Starting /dee2/code/volunteer_pipeline.sh ERR6133532 current disk space = 1544518004736 free memory = 1502600392 ERR6133532 SRAfilesize 2d85e8645e30933fd149a961a8c44c0d ERR6133532.sra ERR6133532.sra file validated ERR6133532 is single end ERR6133532 is conventional basespace ERR6133532 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133532_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70-93 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.67275 33.0 33.0 37.0 27.0 37.0 2 35.8885 37.0 37.0 37.0 33.0 37.0 3 35.144 37.0 33.0 37.0 33.0 37.0 4 35.45675 37.0 37.0 37.0 33.0 37.0 5 35.4525 37.0 37.0 37.0 33.0 37.0 6 35.7195 37.0 37.0 37.0 33.0 37.0 7 37.561 40.0 37.0 40.0 33.0 40.0 8 37.5465 40.0 37.0 40.0 33.0 40.0 9 37.59425 40.0 37.0 40.0 33.0 40.0 10-11 37.548500000000004 40.0 37.0 40.0 33.0 40.0 12-13 37.537 38.5 37.0 40.0 33.0 40.0 14-15 37.533625 38.5 37.0 40.0 33.0 40.0 16-17 37.427875 37.0 37.0 40.0 33.0 40.0 18-19 37.38975 37.0 37.0 40.0 33.0 40.0 20-21 37.26675 37.0 37.0 40.0 33.0 40.0 22-23 37.203875 37.0 37.0 40.0 33.0 40.0 24-25 37.266000000000005 37.0 37.0 40.0 33.0 40.0 26-27 37.327875000000006 37.0 37.0 40.0 33.0 40.0 28-29 37.18725 37.0 37.0 40.0 33.0 40.0 30-31 37.056875000000005 37.0 37.0 40.0 33.0 40.0 32-33 36.951499999999996 37.0 37.0 40.0 33.0 40.0 34-35 36.818875000000006 37.0 37.0 40.0 33.0 40.0 36-37 36.694874999999996 37.0 37.0 40.0 33.0 40.0 38-39 36.639375 37.0 37.0 40.0 33.0 40.0 40-41 36.39675 37.0 37.0 40.0 33.0 40.0 42-43 36.268 37.0 37.0 40.0 33.0 40.0 44-45 35.966499999999996 37.0 37.0 40.0 33.0 40.0 46-47 35.573750000000004 37.0 33.0 37.0 33.0 40.0 48-49 35.68725 37.0 33.0 37.0 33.0 40.0 50-51 35.56725 37.0 33.0 37.0 33.0 40.0 52-53 35.295125 37.0 33.0 37.0 33.0 40.0 54-55 35.217625 37.0 33.0 37.0 33.0 40.0 56-57 35.004875 37.0 33.0 37.0 33.0 38.5 58-59 34.335875 37.0 33.0 37.0 27.0 37.0 60-61 34.582625 37.0 33.0 37.0 27.0 37.0 62-63 34.3925 37.0 33.0 37.0 27.0 37.0 64-65 34.489999999999995 37.0 33.0 37.0 27.0 37.0 66-67 34.558 37.0 33.0 37.0 27.0 37.0 68-69 33.67475 35.0 33.0 37.0 27.0 37.0 70-71 33.78701903807615 35.0 33.0 37.0 27.0 37.0 72-73 34.14682272336809 37.0 33.0 37.0 27.0 37.0 74-75 34.1271939816296 37.0 33.0 37.0 27.0 37.0 76-77 34.057271237508544 37.0 33.0 37.0 27.0 37.0 78-79 33.97650625498946 37.0 33.0 37.0 27.0 37.0 80-81 33.89446794134882 37.0 33.0 37.0 27.0 37.0 82-83 33.978552009494386 37.0 33.0 37.0 27.0 37.0 84-85 33.88697235097642 37.0 33.0 37.0 27.0 37.0 86-87 33.753374076903484 37.0 33.0 37.0 27.0 37.0 88-89 33.75159154570919 37.0 33.0 37.0 27.0 37.0 90-91 33.52966641201935 37.0 33.0 37.0 27.0 37.0 92-93 33.5100585688821 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 10.0 21 10.0 22 17.0 23 11.0 24 36.0 25 30.0 26 45.0 27 41.0 28 51.0 29 53.0 30 95.0 31 104.0 32 142.0 33 175.0 34 233.0 35 396.0 36 886.0 37 959.0 38 697.0 39 9.