Starting /dee2/code/volunteer_pipeline.sh SRR5423416 current disk space = 3052697505792 free memory = 1579969480 SRR5423416 SRAfilesize ef36265ed5e2bf736a32fd105e72fe6e SRR5423416.sra SRR5423416.sra file validated SRR5423416 is single end SRR5423416 is conventional basespace SRR5423416 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423416_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 31.702 31.0 31.0 34.0 30.0 34.0 2 31.8145 33.0 31.0 34.0 30.0 34.0 3 30.998 31.0 31.0 34.0 27.0 34.0 4 35.1715 37.0 35.0 37.0 32.0 37.0 5 35.39125 37.0 35.0 37.0 33.0 37.0 6 35.46 37.0 35.0 37.0 33.0 37.0 7 35.50625 37.0 35.0 37.0 33.0 37.0 8 35.50175 37.0 35.0 37.0 33.0 37.0 9 37.0595 39.0 37.0 39.0 33.0 39.0 10 37.0395 39.0 37.0 39.0 33.0 39.0 11 37.07425 39.0 37.0 39.0 33.0 39.0 12 37.276 39.0 37.0 39.0 34.0 39.0 13 37.11325 39.0 37.0 39.0 33.0 39.0 14 38.39525 40.0 38.0 41.0 34.0 41.0 15 38.17275 40.0 38.0 41.0 33.0 41.0 16 38.063 40.0 37.0 41.0 33.0 41.0 17 38.193 40.0 37.0 41.0 33.0 41.0 18 38.07875 40.0 37.0 41.0 33.0 41.0 19 38.10875 40.0 37.0 41.0 33.0 41.0 20 38.25325 40.0 37.0 41.0 33.0 41.0 21 38.2015 40.0 37.0 41.0 33.0 41.0 22 38.2795 40.0 37.0 41.0 33.0 41.0 23 38.14425 40.0 37.0 41.0 33.0 41.0 24 38.01175 40.0 37.0 41.0 33.0 41.0 25 38.0105 40.0 37.0 41.0 33.0 41.0 26 37.8865 40.0 37.0 41.0 33.0 41.0 27 37.865 40.0 37.0 41.0 33.0 41.0 28 37.919 40.0 37.0 41.0 33.0 41.0 29 37.75275 40.0 37.0 41.0 32.0 41.0 30 37.9755 40.0 37.0 41.0 33.0 41.0 31 37.9935 40.0 37.0 41.0 33.0 41.0 32 37.8725 40.0 37.0 41.0 33.0 41.0 33 37.7645 40.0 37.0 41.0 33.0 41.0 34 37.713 40.0 37.0 41.0 33.0 41.0 35 37.2605 40.0 36.0 41.0 31.0 41.0 36 37.263 40.0 36.0 41.0 31.0 41.0 37 37.50675 40.0 37.0 41.0 31.0 41.0 38 37.483 39.0 37.0 41.0 31.0 41.0 39 37.27625 39.0 36.0 41.0 31.0 41.0 40 37.1505 39.0 36.0 41.0 30.0 41.0 41 37.3405 39.0 36.0 41.0 31.0 41.0 42 37.00975 39.0 36.0 41.0 30.0 41.0 43 36.9095 39.0 36.0 41.0 30.0 41.0 44 36.91 39.0 36.0 41.0 30.0 41.0 45 36.98925 39.0 36.0 41.0 31.0 41.0 46 36.85925 39.0 36.0 40.0 30.0 41.0 47 36.6615 39.0 35.0 40.0 30.0 41.0 48 36.643 39.0 35.0 40.0 30.0 41.0 49 36.61075 39.0 35.0 40.0 30.0 41.0 50 36.61075 39.0 35.0 40.0 30.0 41.0 51 36.5305 39.0 35.0 40.0 30.0 41.0 52 35.187 38.0 33.0 40.0 26.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2310 1 0.0 2310 2 0.0 2310 3 0.0 2310 4 0.0 2310 5 0.0 2310 6 0.0 2310 7 0.0 2310 8 0.0 2310 9 0.0 2310 10 0.0 2310 11 0.0 2310 12 0.0 2310 13 0.0 2310 14 0.0 2310 15 0.0 2310 16 0.0 2310 17 0.0 2310 18 0.0 2310 19 0.0 2310 20 0.0 2310 21 0.0 2310 22 0.0 2310 23 0.0 2310 24 0.0 2310 25 0.0 2310 26 0.0 2310 27 0.0 2310 28 0.0 2310 29 0.0 2310 30 0.0 2310 31 0.0 2310 32 0.0 2310 33 0.0 2310 34 0.0 2310 35 0.0 2310 36 0.0 2310 37 0.0 2310 38 0.0 2310 39 0.0 2310 40 0.0 2310 41 0.0 2310 42 0.0 2310 43 0.0 2310 44 0.0 2310 45 0.0 2310 46 0.0 2310 47 0.0 2310 48 0.0 2310 49 0.0 2310 50 0.0 2310 51 0.0 2310 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 17 1.0 18 0.0 19 0.0 20 1.0 21 0.0 22 4.0 23 2.0 24 12.0 25 11.0 26 15.0 27 29.0 28 41.0 29 51.0 30 88.0 31 89.0 32 135.0 33 181.0 34 210.0 35 252.0 36 342.0 37 482.0 38 767.0 39 1285.0 40 2.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.704704704704703 10.335335335335335 7.5075075075075075 52.45245245245245 2 21.15 13.775 37.675 27.400000000000002 3 20.849999999999998 21.825 23.025000000000002 34.300000000000004 4 24.975 25.924999999999997 20.349999999999998 28.749999999999996 5 23.625 31.225 24.4 20.75 6 19.075 34.525 24.8 21.6 7 15.725 24.3 40.8 19.175 8 19.825 22.0 30.349999999999998 27.825 9 17.75 21.925 34.325 26.0 10 17.625 37.8 24.275 20.3 11 22.7 28.825 21.325 27.150000000000002 12 20.225 24.625 26.674999999999997 28.475 13 19.525000000000002 26.625 28.95 24.9 14 20.599999999999998 27.35 27.0 25.05 15 21.075 26.974999999999998 28.225 23.724999999999998 16 21.025 27.6 26.174999999999997 25.2 17 21.4 27.925 26.5 24.175 18 20.95 26.924999999999997 25.974999999999998 26.150000000000002 19 20.974999999999998 28.249999999999996 25.775 25.0 20 21.8 27.450000000000003 25.6 25.15 21 21.5 26.174999999999997 25.95 26.375 22 19.925 28.050000000000004 24.975 27.05 23 22.175 28.15 26.5 23.175 24 22.275 26.85 25.1 25.775 25 21.349999999999998 26.474999999999998 26.6 25.575 26 22.35 27.400000000000002 26.25 24.0 27 21.325 26.450000000000003 27.175 25.05 