Starting /dee2/code/volunteer_pipeline.sh SRR5423404 current disk space = 3053118943232 free memory = 1579203600 SRR5423404 SRAfilesize ea6a4e40ba4961c21a0b579908227b13 SRR5423404.sra SRR5423404.sra file validated SRR5423404 is single end SRR5423404 is conventional basespace SRR5423404 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423404_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 52 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.20775 33.0 31.0 34.0 30.0 34.0 2 32.34475 34.0 31.0 34.0 30.0 34.0 3 32.38275 34.0 31.0 34.0 30.0 34.0 4 35.84 37.0 35.0 37.0 35.0 37.0 5 35.71425 37.0 35.0 37.0 33.0 37.0 6 35.736 37.0 35.0 37.0 33.0 37.0 7 35.62675 37.0 35.0 37.0 33.0 37.0 8 35.726 37.0 35.0 37.0 35.0 37.0 9 37.449 39.0 37.0 39.0 34.0 39.0 10 37.27275 39.0 37.0 39.0 34.0 39.0 11 37.2165 39.0 37.0 39.0 33.0 39.0 12 37.28775 39.0 37.0 39.0 34.0 39.0 13 37.20675 39.0 37.0 39.0 33.0 39.0 14 38.55025 40.0 38.0 41.0 34.0 41.0 15 38.383 40.0 38.0 41.0 33.0 41.0 16 38.51925 40.0 38.0 41.0 34.0 41.0 17 38.49075 40.0 38.0 41.0 34.0 41.0 18 38.503 40.0 38.0 41.0 34.0 41.0 19 38.54575 40.0 38.0 41.0 34.0 41.0 20 38.385 40.0 38.0 41.0 33.0 41.0 21 38.53925 40.0 38.0 41.0 34.0 41.0 22 38.53375 40.0 38.0 41.0 34.0 41.0 23 38.51675 40.0 38.0 41.0 34.0 41.0 24 38.4915 40.0 38.0 41.0 34.0 41.0 25 38.41975 40.0 38.0 41.0 34.0 41.0 26 38.3045 40.0 38.0 41.0 34.0 41.0 27 38.428 40.0 38.0 41.0 34.0 41.0 28 38.35825 40.0 38.0 41.0 34.0 41.0 29 38.283 40.0 38.0 41.0 34.0 41.0 30 37.97625 40.0 38.0 41.0 33.0 41.0 31 38.0545 40.0 38.0 41.0 33.0 41.0 32 38.2165 40.0 38.0 41.0 34.0 41.0 33 38.245 40.0 38.0 41.0 34.0 41.0 34 38.20475 40.0 38.0 41.0 33.0 41.0 35 38.01275 40.0 38.0 41.0 33.0 41.0 36 38.035 40.0 38.0 41.0 33.0 41.0 37 37.84575 40.0 37.0 41.0 33.0 41.0 38 37.71625 40.0 37.0 41.0 33.0 41.0 39 37.854 40.0 37.0 41.0 33.0 41.0 40 37.83825 40.0 37.0 41.0 33.0 41.0 41 37.824 40.0 37.0 41.0 33.0 41.0 42 37.6845 40.0 37.0 41.0 32.0 41.0 43 37.70425 40.0 37.0 41.0 32.0 41.0 44 37.57775 40.0 37.0 41.0 32.0 41.0 45 37.32025 40.0 36.0 41.0 31.0 41.0 46 37.25425 39.0 36.0 41.0 31.0 41.0 47 37.243 40.0 36.0 41.0 31.0 41.0 48 37.25725 39.0 36.0 41.0 31.0 41.0 49 37.22375 39.0 36.0 41.0 31.0 41.0 50 37.15475 39.0 36.0 41.0 31.0 41.0 51 36.82125 39.0 35.0 41.0 30.0 41.0 52 35.9705 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2109 1 0.0 2109 2 0.0 2109 3 0.0 2109 4 0.0 2109 5 0.0 2109 6 0.0 2109 7 0.0 2109 8 0.0 2109 9 0.0 2109 10 0.0 2109 11 0.0 2109 12 0.0 2109 13 0.0 2109 14 0.0 2109 15 0.0 2109 16 0.0 2109 17 0.0 2109 18 0.0 2109 19 0.0 2109 20 0.0 2109 21 0.0 2109 22 0.0 2109 23 0.0 2109 24 0.0 2109 25 0.0 2109 26 0.0 2109 27 0.0 2109 28 0.0 2109 29 0.0 2109 30 0.0 2109 31 0.0 2109 32 0.0 2109 33 0.0 2109 34 0.0 2109 35 0.0 2109 36 0.0 2109 37 0.0 2109 38 0.0 2109 39 0.0 2109 40 0.0 2109 41 0.0 2109 42 0.0 2109 43 0.0 2109 44 0.0 2109 45 0.0 2109 46 0.0 2109 47 0.0 2109 48 0.0 2109 49 0.0 2109 50 0.0 2109 51 0.0 2109 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 2.0 22 0.0 23 6.0 24 5.0 25 9.0 26 17.0 27 26.0 28 25.0 29 42.0 30 70.0 31 73.0 32 102.0 33 114.0 34 184.0 35 238.0 36 311.0 37 496.0 38 736.0 39 1533.0 40 11.