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 86.05000000000001 3.55 3.925 6.4750000000000005 2 66.875 19.15 8.225 5.75 3 33.825 37.425000000000004 16.075 12.675 4 33.35 25.900000000000002 18.575 22.175 5 23.799999999999997 29.925 26.125 20.150000000000002 6 19.275000000000002 38.925 24.775 17.025000000000002 7 36.325 28.749999999999996 19.475 15.45 8 27.650000000000002 30.275000000000002 22.825 19.25 9 24.9 28.449999999999996 27.250000000000004 19.400000000000002 10-11 25.2125 27.025 28.0875 19.675 12-13 28.6625 24.625 26.5375 20.175 14-15 23.724999999999998 29.2 28.075 19.0 16-17 24.8625 30.887500000000003 24.675 19.575 18-19 23.5125 27.150000000000002 26.9125 22.425 20-21 25.662499999999998 27.3375 26.825 20.175 22-23 27.3 23.4875 26.5375 22.675 24-25 26.2625 25.224999999999998 27.762500000000003 20.75 26-27 25.95 25.7125 30.2125 18.125 28-29 26.25 26.9625 27.287499999999998 19.5 30-31 27.700000000000003 25.662499999999998 25.55 21.087500000000002 32-33 24.05 27.0625 27.6375 21.25 34-35 25.71285642821411 25.63781890945473 27.088544272136065 21.5607803901951 36-37 25.328166020752597 24.715589448681087 27.465933241655204 22.490311288911112 38-39 26.525 24.8 29.9875 18.6875 40-41 26.35988495685882 26.172314617981744 26.372389646117295 21.09541077904214 42-43 25.982478097622025 29.173967459324157 25.20650813516896 19.637046307884855 44-45 23.733900212579716 25.75965987245217 29.448543203701387 21.057896711266725 46-47 25.224999999999998 22.900000000000002 28.4125 23.4625 48-49 24.37804725590699 25.115639454931866 29.641205150643827 20.865108138517314 50-51 24.1125 27.500000000000004 28.050000000000004 20.3375 52-53 25.472288252220693 26.69836106593269 26.785937695483547 21.043412986363066 54-55 25.412499999999998 27.1375 27.575 19.875 56-57 25.7875 25.587500000000002 27.1 21.525 58-59 24.525 24.1625 29.812499999999996 21.5 60-61 26.35 24.7875 28.675 20.1875 62-63 21.7875 28.599999999999998 31.7 17.9125 64-65 22.675 27.0 29.1625 21.1625 66-67 24.5625 27.9125 27.500000000000004 20.025000000000002 68-69 22.4625 27.2625 28.199999999999996 22.075 70-71 25.462962962962965 25.375375375375377 28.303303303303302 20.85835835835836 72-73 26.753670473083197 23.84238925837621 29.100263521144438 20.30367674739616 74-75 23.441427853192558 27.802916038210157 28.39366515837104 20.361990950226243 76-77 22.81896116994453 26.34896621280888 27.874432677760968 22.957639939485627 78-79 24.83272314101755 25.085216513066534 29.352354500694354 20.729705845221563 80-81 23.97823611286853 28.62204226243199 29.36859420473238 18.031127419967103 82-83 23.187301587301587 25.104761904761908 30.247619047619047 21.46031746031746 84-85 24.166454568592517 22.84296258589972 31.267498091117336 21.72308475439043 86-87 22.459893048128343 26.228673287496818 31.105169340463455 20.206264323911384 88-89 20.970206264323913 29.831932773109244 29.640947288006114 19.556913674560732 90-91 26.827094474153295 25.515660809778456 28.39317545199898 19.264069264069263 92-93 22.714540361599187 28.927934810287752 29.182582123758593 19.17494270435447 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 9.0 18 11.5 19 2.5 20 1.5 21 6.0 22 6.0 23 7.0 24 9.0 25 5.0 26 7.5 27 12.0 28 22.0 29 32.0 30 27.5 31 27.5 32 36.0 33 52.5 34 64.0 35 77.0 36 102.5 37 136.0 38 183.5 39 187.5 40 165.0 41 180.0 42 202.5 43 207.5 44 177.0 45 147.0 46 181.5 47 205.5 48 176.5 49 168.5 50 181.0 51 172.5 52 157.0 53 166.0 54 148.5 55 97.0 56 67.0 57 57.5 58 56.0 59 46.5 60 36.5 61 36.5 62 34.5 63 36.5 64 41.5 65 36.5 66 27.0 67 19.5 68 15.5 69 15.0 70 11.5 71 7.0 72 6.0 73 4.0 74 2.5 75 2.5 76 2.0 77 1.0 78 0.5 79 0.0 80 0.0 81 0.5 82 0.5 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 0.05 36-37 0.0125 38-39 0.0 40-41 0.0375 42-43 0.125 44-45 0.0375 46-47 0.0 48-49 0.0125 50-51 0.0 52-53 0.08750000000000001 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 8.0 71 6.0 72 3.0 73 4.0 74 2.0 75 9.0 76 4.0 77 2.0 78 3.0 79 6.0 80 3.0 81 10.0 82 5.0 83 4.0 84 4.0 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 3927.