Starting /dee2/code/volunteer_pipeline.sh ERR6133316 current disk space = 1548257587200 free memory = 1601165244 ERR6133316 SRAfilesize 4961010c93e31eb14a9196cd61bd0977 ERR6133316.sra ERR6133316.sra file validated ERR6133316 is single end ERR6133316 is conventional basespace ERR6133316 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133316_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70-93 %GC 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.19 37.0 33.0 37.0 33.0 37.0 2 36.39575 37.0 37.0 37.0 37.0 37.0 3 35.93 37.0 37.0 37.0 33.0 37.0 4 35.45 37.0 37.0 37.0 33.0 37.0 5 35.4215 37.0 37.0 37.0 33.0 37.0 6 35.77325 37.0 37.0 37.0 33.0 37.0 7 37.49225 40.0 37.0 40.0 33.0 40.0 8 37.43575 40.0 37.0 40.0 33.0 40.0 9 37.63675 40.0 37.0 40.0 33.0 40.0 10-11 37.481875 40.0 37.0 40.0 33.0 40.0 12-13 37.47425 40.0 37.0 40.0 33.0 40.0 14-15 37.44525 38.5 37.0 40.0 33.0 40.0 16-17 37.3675 37.0 37.0 40.0 33.0 40.0 18-19 37.307 37.0 37.0 40.0 33.0 40.0 20-21 37.1775 37.0 37.0 40.0 33.0 40.0 22-23 37.025125 37.0 37.0 40.0 33.0 40.0 24-25 37.136250000000004 37.0 37.0 40.0 33.0 40.0 26-27 37.027874999999995 37.0 37.0 40.0 33.0 40.0 28-29 36.91225 37.0 37.0 40.0 33.0 40.0 30-31 36.88125 37.0 37.0 40.0 33.0 40.0 32-33 36.72825 37.0 37.0 40.0 33.0 40.0 34-35 36.55275 37.0 37.0 40.0 33.0 40.0 36-37 36.46625 37.0 37.0 40.0 33.0 40.0 38-39 36.315125 37.0 37.0 40.0 33.0 40.0 40-41 36.026250000000005 37.0 37.0 40.0 33.0 40.0 42-43 35.820375 37.0 35.0 40.0 33.0 40.0 44-45 35.464 37.0 33.0 40.0 30.0 40.0 46-47 35.088750000000005 37.0 33.0 37.0 27.0 40.0 48-49 35.022625 37.0 33.0 37.0 27.0 40.0 50-51 34.837125 37.0 33.0 37.0 27.0 40.0 52-53 34.592749999999995 37.0 33.0 37.0 27.0 40.0 54-55 34.569625 37.0 33.0 37.0 27.0 40.0 56-57 34.35275 37.0 33.0 37.0 27.0 40.0 58-59 31.94775 33.0 30.0 37.0 24.5 37.0 60-61 33.45075 37.0 33.0 37.0 27.0 37.0 62-63 33.692875 37.0 33.0 37.0 27.0 37.0 64-65 33.59275 37.0 33.0 37.0 27.0 37.0 66-67 33.36025 37.0 33.0 37.0 27.0 37.0 68-69 32.79725 35.0 33.0 37.0 27.0 37.0 70-71 32.83740441176471 33.0 33.0 37.0 27.0 37.0 72-73 33.171239606568165 37.0 33.0 37.0 27.0 37.0 74-75 33.18858906524536 37.0 33.0 37.0 27.0 37.0 76-77 33.258581623276285 37.0 33.0 37.0 27.0 37.0 78-79 33.16938894892971 37.0 33.0 37.0 27.0 37.0 80-81 33.226240730826625 37.0 33.0 37.0 27.0 37.0 82-83 33.01692101178788 33.0 33.0 37.0 27.0 37.0 84-85 32.75607298000355 33.0 33.0 37.0 27.0 37.0 86-87 32.688292419746425 33.0 33.0 37.0 27.0 37.0 88-89 32.84434852980847 33.0 33.0 37.0 27.0 37.0 90-91 32.61087132452117 33.0 33.0 37.0 27.0 37.0 92-93 32.62233612085244 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 18.0 21 13.0 22 28.0 23 37.0 24 36.0 25 49.0 26 45.0 27 44.0 28 84.0 29 83.0 30 96.0 31 134.0 32 146.0 33 184.0 34 281.0 35 471.0 36 750.0 37 904.0 38 579.0 39 18.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 82.39999999999999 3.8 5.7 8.1 2 63.0 22.425 9.725 4.8500000000000005 3 30.15 39.425 16.675 13.750000000000002 4 31.1 26.325 21.4 21.175 5 22.175 29.675 30.55 17.599999999999998 6 18.975 39.45 25.95 15.625 7 35.8 28.050000000000004 22.1 14.05 8 28.65 29.65 24.8 16.900000000000002 9 25.8 25.775 29.9 18.525 10-11 24.15 27.625 29.8375 18.387500000000003 12-13 25.924999999999997 26.487500000000004 28.712500000000002 18.875 14-15 21.2625 29.625 30.2375 18.875 16-17 22.75 32.775 25.674999999999997 18.8 18-19 23.7125 26.137500000000003 29.575000000000003 20.575 20-21 25.0375 25.45 29.2375 20.275000000000002 22-23 26.787499999999998 23.5875 28.875 20.75 24-25 25.087500000000002 26.7125 28.462500000000002 19.7375 26-27 26.125 24.575 31.162499999999998 18.1375 28-29 24.9 26.375 29.562500000000004 19.162499999999998 30-31 25.324999999999996 26.1 28.712500000000002 19.8625 32-33 24.6125 26.1125 29.912499999999998 19.3625 34-35 23.45 27.400000000000002 28.249999999999996 20.9 36-37 25.153144143017876 26.2782847855982 27.415926990873857 21.152644080510065 38-39 25.803225403175396 24.82810351293912 30.066258282285286 19.302412801600198 