Starting /dee2/code/volunteer_pipeline.sh ERR6133558 current disk space = 1544471932928 free memory = 1597810172 ERR6133558 SRAfilesize bad92d744b199a722d6a4ca1ca909722 ERR6133558.sra ERR6133558.sra file validated ERR6133558 is single end ERR6133558 is conventional basespace ERR6133558 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133558_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 35.5085 37.0 33.0 37.0 33.0 37.0 2 36.57475 37.0 37.0 37.0 37.0 37.0 3 36.18175 37.0 37.0 37.0 33.0 37.0 4 35.5155 37.0 37.0 37.0 33.0 37.0 5 35.38675 37.0 37.0 37.0 33.0 37.0 6 35.7765 37.0 37.0 37.0 33.0 37.0 7 37.755 40.0 37.0 40.0 33.0 40.0 8 37.7795 40.0 37.0 40.0 33.0 40.0 9 37.77625 40.0 37.0 40.0 33.0 40.0 10-11 37.7315 40.0 37.0 40.0 33.0 40.0 12-13 37.718374999999995 38.5 37.0 40.0 33.0 40.0 14-15 37.617125 37.0 37.0 40.0 33.0 40.0 16-17 37.57825 38.5 37.0 40.0 33.0 40.0 18-19 37.509 40.0 37.0 40.0 33.0 40.0 20-21 37.4215 38.5 37.0 40.0 33.0 40.0 22-23 37.421625000000006 37.0 37.0 40.0 33.0 40.0 24-25 37.454750000000004 37.0 37.0 40.0 33.0 40.0 26-27 37.489125 37.0 37.0 40.0 33.0 40.0 28-29 37.39875 37.0 37.0 40.0 33.0 40.0 30-31 37.3045 37.0 37.0 40.0 33.0 40.0 32-33 37.078125 37.0 37.0 40.0 33.0 40.0 34-35 36.910624999999996 37.0 37.0 40.0 33.0 40.0 36-37 36.85825 37.0 37.0 40.0 33.0 40.0 38-39 36.691500000000005 37.0 37.0 40.0 33.0 40.0 40-41 36.44725 37.0 37.0 40.0 33.0 40.0 42-43 36.33625 37.0 37.0 40.0 33.0 40.0 44-45 36.042375 37.0 35.0 40.0 33.0 40.0 46-47 35.698750000000004 37.0 33.0 37.0 33.0 40.0 48-49 35.644375 37.0 33.0 37.0 33.0 40.0 50-51 35.552 37.0 33.0 37.0 33.0 40.0 52-53 35.228625 37.0 33.0 37.0 33.0 40.0 54-55 35.127250000000004 37.0 33.0 37.0 33.0 40.0 56-57 34.938 37.0 33.0 37.0 27.0 40.0 58-59 33.705875 35.0 33.0 37.0 27.0 37.0 60-61 34.416375 37.0 33.0 37.0 27.0 37.0 62-63 34.40675 37.0 33.0 37.0 27.0 37.0 64-65 34.313625 37.0 33.0 37.0 27.0 37.0 66-67 34.416624999999996 37.0 33.0 37.0 27.0 37.0 68-69 33.591625 35.0 33.0 37.0 27.0 37.0 70-71 33.73288655725382 35.0 33.0 37.0 27.0 37.0 72-73 34.1963810073887 37.0 33.0 37.0 27.0 37.0 74-75 33.804634860930115 37.0 33.0 37.0 27.0 37.0 76-77 34.00142501119754 37.0 33.0 37.0 27.0 37.0 78-79 34.088586109269016 37.0 33.0 37.0 27.0 37.0 80-81 33.983612083453416 37.0 33.0 37.0 27.0 37.0 82-83 33.854859248681905 37.0 33.0 37.0 27.0 37.0 84-85 33.80570356570565 37.0 33.0 37.0 27.0 37.0 86-87 33.63032871083719 37.0 33.0 37.0 27.0 37.0 88-89 33.769645608628664 37.0 33.0 37.0 27.0 37.0 90-91 33.47098099640472 37.0 33.0 37.0 27.0 37.0 92-93 33.328839239856194 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 11.0 21 13.0 22 18.0 23 14.0 24 12.0 25 25.0 26 42.0 27 44.0 28 56.0 29 65.0 30 74.0 31 99.0 32 137.0 33 164.0 34 239.0 35 441.0 36 897.0 37 952.0 38 683.0 39 14.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 86.7 2.675 3.025 7.6 2 69.975 18.099999999999998 7.175 4.75 3 34.55 38.7 14.7 12.049999999999999 4 33.725 28.175 19.15 18.95 5 24.525 32.85 23.35 19.275000000000002 6 19.275000000000002 38.65 25.724999999999998 16.35 7 35.6 28.449999999999996 19.575 16.375 8 30.525000000000002 29.799999999999997 22.650000000000002 17.025000000000002 9 26.150000000000002 26.625 28.65 18.575 10-11 25.2125 26.8625 27.9375 19.9875 12-13 27.675 25.6 27.250000000000004 19.475 14-15 22.5875 28.512500000000003 29.1875 19.7125 16-17 25.4875 30.5 24.637500000000003 19.375 18-19 24.2 25.6125 27.575 22.6125 20-21 25.728216027003377 26.378297287160894 26.365795724465556 21.527690961370173 22-23 26.987499999999997 23.974999999999998 26.900000000000002 22.1375 24-25 25.978247280910118 24.265533191648956 27.84098012251531 21.915239404925615 26-27 24.9 24.725 29.575000000000003 20.8 28-29 26.60332541567696 25.815726965870734 26.753344168021005 20.827603450431305 30-31 26.5625 25.05 27.4125 20.974999999999998 32-33 23.962500000000002 