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 77.525 #Duplication Level Percentage of deduplicated Percentage of total 1 92.51854240567559 71.72500000000001 2 3.99871009351822 6.2 3 1.289906481780071 3.0 4 0.4837149306675266 1.5 5 0.3547242824895195 1.375 6 0.3547242824895195 1.6500000000000001 7 0.16123831022250887 0.8750000000000001 8 0.09674298613350532 0.6 9 0.1289906481780071 0.8999999999999999 >10 0.5804579168010319 10.8 >50 0.032247662044501774 1.375 >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 GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 55 1.375 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 49 1.225 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 47 1.175 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 36 0.8999999999999999 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 35 0.8750000000000001 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 29 0.7250000000000001 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 28 0.7000000000000001 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 27 0.675 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 26 0.65 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 21 0.525 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 20 0.5 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 20 0.5 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 17 0.42500000000000004 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 15 0.375 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 14 0.35000000000000003 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 14 0.35000000000000003 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 14 0.35000000000000003 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 10 0.25 No Hit GGATTCTTCTTTTTTGTGGGCCATTTGTGGCATGCAGGAAGAGCCCGAGC 10 0.25 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 9 0.22499999999999998 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 9 0.22499999999999998 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 9 0.22499999999999998 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 9 0.22499999999999998 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 8 0.2 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 8 0.2 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 8 0.2 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 7 0.17500000000000002 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 7 0.17500000000000002 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 7 0.17500000000000002 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 7 0.17500000000000002 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 6 0.15 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 6 0.15 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 6 0.15 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 6 0.15 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 6 0.15 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 6 0.15 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 6 0.15 