Starting /dee2/code/volunteer_pipeline.sh ERR6133388 current disk space = 1547293671424 free memory = 1359124500 ERR6133388 SRAfilesize cf930994b4f525033337b8aa245be70f ERR6133388.sra ERR6133388.sra file validated ERR6133388 is single end ERR6133388 is conventional basespace ERR6133388 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133388_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.9385 37.0 37.0 37.0 37.0 37.0 2 36.81325 37.0 37.0 37.0 37.0 37.0 3 36.6015 37.0 37.0 37.0 37.0 37.0 4 36.14325 37.0 37.0 37.0 33.0 37.0 5 36.0565 37.0 37.0 37.0 33.0 37.0 6 36.27225 37.0 37.0 37.0 33.0 37.0 7 38.202 40.0 37.0 40.0 37.0 40.0 8 38.2155 40.0 37.0 40.0 37.0 40.0 9 38.19725 40.0 37.0 40.0 37.0 40.0 10-11 38.113625 40.0 37.0 40.0 37.0 40.0 12-13 38.13775 40.0 37.0 40.0 37.0 40.0 14-15 38.109875 40.0 37.0 40.0 37.0 40.0 16-17 38.052875 40.0 37.0 40.0 35.0 40.0 18-19 37.97125 40.0 37.0 40.0 33.0 40.0 20-21 37.82575 40.0 37.0 40.0 33.0 40.0 22-23 37.7675 40.0 37.0 40.0 33.0 40.0 24-25 37.545249999999996 40.0 37.0 40.0 33.0 40.0 26-27 37.4885 37.0 37.0 40.0 33.0 40.0 28-29 37.43675 37.0 37.0 40.0 33.0 40.0 30-31 37.308625 37.0 37.0 40.0 33.0 40.0 32-33 37.073875 37.0 37.0 40.0 33.0 40.0 34-35 36.82425 37.0 37.0 40.0 33.0 40.0 36-37 36.933875 37.0 37.0 40.0 33.0 40.0 38-39 37.002375 37.0 37.0 40.0 33.0 40.0 40-41 37.192 37.0 37.0 40.0 33.0 40.0 42-43 37.07025 37.0 37.0 40.0 33.0 40.0 44-45 37.097375 37.0 37.0 40.0 33.0 40.0 46-47 36.7945 37.0 37.0 40.0 33.0 40.0 48-49 36.739875 37.0 37.0 40.0 33.0 40.0 50-51 36.612375 37.0 37.0 38.5 33.0 40.0 52-53 36.411500000000004 37.0 37.0 37.0 33.0 40.0 54-55 36.26025 37.0 37.0 37.0 33.0 40.0 56-57 36.065875000000005 37.0 37.0 37.0 33.0 40.0 58-59 35.927625 37.0 37.0 37.0 33.0 40.0 60-61 35.787875 37.0 37.0 37.0 33.0 37.0 62-63 35.505 37.0 35.0 37.0 33.0 37.0 64-65 35.320499999999996 37.0 33.0 37.0 33.0 37.0 66-67 35.290000000000006 37.0 33.0 37.0 33.0 37.0 68-69 34.34225 35.0 33.0 37.0 30.0 37.0 70-71 34.52826247172656 37.0 33.0 37.0 33.0 37.0 72-73 34.94166140544981 37.0 33.0 37.0 33.0 37.0 74-75 34.947160431765184 37.0 33.0 37.0 33.0 37.0 76-77 34.74048139235033 37.0 33.0 37.0 33.0 37.0 78-79 34.8750312744647 37.0 33.0 37.0 33.0 37.0 80-81 34.88266874530494 37.0 33.0 37.0 33.0 37.0 82-83 34.56929169996641 37.0 33.0 37.0 33.0 37.0 84-85 34.53225155200245 37.0 33.0 37.0 33.0 37.0 86-87 34.49522419739984 37.0 33.0 37.0 33.0 37.0 88-89 34.49535685858318 37.0 33.0 37.0 33.0 37.0 90-91 34.029450782700984 37.0 33.0 37.0 27.0 37.0 92-93 33.94083311223136 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 4.0 21 12.0 22 11.0 23 7.0 24 12.0 25 8.0 26 17.0 27 23.0 28 36.0 29 39.0 30 53.0 31 62.0 32 95.0 33 120.0 34 202.0 35 380.0 36 870.0 37 1054.0 38 960.0 39 35.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 82.125 4.1000000000000005 4.275 9.5 2 60.724999999999994 22.55 10.174999999999999 6.550000000000001 3 35.375 36.15 16.3 12.174999999999999 4 33.95 27.925 19.275000000000002 18.85 5 21.6 33.95 24.45 20.0 6 19.725 37.95 26.174999999999997 16.150000000000002 7 35.75 30.599999999999998 18.875 14.774999999999999 8 30.4 29.475 23.674999999999997 16.45 9 27.55 26.625 28.299999999999997 17.525 10-11 25.2875 27.375 27.675 19.662499999999998 12-13 27.962500000000002 24.3 29.062500000000004 18.675 14-15 22.325 25.474999999999998 31.825 20.375 16-17 24.175 31.15 27.1375 17.5375 18-19 24.525 26.787499999999998 26.85 21.837500000000002 20-21 25.650000000000002 26.0125 27.037499999999998 21.3 22-23 25.775 25.0125 27.925 21.2875 24-25 25.7625 24.1625 28.549999999999997 21.525 26-27 24.525 26.0125 30.062499999999996 19.400000000000002 