27.950000000000003 26.700000000000003 21.3875 34-35 26.775 25.174999999999997 27.575 20.474999999999998 36-37 24.6625 23.962500000000002 28.475 22.900000000000002 38-39 25.597098912092036 25.196948855820935 30.011254220332624 19.194698011754408 40-41 26.3013013013013 25.613113113113112 27.18968968968969 20.895895895895897 42-43 23.92799099887486 26.703337917239654 27.353419177397175 22.015251906488313 44-45 24.6125 25.474999999999998 28.6625 21.25 46-47 24.5625 24.1875 27.537499999999998 23.7125 48-49 24.4125 26.674999999999997 29.875 19.037499999999998 50-51 24.3 25.85 29.7875 20.0625 52-53 25.206715108995237 26.20897018291155 27.161112503132046 21.42320220496116 54-55 23.474999999999998 28.349999999999998 28.749999999999996 19.425 56-57 25.0125 25.0375 29.15 20.8 58-59 24.887500000000003 24.4875 29.15 21.475 60-61 24.637500000000003 24.887500000000003 29.262500000000003 21.212500000000002 62-63 23.2875 26.7125 31.0625 18.9375 64-65 23.150000000000002 26.3625 30.012499999999996 20.474999999999998 66-67 24.840605075634453 26.24078009751219 28.853606700837602 20.06500812601575 68-69 23.7 27.3 28.4375 20.5625 70-71 24.452509072706796 25.265924164685273 29.207858841196344 21.07370792141159 72-73 25.944995604671604 25.41755619741303 28.56963455983926 20.0678136380761 74-75 23.801715438950556 26.72805247225025 28.897578203834513 20.57265388496468 76-77 22.615734884897545 26.169997470275742 29.9772324816595 21.237035163167214 78-79 23.896499238964992 25.317097919837643 30.504819888381533 20.28158295281583 80-81 23.718030283751112 27.50986130550961 29.952920218857358 18.81918819188192 82-83 23.11525683618707 25.683618706874523 30.002555583950937 21.19856887298748 84-85 22.70103886110042 23.637296396049763 31.98666153648839 21.67500320636142 86-87 22.277863379558294 27.092963533641502 30.880842321520284 19.748330765279917 88-89 23.369286081150488 27.747817154596817 29.571135079609657 19.31176168464304 90-91 24.345146379044685 26.335387776065744 29.673857216230097 19.645608628659474 92-93 23.215202876219827 28.29994863893169 30.0462249614792 18.438623523369284 >>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 0.5 16 2.0 17 9.5 18 10.5 19 4.0 20 1.5 21 3.5 22 4.0 23 3.0 24 3.5 25 4.0 26 9.5 27 14.0 28 18.5 29 22.5 30 23.0 31 29.5 32 46.0 33 57.0 34 67.5 35 83.5 36 96.5 37 119.5 38 166.0 39 187.0 40 177.5 41 180.0 42 190.0 43 195.5 44 187.5 45 196.5 46 224.5 47 215.0 48 186.5 49 173.5 50 161.5 51 152.5 52 144.0 53 148.0 54 140.0 55 92.5 56 59.0 57 56.5 58 64.0 59 55.0 60 36.0 61 33.0 62 33.0 63 32.0 64 33.0 65 30.0 66 25.0 67 22.0 68 14.0 69 10.0 70 14.5 71 18.0 72 11.5 73 6.5 74 5.0 75 2.0 76 1.0 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 0.0125 22-23 0.0 24-25 0.0125 26-27 0.0 28-29 0.0125 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0375 40-41 0.1 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.22499999999999998 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 0.0125 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 9.0 71 4.0 72 11.0 73 9.0 74 6.0 75 4.0 76 8.0 77 4.0 78 6.0 79 5.0 80 9.0 81 7.0 82 10.0 83 5.0 84 9.0 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 3894.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 84.275 #Duplication Level Percentage of deduplicated Percentage of total 1 93.29575793533076 78.625 2 4.123405517650549 6.950000000000001 3 1.1865915158706615 3.0 4 0.23731830317413233 0.8 5 0.3263126668644319 1.375 6 0.20765351527736575 1.05 7 0.02966478789676654 0.17500000000000002 8 0.02966478789676654 0.2 9 0.17798872738059923 1.35 >10 0.385642242657965 6.4750000000000005 >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 fail #Sequence Count Percentage Possible Source GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 41 1.0250000000000001 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 28 0.7000000000000001 