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 28.521391043282463 9.857393044783588 6.3797848386289715 55.24143107330498 2 21.625 13.225000000000001 36.4 28.749999999999996 3 20.925 17.175 22.35 39.550000000000004 4 25.650000000000002 24.375 20.25 29.725 5 24.349999999999998 29.299999999999997 24.95 21.4 6 18.725 32.125 25.75 23.400000000000002 7 14.899999999999999 23.75 40.825 20.525 8 18.375 23.724999999999998 30.049999999999997 27.85 9 18.125 21.175 35.275 25.424999999999997 10 17.299999999999997 38.625 22.8 21.275 11 22.8 28.125 21.725 27.35 12 21.525 24.75 25.7 28.025 13 20.275000000000002 27.125 28.299999999999997 24.3 14 19.05 29.025000000000002 27.224999999999998 24.7 15 21.45 27.275 25.974999999999998 25.3 16 19.7 28.275 26.5 25.525 17 22.650000000000002 27.400000000000002 26.05 23.9 18 20.724999999999998 26.275 27.474999999999998 25.525 19 20.549999999999997 27.900000000000002 25.4 26.150000000000002 20 22.25 26.8 24.925 26.025 21 20.474999999999998 26.275 26.35 26.900000000000002 22 20.0 28.075 25.224999999999998 26.700000000000003 23 21.975 27.650000000000002 24.95 25.424999999999997 24 22.2 28.349999999999998 24.2 25.25 25 21.075 27.150000000000002 25.8 25.974999999999998 26 21.9 27.275 25.85 24.975 27 20.75 26.724999999999998 26.775 25.75 28 20.575 28.725 26.275 24.425 29 21.4 28.675 25.95 23.974999999999998 30 21.349999999999998 24.925 26.400000000000002 27.325 31 20.9 27.325 25.924999999999997 25.85 32 22.25 27.05 25.025 25.674999999999997 33 22.3 25.1 27.474999999999998 25.124999999999996 34 19.925 26.974999999999998 27.1 26.0 35 20.875 27.500000000000004 24.8 26.825 36 20.275000000000002 27.725 23.875 28.125 37 21.975 27.625 25.025 25.374999999999996 38 22.575 25.95 26.025 25.45 39 20.9 25.575 26.85 26.674999999999997 40 21.025 27.825 25.424999999999997 25.724999999999998 41 21.425 27.325 25.074999999999996 26.174999999999997 42 19.900000000000002 26.0 26.525 27.575 43 21.6 26.625 25.25 26.525 44 22.900000000000002 27.450000000000003 25.45 24.2 45 21.875 26.424999999999997 26.174999999999997 25.525 46 23.3 27.200000000000003 24.7 24.8 47 22.95 28.050000000000004 24.224999999999998 24.775 48 21.075 27.800000000000004 24.7 26.424999999999997 49 21.125 27.0 25.3 26.575 50 22.875 27.250000000000004 25.074999999999996 24.8 51 22.575 26.650000000000002 24.7 26.075 52 22.075 26.8 26.375 24.75 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 0.5 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 1.0 14 2.0 15 2.0 16 2.5 17 3.0 18 5.0 19 7.0 20 5.5 21 4.0 22 7.0 23 10.0 24 15.5 25 21.0 26 20.5 27 20.0 28 26.0 29 32.0 30 44.0 31 56.0 32 59.0 33 62.0 34 84.5 35 107.0 36 133.0 37 159.0 38 178.5 39 204.5 40 211.0 41 232.5 42 254.0 43 284.0 44 314.0 45 322.5 46 331.0 47 347.0 48 363.0 49 352.0 50 341.0 51 354.5 52 368.0 53 348.5 54 329.0 55 281.0 56 233.0 57 211.5 58 190.0 59 162.5 60 135.0 61 118.5 62 102.0 63 82.0 64 46.5 65 31.0 66 30.0 67 29.0 68 18.5 69 8.0 70 8.0 71 8.0 72 5.5 73 3.0 74 2.5 75 2.0 76 1.5 77 1.0 78 0.5 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 0.5 89 0.5 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 0.075 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 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.0 38 0.0 39 0.0 40 0.0 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.0 47 0.0 48 0.0 49 0.0 50 0.0 51 0.0 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.975 #Duplication Level Percentage of deduplicated Percentage of total 1 92.09072404768828 79.175 2 4.7979063681302705 8.25 3 1.5702239022971793 4.05 4 0.5815644082582146 2.0 5 0.20354754289037513 0.8750000000000001 6 0.2907822041291073 1.5 7 0.08723466123873219 0.525 8 0.08723466123873219 0.6 9 0.05815644082582146 0.44999999999999996 >10 