40-41 24.5625 26.075 28.212500000000002 21.15 42-43 23.925 28.725 27.962500000000002 19.3875 44-45 22.45 27.287499999999998 30.9625 19.3 46-47 24.025 26.35 29.2 20.424999999999997 48-49 24.2375 25.0125 30.7625 19.9875 50-51 23.118279569892472 26.469117279319832 30.34508627156789 20.067516879219806 52-53 24.752846952821926 27.806282067325743 27.030409210361654 20.410461769490677 54-55 25.15 27.250000000000004 29.5375 18.0625 56-57 25.2625 28.65 28.512500000000003 17.575 58-59 22.925 26.650000000000002 30.8 19.625 60-61 24.825 26.8375 29.6875 18.65 62-63 21.7375 29.512500000000003 30.45 18.3 64-65 22.8375 28.849999999999998 28.762500000000003 19.55 66-67 23.025000000000002 29.45 29.2375 18.2875 68-69 22.2 27.5125 28.8875 21.4 70-71 23.226372524442215 28.478315367259967 29.919779393331662 18.375532714966155 72-73 24.61363060552318 26.57714720040537 29.756777299214594 19.052444894856855 74-75 23.185071574642127 28.5659509202454 29.550102249488752 18.698875255623722 76-77 22.888459058671824 26.88588007736944 27.9819471308833 22.243713733075435 78-79 25.04874561289484 25.77668009879111 29.79331860132588 19.381255686988172 80-81 22.333158171308458 30.005254860746188 30.438780872306886 17.222806095638465 82-83 22.12636049907088 27.090522962569686 31.205203079373504 19.57791345898593 84-85 22.270037654653038 24.905863367401828 33.230231307154384 19.59386767079075 86-87 21.70218505530078 26.611815484219044 31.561909900188834 20.124089560291342 88-89 20.555705422174263 30.49635824116536 29.538710547612624 19.40922578904775 90-91 23.752360399244672 28.783382789317507 29.147558672781226 18.316698138656594 92-93 21.60776908551389 31.91259778796871 28.958726733207445 17.520906393309954 >>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 0.5 17 8.5 18 8.5 19 1.5 20 2.0 21 3.0 22 3.0 23 6.0 24 9.5 25 10.5 26 20.5 27 26.5 28 35.5 29 51.5 30 52.0 31 52.0 32 63.5 33 83.0 34 95.5 35 119.0 36 153.5 37 179.0 38 216.0 39 210.0 40 202.0 41 200.0 42 204.5 43 230.0 44 201.0 45 168.5 46 178.5 47 176.0 48 151.5 49 157.0 50 169.5 51 151.5 52 120.5 53 110.0 54 102.5 55 76.0 56 59.5 57 61.0 58 46.5 59 27.0 60 23.0 61 27.0 62 23.5 63 14.5 64 14.0 65 13.5 66 15.0 67 13.5 68 6.5 69 4.5 70 5.0 71 5.0 72 4.0 73 3.5 74 7.0 75 7.0 76 4.0 77 2.0 78 1.0 79 1.0 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 0.0125 38-39 0.0125 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.025 52-53 0.11249999999999999 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 22.0 71 21.0 72 20.0 73 16.0 74 18.0 75 20.0 76 11.0 77 17.0 78 17.0 79 21.0 80 22.0 81 17.0 82 22.0 83 27.0 84 22.0 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 3707.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 80.35 #Duplication Level Percentage of deduplicated Percentage of total 1 92.6571250777847 74.45 2 3.9514623522090857 6.35 3 1.2134411947728687 2.9250000000000003 4 0.4667081518357187 1.5 5 0.43559427504667086 1.7500000000000002 6 0.18668326073428748 0.8999999999999999 7 0.28002489110143125 1.575 8 0.18668326073428748 1.2 9 0.06222775357809583 0.44999999999999996 >10 0.5289359054138145 7.225 >50 0.031113876789047916 1.675 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 67 1.675 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 36 0.8999999999999999 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 34 0.8500000000000001 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 31 0.775 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 21 0.525 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 17 0.42500000000000004 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 17 0.42500000000000004 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 17 0.42500000000000004 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 14 0.35000000000000003 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 13 0.325 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 12 0.3 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 12 0.3 