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 25 0.625 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 19 0.475 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 19 0.475 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 19 0.475 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 18 0.44999999999999996 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 18 0.44999999999999996 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 17 0.42500000000000004 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 15 0.375 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 15 0.375 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 13 0.325 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 12 0.3 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 9 0.22499999999999998 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 9 0.22499999999999998 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 9 0.22499999999999998 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 9 0.22499999999999998 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 9 0.22499999999999998 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 9 0.22499999999999998 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 8 0.2 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 7 0.17500000000000002 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 6 0.15 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 6 0.15 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 6 0.15 No Hit GGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAA 6 0.15 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 6 0.15 No Hit GGAAATGGTGAAGATGATACGAATATGCCGGCCGGGTGCTGATATTGTGA 6 0.15 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 5 0.125 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 5 0.125 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 5 0.125 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 5 0.125 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 5 0.125 No Hit GAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTA 5 0.125 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 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 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.05 0.0 0.0 0.0 0.0 78-79 0.05 0.0 0.0 0.0 0.0 80-81 0.05 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240431 READS because READLEN < 1 Read 240431 spots for ERR6133558.sra Written 240431 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra Rejected 240416 READS because READLEN < 1 Read 240416 spots for ERR6133558.sra Written 240416 spots for ERR6133558.sra SRR ids: ['ERR6133558.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_fu7o1ko5 ERR6133558.sra spots: 4808335 blocks: [[1, 240416], [240417, 480832], [480833, 721248], [721249, 961664], [961665, 1202080], [1202081, 1442496], [1442497, 1682912], [1682913, 1923328], [1923329, 2163744], [2163745, 2404160], [2404161, 2644576], [2644577, 2884992], [2884993, 3125408], [3125409, 3365824], [3365825, 3606240], [3606241, 3846656], [3846657, 4087072], [4087073, 4327488], [4327489, 4567904], [4567905, 4808335]] ERR6133558 file size 1064086 ERR6133558 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 ERR6133558 ERR6133558_1.fastq Input file: ERR6133558_1.fastq trimmed: ERR6133558-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 08:35:46 2024 >> started Sat Dec 7 08:35:49 2024 >> done (2.603s) 4808335 reads processed; of these: 209 ( 0.00%) short reads filtered out after trimming by size control 29 ( 0.00%) empty reads filtered out after trimming by size control 4808097 (100.00%) reads available; of these: 92442 ( 1.92%) trimmed reads available after processing 4715655 (98.08%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 31 0.00% 19 74 0.00% 20 24 0.00% 21 26 0.00% 22 24 0.00% 23 12 0.00% 24 9 0.00% 