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 6 0.15 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 6 0.15 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAGTTTTTCTTA 5 0.125 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGA 5 0.125 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 5 0.125 No Hit GGGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCAC 5 0.125 No Hit TTAGACTTAGAACACTAACAGGTAAAATGTGAGATTTTTATTAAGTAAAA 5 0.125 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 5 0.125 No Hit GATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGGG 5 0.125 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 5 0.125 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 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 0.025 0.0 28-29 0.0 0.0 0.0 0.025 0.0 30-31 0.0 0.0 0.0 0.025 0.0 32-33 0.0 0.0 0.0 0.025 0.0 34-35 0.0 0.0 0.0 0.025 0.0 36-37 0.0 0.0 0.0 0.025 0.0 38-39 0.0 0.0 0.0 0.025 0.0 40-41 0.0 0.0 0.0 0.025 0.0 42-43 0.0 0.0 0.0 0.025 0.0 44-45 0.0 0.0 0.0 0.025 0.0 46-47 0.0 0.0 0.0 0.025 0.0 48-49 0.0 0.0 0.0 0.025 0.0 50-51 0.0 0.0 0.0 0.025 0.0 52-53 0.0 0.0 0.0 0.025 0.0 54-55 0.0 0.0 0.0 0.025 0.0 56-57 0.0 0.0 0.0 0.025 0.0 58-59 0.0 0.0 0.0 0.025 0.0 60-61 0.0 0.0 0.0 0.025 0.0 62-63 0.0 0.0 0.0 0.025 0.0 64-65 0.0 0.0 0.0 0.025 0.0 66-67 0.0 0.0 0.0 0.025 0.0 68-69 0.0 0.0 0.0 0.025 0.0 70-71 0.0 0.0 0.0 0.025 0.0 72-73 0.0 0.0 0.0 0.025 0.0 74-75 0.0 0.0 0.0 0.025 0.0 76-77 0.0 0.0 0.0 0.025 0.0 78-79 0.0 0.0 0.0 0.025 0.0 80-81 0.0 0.0 0.0 0.025 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253451 READS because READLEN < 1 Read 253451 spots for ERR6133532.sra Written 253451 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra Rejected 253439 READS because READLEN < 1 Read 253439 spots for ERR6133532.sra Written 253439 spots for ERR6133532.sra SRR ids: ['ERR6133532.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_4k0575u4 ERR6133532.sra spots: 5068792 blocks: [[1, 253439], [253440, 506878], [506879, 760317], [760318, 1013756], [1013757, 1267195], [1267196, 1520634], [1520635, 1774073], [1774074, 2027512], [2027513, 2280951], [2280952, 2534390], [2534391, 2787829], [2787830, 3041268], [3041269, 3294707], [3294708, 3548146], [3548147, 3801585], [3801586, 4055024], [4055025, 4308463], [4308464, 4561902], [4561903, 4815341], [4815342, 5068792]] ERR6133532 file size 1123401 ERR6133532 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 ERR6133532 ERR6133532_1.fastq Input file: ERR6133532_1.fastq trimmed: ERR6133532-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 08:03:46 2024 >> started Sat Dec 7 08:03:49 2024 >> done (2.690s) 5068792 reads processed; of these: 60 ( 0.00%) short reads filtered out after trimming by size control 22 ( 0.00%) empty reads filtered out after trimming by size control 5068710 (100.00%) reads available; of these: 87538 ( 1.73%) trimmed reads available after processing 4981172 (98.27%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 10 0.00% 19 20 0.00% 20 3 0.00% 21 12 0.00% 22 14 0.00% 23 4 0.00% 24 6 0.00% 25 3 0.00% 26 1 0.00% 27 6 0.00% 28 10 0.00% 29 50 0.00% 30 9 0.00% 31 12 0.00% 32 4 0.00% 33 6 0.00% 34 15 0.00% 35 114 0.00% 36 659 0.01% 37 16 0.00% 38 11 0.00% 39 32 0.00% 40 21 0.00% 41 15 0.00% 42 10 0.00% 43 8 0.00% 44 9 0.00% 45 12 0.00% 46 7 0.00% 47 7 0.00% 