28-29 25.074999999999996 26.674999999999997 27.375 20.875 30-31 26.7625 25.637500000000003 27.0 20.599999999999998 32-33 24.1875 27.900000000000002 27.800000000000004 20.1125 34-35 25.775 24.712500000000002 28.037499999999998 21.475 36-37 25.0 23.775 29.2375 21.987499999999997 38-39 24.55 25.9875 30.5375 18.925 40-41 26.400000000000002 25.4 27.3125 20.8875 42-43 23.575 28.9375 28.1625 19.325 44-45 23.7375 25.025 30.5125 20.724999999999998 46-47 23.875 24.212500000000002 28.287499999999998 23.625 48-49 24.15 25.95 29.599999999999998 20.3 50-51 23.95 26.525 29.175 20.349999999999998 52-53 24.474999999999998 26.424999999999997 28.4125 20.6875 54-55 24.1625 27.8625 27.737499999999997 20.2375 56-57 24.762500000000003 26.075 29.225 19.9375 58-59 22.8375 25.4875 30.0875 21.587500000000002 60-61 24.725 25.95 28.4375 20.8875 62-63 21.75 29.275000000000002 29.6375 19.3375 64-65 23.1875 27.5125 29.362500000000004 19.9375 66-67 24.425 28.3125 27.375 19.8875 68-69 24.099999999999998 27.250000000000004 28.9 19.75 70-71 24.36395538288006 25.42925178593809 28.449680411079083 21.75711242010277 72-73 24.902084649399875 25.432722678458624 29.652558433354393 20.012634238787115 74-75 24.091024663107046 27.294685990338163 28.591406051360284 20.022883295194507 76-77 23.041415566098216 26.541864341582254 29.798692140017952 20.618027952301578 78-79 22.843491735537192 26.614152892561982 29.945764462809915 20.59659090909091 80-81 23.151041666666668 27.408854166666668 30.286458333333332 19.153645833333332 82-83 23.211238020217934 26.125771301037155 30.14310095838256 20.519889720362347 84-85 23.105458399576044 24.774774774774773 31.279809220985694 20.839957604663486 86-87 22.47280445741576 27.14247811090475 31.055983019368533 19.328734412310958 88-89 21.889095250729635 30.034491907667814 30.220217564340672 17.856195277261875 90-91 24.74131069249138 27.686388962589547 28.98646855929955 18.58583178561953 92-93 21.690103475723003 28.654815600955157 30.79066065269302 18.864420270628816 >>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 0.5 15 0.5 16 0.5 17 7.5 18 10.0 19 3.0 20 0.5 21 1.5 22 4.5 23 6.5 24 6.0 25 8.0 26 10.0 27 9.0 28 20.5 29 33.0 30 30.5 31 33.5 32 50.0 33 74.0 34 98.5 35 114.0 36 118.5 37 146.5 38 179.5 39 183.0 40 183.5 41 184.5 42 199.5 43 214.0 44 200.0 45 171.5 46 195.5 47 217.5 48 190.0 49 177.0 50 162.0 51 145.5 52 147.0 53 157.0 54 128.5 55 80.0 56 62.0 57 60.5 58 61.5 59 52.0 60 42.0 61 35.0 62 29.0 63 24.5 64 18.0 65 20.5 66 18.0 67 13.5 68 12.5 69 7.5 70 3.0 71 2.0 72 2.5 73 1.5 74 0.5 75 1.0 76 1.0 77 0.5 78 0.5 79 0.5 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 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 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 21.0 71 16.0 72 11.0 73 10.0 74 18.0 75 18.0 76 13.0 77 10.0 78 22.0 79 14.0 80 14.0 81 17.0 82 15.0 83 22.0 84 10.0 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 3769.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 84.325 #Duplication Level Percentage of deduplicated Percentage of total 1 93.86302994367033 79.14999999999999 2 3.7355469908093686 6.3 3 1.0080047435517345 2.55 4 0.38541357841683965 1.3 5 0.23717758671805514 1.0 6 0.029647198339756892 0.15 7 0.14823599169878449 0.8750000000000001 8 0.059294396679513785 0.4 9 0.08894159501927068 0.675 >10 0.41506077675659653 6.15 >50 0.029647198339756892 1.4500000000000002 >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 58 1.4500000000000002 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 34 0.8500000000000001 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 31 0.775 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 