00% 44 48 0.00% 45 13 0.00% 46 20 0.00% 47 23 0.00% 48 7 0.00% 49 14 0.00% 50 26 0.00% 51 123 0.01% 52 20 0.00% 53 13 0.00% 54 22 0.00% 55 9 0.00% 56 8 0.00% 57 20 0.00% 58 12 0.00% 59 17 0.00% 60 22 0.00% 61 10 0.00% 62 1 0.00% 63 1 0.00% 64 1 0.00% 65 1 0.00% 66 3 0.00% 67 3 0.00% 68 11 0.00% 69 50 0.00% 70 7706 0.38% 71 6749 0.34% 72 6937 0.35% 73 6491 0.32% 74 6491 0.32% 75 6742 0.34% 76 5845 0.29% 77 5986 0.30% 78 6420 0.32% 79 6649 0.33% 80 6286 0.31% 81 7114 0.35% 82 8377 0.42% 83 7944 0.40% 84 7197 0.36% 85 26 0.00% 86 45 0.00% 87 70 0.00% 88 121 0.01% 89 241 0.01% 90 463 0.02% 91 1257 0.06% 92 4989 0.25% 93 1895140 94.41% 2007455 reads passed initial QC criterion=sequence-density sequence-density=0.33 sequence-density-rank=1 fanout-score=4.89 fanout-score-rank=19 prefix-density=0.84 prefix-fanout=1.9 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=25 fanout-score=84.61 fanout-score-rank=1 prefix-density=0.13 prefix-fanout=7.4 sequence=AAAAGAAGGGGTGTTCCATCTCCGGACGACGATCCTGCCTGCGGAGGAAGACATGCCGGCGATCATGTCGAGCTTCAAGAAGTTCAACGACTCATTCATGGAGCAATACCAAGACTACTCCAGGCTGTGATGTGAAGAGGGAAACAACGACGTCATCATCGACATGATATATTGCTGCTATTTTCCACCAGCGATTAAAAGTTAAAAAATTTAGCTGTAAGCTGTAACTATCTTGAAGAAACTAAACTGGTTGCTGTGCTTGATATGTATAGGGAAAACATAATTTATGAGACAATCATACTGTGCAACTCTTGGCTCCATCGATTAATTAATACTCCTTGTTATTGCTTGCATGGTG Started job on | Dec 07 07:40:25 Started mapping on | Dec 07 07:40:25 Finished on | Dec 07 07:41:14 Mapping speed, Million of reads per hour | 147.49 Number of input reads | 2007455 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 1201931 Uniquely mapped reads % | 59.87% Average mapped length | 91.77 Number of splices: Total | 58703 Number of splices: Annotated (sjdb) | 49152 Number of splices: GT/AG | 56176 Number of splices: GC/AG | 1334 Number of splices: AT/AC | 39 Number of splices: Non-canonical | 1154 Mismatch rate per base, % | 0.52% Deletion rate per base | 0.06% Deletion average length | 1.88 Insertion rate per base | 0.04% Insertion average length | 2.01 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 676588 % of reads mapped to multiple loci | 33.70% Number of reads mapped to too many loci | 25801 % of reads mapped to too many loci | 1.29% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 5.08% % of reads unmapped: other | 0.06% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 128936 128936 128936 N_multimapping 676588 676588 676588 N_noFeature 103756 114884 1149362 N_ambiguous 47879 6337 273 UnstrandedReadsAssigned:1050296 PositiveStrandReadsAssigned:1080710 NegativeStrandReadsAssigned:52296 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133512 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: ERR6133512-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,007,455 reads, 1,575,519 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 916 rounds 52973 ERR6133512.ke.tsv 35125 ERR6133512.se.tsv 88098 total ==> ERR6133512.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 15.829 PNS24243 293 194 0 0 KQK14069 1603 1504 22 12.2183 KQK14071 474 375 0 0 ==> ERR6133512.se.tsv <== BRADI_1g14170v3 23 BRADI_1g53295v3 34 BRADI_1g59795v3 2 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 17 BRADI_1g74790v3 11 BRADI_1g09890v3 0 BRADI_1g77505v3 41 BRADI_1g48960v3 0 ERR6133512 completed mapping pipeline successfully