48 6 0.00% 49 8 0.00% 50 11 0.00% 51 7 0.00% 52 6 0.00% 53 7 0.00% 54 5 0.00% 55 6 0.00% 56 4 0.00% 57 8 0.00% 58 8 0.00% 59 4 0.00% 60 5 0.00% 61 11 0.00% 62 1 0.00% 63 5 0.00% 64 4 0.00% 65 4 0.00% 66 9 0.00% 67 10 0.00% 68 28 0.00% 69 64 0.00% 70 6499 0.13% 71 5876 0.12% 72 6465 0.13% 73 5893 0.12% 74 6187 0.12% 75 6186 0.12% 76 5674 0.11% 77 5714 0.11% 78 6543 0.13% 79 7404 0.15% 80 6888 0.14% 81 6810 0.13% 82 7905 0.16% 83 8406 0.17% 84 6783 0.13% 85 198 0.00% 86 460 0.01% 87 700 0.01% 88 1223 0.02% 89 2337 0.05% 90 5047 0.10% 91 14577 0.29% 92 60227 1.19% 93 4883381 96.34% 5068710 reads passed initial QC criterion=sequence-density sequence-density=0.32 sequence-density-rank=1 fanout-score=14.67 fanout-score-rank=9 prefix-density=0.85 prefix-fanout=5.5 sequence=GAAGAAGAAGAAAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=39 fanout-score=76.54 fanout-score-rank=1 prefix-density=0.07 prefix-fanout=7.4 sequence=GAGAACAAGTTCCTTTGCCCTTGCCATGGATCCCAGTACAACAACCAGGGCAAGGTTGTCCGTGGACCTGCTCCCCTGTCGCTGGCCCTGGTTCATGCTGACGTTGATGATGGCAAGGTCGTCTTCGTCCCGTGGGTCGAGACCGACTTCAGGACCGGCGAGAACCCATGGTGGAAATAAGCAACACAAGCTCCAGCACAGCAATGTCTTTGCTTCTGTGATCAGCCCGTAAAGCCTCCTGTACTGCTGAGAAGCTGCTATAAAACCACCTGTTCCTTGTATCCAGTTATATCTATCTAT Started job on | Dec 07 08:04:06 Started mapping on | Dec 07 08:04:06 Finished on | Dec 07 08:04:13 Mapping speed, Million of reads per hour | 2606.77 Number of input reads | 5068710 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 3515961 Uniquely mapped reads % | 69.37% Average mapped length | 92.26 Number of splices: Total | 198625 Number of splices: Annotated (sjdb) | 162255 Number of splices: GT/AG | 190698 Number of splices: GC/AG | 3886 Number of splices: AT/AC | 135 Number of splices: Non-canonical | 3906 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.05% Deletion average length | 1.75 Insertion rate per base | 0.03% Insertion average length | 2.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1463056 % of reads mapped to multiple loci | 28.86% Number of reads mapped to too many loci | 22803 % of reads mapped to too many loci | 0.45% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.28% % of reads unmapped: other | 0.04% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 89693 89693 89693 N_multimapping 1463056 1463056 1463056 N_noFeature 231584 266459 3366221 N_ambiguous 128189 13330 484 UnstrandedReadsAssigned:3156188 PositiveStrandReadsAssigned:3236172 NegativeStrandReadsAssigned:149256 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133532 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: ERR6133532-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,068,710 reads, 4,283,269 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,016 rounds 52973 ERR6133532.ke.tsv 35125 ERR6133532.se.tsv 88098 total ==> ERR6133532.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 8.00438 1.34296 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 93.9956 21.0233 PNS24243 293 194 0 0 KQK14069 1603 1504 131.493 26.8289 KQK14071 474 375 1.01526 0.830797 ==> ERR6133532.se.tsv <== BRADI_1g14170v3 133 BRADI_1g53295v3 7 BRADI_1g59795v3 33 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 57 BRADI_1g74790v3 23 BRADI_1g09890v3 0 BRADI_1g77505v3 101 BRADI_1g48960v3 0 ERR6133532 completed mapping pipeline successfully