20 0.5 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 19 0.475 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 18 0.44999999999999996 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 17 0.42500000000000004 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 17 0.42500000000000004 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 16 0.4 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 15 0.375 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 15 0.375 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 12 0.3 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 11 0.27499999999999997 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 11 0.27499999999999997 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 10 0.25 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 9 0.22499999999999998 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 9 0.22499999999999998 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 9 0.22499999999999998 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 8 0.2 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 8 0.2 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 7 0.17500000000000002 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 7 0.17500000000000002 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 7 0.17500000000000002 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 7 0.17500000000000002 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 7 0.17500000000000002 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 6 0.15 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 5 0.125 No Hit GGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAA 5 0.125 No Hit GGGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGA 5 0.125 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 5 0.125 No Hit GGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCACC 5 0.125 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 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 0.025 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 0.05 0.0 0.0 0.0 0.0 64-65 0.05 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.0875 0.0 0.0 0.0 0.0 72-73 0.175 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.175 0.0 0.0 0.0 0.0 78-79 0.175 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position AAAAAAA 35 2.0096071E-4 33.48826 86-87 >>END_MODULE Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149948 READS because READLEN < 1 Read 149948 spots for ERR6133388.sra Written 149948 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra Rejected 149932 READS because READLEN < 1 Read 149932 spots for ERR6133388.sra Written 149932 spots for ERR6133388.sra SRR ids: ['ERR6133388.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_43dvmwah ERR6133388.sra spots: 2998656 blocks: [[1, 149932], [149933, 299864], [299865, 449796], [449797, 599728], [599729, 749660], [749661, 899592], [899593, 1049524], [1049525, 1199456], [1199457, 1349388], [1349389, 1499320], [1499321, 1649252], [1649253, 1799184], [1799185, 1949116], [1949117, 2099048], [2099049, 2248980], [2248981, 2398912], [2398913, 2548844], [2548845, 2698776], [2698777, 2848708], [2848709, 2998656]] ERR6133388 file size 659223 ERR6133388 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 ERR6133388 ERR6133388_1.fastq Input file: ERR6133388_1.fastq trimmed: ERR6133388-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 02:41:23 2024 >> started Sat Dec 7 02:41:24 2024 >> done (1.748s) 2998656 reads processed; of these: 197 ( 0.01%) short reads filtered out after trimming by size control 8 ( 