0.23262576330328583 2.5749999999999997 >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 warn #Sequence Count Percentage Possible Source CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 23 0.575 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 18 0.44999999999999996 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 11 0.27499999999999997 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 11 0.27499999999999997 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 10 0.25 No Hit CCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTC 10 0.25 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 10 0.25 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 9 0.22499999999999998 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 9 0.22499999999999998 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 8 0.2 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 8 0.2 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 8 0.2 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 7 0.17500000000000002 No Hit GGGTAAACCACCGCCTCTCGGGCCCCCGACTGATTCTACCATAGAGGCCGAC 6 0.15 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 6 0.15 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 6 0.15 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 6 0.15 No Hit CTACGATATTATAAGTTTCTTCCTCTTGACCAAATCTGTAACCTTCATTAGC 6 0.15 No Hit CGCCGTTGTATAACCATTCATCAACGGATGCCGCTTCCCATATTGGGTAAAA 6 0.15 No Hit CTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCTG 6 0.15 No Hit CTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCC 6 0.15 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 6 0.15 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 6 0.15 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 5 0.125 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 5 0.125 No Hit CCGCCCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCC 5 0.125 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit CCCCACTGCCACTAAGTCATCGCCCCCCCAAGTCAAACTGGTGCTTGCTGTT 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 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 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 39 0.0 0.0 0.0 0.0 0.0 40 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra Read 200000 spots for SRR5423404.sra Written 200000 spots for SRR5423404.sra SRR ids: ['SRR5423404.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_4suuj3vh SRR5423404.sra spots: 4000000 blocks: [[1, 200000], [200001, 400000], [400001, 600000], [600001, 800000], [800001, 1000000], [1000001, 1200000], [1200001, 1400000], [1400001, 1600000], [1600001, 1800000], [1800001, 2000000], [2000001, 2200000], [2200001, 2400000], [2400001, 2600000], [2600001, 2800000], [2800001, 3000000], [3000001, 3200000], [3200001, 3400000], [3400001, 3600000], [3600001, 3800000], [3800001, 4000000]] SRR5423404 file size 704010 SRR5423404 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 SRR5423404 SRR5423404_1.fastq Input file: SRR5423404_1.fastq trimmed: SRR5423404-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 Thu Feb 13 06:28:20 2025 >> started Thu Feb 13 06:28:23 2025 >> done (2.062s) 4000000 reads processed; of these: 123 ( 0.00%) short reads filtered out after trimming by size control 42 ( 0.00%) empty reads filtered out after trimming by size control 3999835 (100.00%) reads available; of these: 78318 ( 1.96%) trimmed reads available after processing 3921517 (98.04%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 