25 6 0.00% 26 8 0.00% 27 14 0.00% 28 20 0.00% 29 47 0.00% 30 15 0.00% 31 15 0.00% 32 32 0.00% 33 18 0.00% 34 26 0.00% 35 147 0.00% 36 823 0.02% 37 30 0.00% 38 38 0.00% 39 100 0.00% 40 58 0.00% 41 37 0.00% 42 9 0.00% 43 12 0.00% 44 24 0.00% 45 13 0.00% 46 10 0.00% 47 15 0.00% 48 5 0.00% 49 10 0.00% 50 9 0.00% 51 23 0.00% 52 13 0.00% 53 8 0.00% 54 6 0.00% 55 10 0.00% 56 11 0.00% 57 11 0.00% 58 14 0.00% 59 14 0.00% 60 18 0.00% 61 14 0.00% 62 3 0.00% 63 5 0.00% 64 3 0.00% 65 7 0.00% 66 8 0.00% 67 18 0.00% 68 31 0.00% 69 103 0.00% 70 9480 0.20% 71 9231 0.19% 72 9984 0.21% 73 8747 0.18% 74 8949 0.19% 75 9083 0.19% 76 8218 0.17% 77 8286 0.17% 78 8873 0.18% 79 9830 0.20% 80 8907 0.19% 81 9423 0.20% 82 10771 0.22% 83 11126 0.23% 84 9892 0.21% 85 214 0.00% 86 376 0.01% 87 580 0.01% 88 1126 0.02% 89 2061 0.04% 90 4339 0.09% 91 12339 0.26% 92 67601 1.41% 93 4576600 95.19% 4808097 reads passed initial QC criterion=sequence-density sequence-density=0.29 sequence-density-rank=1 fanout-score=7.29 fanout-score-rank=19 prefix-density=0.73 prefix-fanout=2.9 sequence=GCCGCCGCCGCCAAGGAAGGCATGTTCGTCAAGAACTACAGCTACTGATCCTAATCGCATCAAGCTTCAACGCCTGTGAGTGAAAACCAGTGATGAGAGTGCTGCTGCTAGCTAGCGCCGGCATTGATGAGCTTGAGAGGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCATCAGCGTACTCCGATGGGAGATGGACATCAGAAAGTATACTGTGTTTTACCACCCTAATTAAGTAAACAACTTTTGGAATGGTGATTATCTTACTGTTTTAAATAAATCTGTTTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=78.36 fanout-score-rank=1 prefix-density=0.15 prefix-fanout=6.5 sequence=AAAAGAAGGGGTGTTCCATCTCCGGACGACGATCCTGCCTGCAGAGGAAGACATGCCGGCGATCATGTCGAGCTTCAAGAAGTTCAACGACTCATTCATGGAGCAATACCAAGACTACTCCAGGCTGTGATGTGAAGAGGGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCACCAGCGATTAAAAGTTAAAAAATTTAGCTGTAAGCTGTAACTATCTTGAAGAAACTAAACTGGTTGCTGTGCTTGATATGTAT Started job on | Dec 07 08:36:11 Started mapping on | Dec 07 08:36:11 Finished on | Dec 07 08:36:16 Mapping speed, Million of reads per hour | 3461.83 Number of input reads | 4808097 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 3606441 Uniquely mapped reads % | 75.01% Average mapped length | 92.21 Number of splices: Total | 174128 Number of splices: Annotated (sjdb) | 147875 Number of splices: GT/AG | 168976 Number of splices: GC/AG | 4305 Number of splices: AT/AC | 76 Number of splices: Non-canonical | 771 Mismatch rate per base, % | 0.24% Deletion rate per base | 0.02% Deletion average length | 1.45 Insertion rate per base | 0.00% Insertion average length | 1.37 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1112767 % of reads mapped to multiple loci | 23.14% Number of reads mapped to too many loci | 40755 % of reads mapped to too many loci | 0.85% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 0.95% % of reads unmapped: other | 0.06% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 88889 88889 88889 N_multimapping 1112767 1112767 1112767 N_noFeature 204641 242363 3435315 N_ambiguous 147774 14372 392 UnstrandedReadsAssigned:3254026 PositiveStrandReadsAssigned:3349706 NegativeStrandReadsAssigned:170734 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133558 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: ERR6133558-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,808,097 reads, 4,143,928 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,061 rounds 52973 ERR6133558.ke.tsv 35125 ERR6133558.se.tsv 88098 total ==> ERR6133558.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 4.00219 0.710901 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 90.9978 21.5478 PNS24243 293 194 0 0 KQK14069 1603 1504 199 42.9864 KQK14071 474 375 0 0 ==> ERR6133558.se.tsv <== BRADI_1g14170v3 199 BRADI_1g53295v3 94 BRADI_1g59795v3 26 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 31 BRADI_1g74790v3 31 BRADI_1g09890v3 1 BRADI_1g77505v3 81 BRADI_1g48960v3 0 ERR6133558 completed mapping pipeline successfully