0.00%) empty reads filtered out after trimming by size control 2998451 (99.99%) reads available; of these: 112841 ( 3.76%) trimmed reads available after processing 2885610 (96.24%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 15 0.00% 19 49 0.00% 20 9 0.00% 21 15 0.00% 22 8 0.00% 23 5 0.00% 24 5 0.00% 25 7 0.00% 26 12 0.00% 27 10 0.00% 28 8 0.00% 29 126 0.00% 30 1 0.00% 31 6 0.00% 32 18 0.00% 33 9 0.00% 34 4 0.00% 35 6 0.00% 36 3 0.00% 37 6 0.00% 38 23 0.00% 39 65 0.00% 40 116 0.00% 41 19 0.00% 42 14 0.00% 43 21 0.00% 44 18 0.00% 45 34 0.00% 46 53 0.00% 47 79 0.00% 48 140 0.00% 49 898 0.03% 50 264 0.01% 51 302 0.01% 52 290 0.01% 53 335 0.01% 54 376 0.01% 55 405 0.01% 56 432 0.01% 57 468 0.02% 58 559 0.02% 59 628 0.02% 60 862 0.03% 61 723 0.02% 62 726 0.02% 63 1061 0.04% 64 871 0.03% 65 910 0.03% 66 1092 0.04% 67 1194 0.04% 68 1503 0.05% 69 703 0.02% 70 13822 0.46% 71 13473 0.45% 72 16293 0.54% 73 13917 0.46% 74 14954 0.50% 75 15270 0.51% 76 13085 0.44% 77 13600 0.45% 78 15255 0.51% 79 16411 0.55% 80 14610 0.49% 81 14605 0.49% 82 17736 0.59% 83 21261 0.71% 84 15640 0.52% 85 4446 0.15% 86 5090 0.17% 87 5898 0.20% 88 7380 0.25% 89 7445 0.25% 90 10170 0.34% 91 12110 0.40% 92 12262 0.41% 93 2688212 89.65% 2998451 reads passed initial QC criterion=sequence-density sequence-density=0.28 sequence-density-rank=1 fanout-score=3.14 fanout-score-rank=29 prefix-density=0.31 prefix-fanout=2.9 sequence=GTGTTGTGTTGT criterion=fanout-score sequence-density=0.01 sequence-density-rank=33 fanout-score=255.43 fanout-score-rank=1 prefix-density=0.54 prefix-fanout=4.6 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTTTAAAG Started job on | Dec 07 02:41:43 Started mapping on | Dec 07 02:41:44 Finished on | Dec 07 02:41:50 Mapping speed, Million of reads per hour | 1799.07 Number of input reads | 2998451 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2217116 Uniquely mapped reads % | 73.94% Average mapped length | 91.07 Number of splices: Total | 88273 Number of splices: Annotated (sjdb) | 71538 Number of splices: GT/AG | 83751 Number of splices: GC/AG | 2602 Number of splices: AT/AC | 42 Number of splices: Non-canonical | 1878 Mismatch rate per base, % | 0.48% Deletion rate per base | 0.03% Deletion average length | 1.80 Insertion rate per base | 0.02% Insertion average length | 2.07 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 646942 % of reads mapped to multiple loci | 21.58% Number of reads mapped to too many loci | 23175 % of reads mapped to too many loci | 0.77% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.61% % of reads unmapped: other | 0.10% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 134393 134393 134393 N_multimapping 646942 646942 646942 N_noFeature 125716 147098 2113291 N_ambiguous 90259 7781 394 UnstrandedReadsAssigned:2001141 PositiveStrandReadsAssigned:2062237 NegativeStrandReadsAssigned:103431 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133388 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: ERR6133388-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,998,451 reads, 2,471,800 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 970 rounds 52973 ERR6133388.ke.tsv 35125 ERR6133388.se.tsv 88098 total ==> ERR6133388.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 71 29.2047 PNS24243 293 194 0 0 KQK14069 1603 1504 133 49.9059 KQK14071 474 375 0 0 ==> ERR6133388.se.tsv <== BRADI_1g14170v3 135 BRADI_1g53295v3 24 BRADI_1g59795v3 27 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 25 BRADI_1g74790v3 33 BRADI_1g09890v3 0 BRADI_1g77505v3 51 BRADI_1g48960v3 0 ERR6133388 completed mapping pipeline successfully