3 0.00% 20 4 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 3 0.00% 25 4 0.00% 26 2 0.00% 27 0 0.00% 28 2 0.00% 29 3 0.00% 30 0 0.00% 31 4 0.00% 32 8 0.00% 33 20 0.00% 34 12 0.00% 35 12 0.00% 36 15 0.00% 37 15 0.00% 38 31 0.00% 39 42 0.00% 40 50 0.00% 41 66 0.00% 42 90 0.00% 43 144 0.00% 44 383 0.01% 45 380 0.01% 46 529 0.01% 47 748 0.02% 48 1339 0.03% 49 3374 0.08% 50 9810 0.25% 51 61218 1.53% 52 3921517 98.04% 3999835 reads passed initial QC criterion=sequence-density sequence-density=0.34 sequence-density-rank=1 fanout-score=3.63 fanout-score-rank=11 prefix-density=0.42 prefix-fanout=2.9 sequence=CCATTGCTTGCAATGGAAGTAATGTCATT criterion=fanout-score sequence-density=0.05 sequence-density-rank=20 fanout-score=10.26 fanout-score-rank=1 prefix-density=0.11 prefix-fanout=5.1 sequence=GCTCCAAGCATGGCCCACCTGGAATGGATGACTTCAAGCTCACGGTTCTTGGCAAAGGTCTCTGGGTCAGCAGAGAGGCCAGCAGTGTCCCAGCCGTAGTCACCAGGGAACTCACCAGTCAAGTAGGATGGGGGCTCACCAGAGAACGGGCCCAAGTATTTAACACGGTCTGGTCCGTACCATGGGCTCCCGGAGGGAACAGGCTTGGTGGTTTTCCTCATGGAGACACGGCCATTGCCCATGATCTCAGAGGAGGAGGGGTTGAGCTTCACC Started job on | Feb 13 06:28:35 Started mapping on | Feb 13 06:28:35 Finished on | Feb 13 06:28:40 Mapping speed, Million of reads per hour | 2879.88 Number of input reads | 3999835 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3116557 Uniquely mapped reads % | 77.92% Average mapped length | 51.79 Number of splices: Total | 275668 Number of splices: Annotated (sjdb) | 272084 Number of splices: GT/AG | 267910 Number of splices: GC/AG | 6201 Number of splices: AT/AC | 1054 Number of splices: Non-canonical | 503 Mismatch rate per base, % | 0.40% Deletion rate per base | 0.01% Deletion average length | 2.75 Insertion rate per base | 0.00% Insertion average length | 1.33 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 765867 % of reads mapped to multiple loci | 19.15% Number of reads mapped to too many loci | 54553 % of reads mapped to too many loci | 1.36% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.56% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 117411 117411 117411 N_multimapping 765867 765867 765867 N_noFeature 403823 3075431 433702 N_ambiguous 22549 155 11155 UnstrandedReadsAssigned:2690185 PositiveStrandReadsAssigned:40971 NegativeStrandReadsAssigned:2671700 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423404 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: 52,400 [index] number of k-mers: 62,057,036 [index] number of equivalence classes: 130,681 [quant] running in single-end mode [quant] will process file 1: SRR5423404-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,835 reads, 3,275,366 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,082 rounds 52401 SRR5423404.ke.tsv 34699 SRR5423404.se.tsv 87100 total ==> SRR5423404.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 88 12.3704 Potri.005G024800.1.v4.1 1035 936 4 1.15282 Potri.004G059700.1.v4.1 961 862 2 0.625892 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 84.2184 7.98829 Potri.016G087400.1.v4.1 270 171 12 18.9305 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 0 0 Potri.012G127500.1.v4.1 977 878 5 1.53622 ==> SRR5423404.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 2 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 35 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 5 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 2 SRR5423404 completed mapping pipeline successfully