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 12 0.3 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 11 0.27499999999999997 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 11 0.27499999999999997 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 11 0.27499999999999997 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 10 0.25 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 10 0.25 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 9 0.22499999999999998 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 9 0.22499999999999998 No Hit GGTCTTGATCCCTCTGTGTTTCCCGTGTAACGGCTACTGATCCAGTGGTT 8 0.2 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 8 0.2 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 8 0.2 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 8 0.2 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 8 0.2 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 8 0.2 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 7 0.17500000000000002 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTTTTAA 7 0.17500000000000002 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 7 0.17500000000000002 No Hit TCAGTGTCGGCCCAGCAGAGTGCTTTCGCCGTTGGTGTTCTTTCCGATCT 7 0.17500000000000002 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 7 0.17500000000000002 No Hit GGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAG 7 0.17500000000000002 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 6 0.15 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 6 0.15 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 6 0.15 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 6 0.15 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 6 0.15 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 6 0.15 No Hit GGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAG 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGACATTTCTTCGAAAAAATTCGAATAGTGAGACGCATTAAAACGCAATT 5 0.125 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 5 0.125 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 5 0.125 No Hit GGGTTATTGTAAAATAACACATGTCATTTGGATACTTCTCTTCAACTCCG 5 0.125 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 5 0.125 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 5 0.125 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 5 0.125 No Hit AACAGTAAAGCTTCATAGGGTCTTTCTGTCCAGGTGCAGGTAGTCCGCAT 5 0.125 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 5 0.125 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 5 0.125 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 5 0.125 No Hit GGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTCC 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 0.025 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 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1 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 0.15 0.0 0.0 0.0 0.0 76-77 0.1875 0.0 0.0 0.0 0.0 78-79 0.225 0.0 0.0 0.0 0.0 80-81 0.225 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157359 READS because READLEN < 1 Read 157359 spots for ERR6133316.sra Written 157359 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra Rejected 157351 READS because READLEN < 1 Read 157351 spots for ERR6133316.sra Written 157351 spots for ERR6133316.sra SRR ids: ['ERR6133316.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_w1dv7kp4 ERR6133316.sra spots: 3147028 blocks: [[1, 157351], [157352, 314702], [314703, 472053], [472054, 629404], [629405, 786755], [786756, 944106], [944107, 1101457], [1101458, 1258808], [1258809, 1416159], [1416160, 1573510], [1573511, 1730861], [1730862, 1888212], [1888213, 2045563], [2045564, 2202914], [2202915, 2360265], [2360266, 2517616], [2517617, 2674967], [2674968, 2832318], [2832319, 2989669], [2989670, 3147028]] ERR6133316 file size 691490 ERR6133316 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 ERR6133316 ERR6133316_1.fastq Input file: ERR6133316_1.fastq trimmed: ERR6133316-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 00:30:19 2024 >> started Sat Dec 7 00:30:20 2024 >> done (1.525s) 3147028 reads processed; of these: 439 ( 0.01%) short reads filtered out after trimming by size control 47 ( 0.00%) empty reads filtered out after trimming by size control 3146542 (99.98%) reads available; of these: 53733 ( 1.71%) trimmed reads available after processing 3092809 (98.29%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 50 0.00% 19 163 0.01% 20 95 0.00% 21 125 0.00% 22 120 0.00% 23 28 0.00% 24 47 0.00% 25 26 0.00% 26 27 0.00% 27 41 0.00% 28 113 0.00% 29 117 0.00% 30 67 0.00% 31 135 0.00% 32 95 0.00% 33 52 0.00% 34 48 0.00% 35 478 0.02% 36 420 0.01% 37 72 0.00% 38 106 0.00% 39 431 0.01% 40 241 0.01% 41 224 0.01% 42 15 0.00% 43 24 0.00% 44 24 0.00% 45 25 0.00% 46 25 0.00% 47 22 0.00% 48 17 0.00% 49 24 0.00% 50 26 0.00% 51 83 0.00% 52 21 0.00% 53 14 0.00% 54 22 0.00% 55 19 0.00% 56 20 0.00% 57 32 0.00% 58 34 0.00% 59 18 0.00% 60 33 0.00% 61 23 0.00% 62 4 0.00% 63 1 0.00% 64 5 0.00% 65 9 0.00% 66 11 0.00% 67 13 0.00% 68 42 0.00% 69 161 0.01% 70 14660 0.47% 71 13862 0.44% 72 15495 0.49% 73 13884 0.44% 74 14364 0.46% 75 14898 0.47% 76 13069 0.42% 77 13602 0.43% 78 14943 0.47% 79 15912 0.51% 80 15053 0.48% 81 16576 0.53% 82 18775 0.60% 83 17894 0.57% 84 16758 0.53% 85 156 0.00% 86 298 0.01% 87 458 0.01% 88 785 0.02% 89 1439 0.05% 90 2977 0.09% 91 8765 0.28% 92 32208 1.02% 93 2865623 91.07% 3146542 reads passed initial QC criterion=sequence-density sequence-density=0.35 sequence-density-rank=1 fanout-score=5.68 fanout-score-rank=18 prefix-density=1.14 prefix-fanout=1.8 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=31 fanout-score=109.61 fanout-score-rank=1 prefix-density=0.13 prefix-fanout=6.9 sequence=AGGAAGAGGAGGATGCAGTCAGGGCTCACAAACAACCTGCCACTGCCGCCATTGGCCTTCTAAAACAGGAGAGGAGGGGTTAGATAGTTTCGATCTGCAAGGGGGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGCAGAAGCTGTATGCTTATGAGCAGCTATGGTACTTATCGAGGACAGTAGCGTACTTGAGGTGTTGTATTTTTATTTATTTTCTTGTTTTTGAATGTCCGATCTGTTTGAGCCTTTGGTGACCGAAGAAAATAAAGCTG Started job on | Dec 07 00:30:41 Started mapping on | Dec 07 00:30:41 Finished on | Dec 07 00:30:47 Mapping speed, Million of reads per hour | 1887.93 Number of input reads | 3146542 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2105813 Uniquely mapped reads % | 66.92% Average mapped length | 91.09 Number of splices: Total | 68249 Number of splices: Annotated (sjdb) | 53745 Number of splices: GT/AG | 63188 Number of splices: GC/AG | 1947 Number of splices: AT/AC | 39 Number of splices: Non-canonical | 3075 Mismatch rate per base, % | 0.53% Deletion rate per base | 0.06% Deletion average length | 1.77 Insertion rate per base | 0.03% Insertion average length | 1.71 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 885785 % of reads mapped to multiple loci | 28.15% Number of reads mapped to too many loci | 88216 % of reads mapped to too many loci | 2.80% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.92% % of reads unmapped: other | 0.20% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 154944 154944 154944 N_multimapping 885785 885785 885785 N_noFeature 182644 203157 2014084 N_ambiguous 81760 10345 503 UnstrandedReadsAssigned:1841409 PositiveStrandReadsAssigned:1892311 NegativeStrandReadsAssigned:91226 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133316 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: ERR6133316-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,146,542 reads, 2,446,077 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 980 rounds 52973 ERR6133316.ke.tsv 35125 ERR6133316.se.tsv 88098 total ==> ERR6133316.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 44 17.8206 PNS24243 293 194 0 0 KQK14069 1603 1504 18 6.65041 KQK14071 474 375 0 0 ==> ERR6133316.se.tsv <== BRADI_1g14170v3 18 BRADI_1g53295v3 41 BRADI_1g59795v3 33 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 47 BRADI_1g74790v3 11 BRADI_1g09890v3 0 BRADI_1g77505v3 51 BRADI_1g48960v3 0 ERR6133316 completed mapping pipeline successfully