28 22.625 28.1 25.074999999999996 24.2 29 22.075 28.050000000000004 25.650000000000002 24.224999999999998 30 20.925 26.025 25.8 27.250000000000004 31 21.7 27.250000000000004 26.075 24.975 32 21.224999999999998 27.750000000000004 27.05 23.974999999999998 33 21.275 25.05 27.400000000000002 26.275 34 20.65 27.474999999999998 25.374999999999996 26.5 35 21.349999999999998 27.85 24.775 26.025 36 22.325 27.55 24.7 25.424999999999997 37 20.599999999999998 27.025 25.95 26.424999999999997 38 21.475 27.950000000000003 24.75 25.825 39 21.475 25.525 25.75 27.250000000000004 40 21.260630315157577 25.86293146573287 27.5887943971986 25.287643821910955 41 21.55 26.900000000000002 25.900000000000002 25.650000000000002 42 20.974999999999998 26.025 26.575 26.424999999999997 43 21.025 27.575 24.375 27.025 44 23.25 27.425 26.6 22.725 45 22.825 26.0 25.3 25.874999999999996 46 21.65 26.424999999999997 26.575 25.35 47 23.111555777888945 27.388694347173587 25.387693846923458 24.112056028014006 48 21.8 27.474999999999998 24.425 26.3 49 20.985492746373186 26.8384192096048 25.287643821910955 26.88844422211106 50 23.150000000000002 27.575 25.25 24.025 51 20.68534267133567 26.263131565782892 26.038019009504755 27.01350675337669 52 22.1 26.75 26.200000000000003 24.95 >>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 0.5 15 1.0 16 2.5 17 4.0 18 5.5 19 7.0 20 7.0 21 7.0 22 8.0 23 9.0 24 10.5 25 12.0 26 16.0 27 20.0 28 28.0 29 36.0 30 45.5 31 55.0 32 71.5 33 88.0 34 100.0 35 112.0 36 142.5 37 173.0 38 211.5 39 238.5 40 227.0 41 251.5 42 276.0 43 297.5 44 319.0 45 327.0 46 335.0 47 321.0 48 307.0 49 313.0 50 319.0 51 336.0 52 353.0 53 329.5 54 306.0 55 256.5 56 207.0 57 198.0 58 189.0 59 161.5 60 134.0 61 115.5 62 97.0 63 78.5 64 48.0 65 36.0 66 34.0 67 32.0 68 24.0 69 16.0 70 12.0 71 8.0 72 6.5 73 5.0 74 2.5 75 0.0 76 0.0 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 0.1 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 0.05 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.0 47 0.05 48 0.0 49 0.05 50 0.0 51 0.05 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 89.025 #Duplication Level Percentage of deduplicated Percentage of total 1 93.73771412524572 83.45 2 3.7349059253018817 6.65 3 1.2075259758494805 3.225 4 0.5054759898904801 1.7999999999999998 5 0.33698399326032014 1.5 6 0.2246559955068801 1.2 7 0.08424599831508003 0.525 8 0.0 0.0 9 0.05616399887672002 0.44999999999999996 >10 0.11232799775344005 1.2 >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 CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 13 0.325 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 13 0.325 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 12 0.3 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 10 0.25 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 9 0.22499999999999998 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 9 0.22499999999999998 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 7 0.17500000000000002 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 7 0.17500000000000002 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 7 0.17500000000000002 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 6 0.15 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 6 0.15 No Hit GTCGAATCCAATGATACGGATAAAGGAGTTAGGGTAAGCTTTCTTCGCCTCC 6 0.15 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 6 0.15 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 6 0.15 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 6 0.15 No Hit CACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTCTC 6 0.15 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 6 0.15 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 5 0.125 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 5 0.125 No Hit GTGCTGAGTTGGAATCCCATTCTAACTAAGGATTCTTGTGGTTCCGGAGGAT 5 0.125 No Hit GTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCC 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 5 0.125 No Hit GCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCT 5 0.125 No Hit CGCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTT 5 0.125 No Hit CTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCC 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 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 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110346 spots for SRR5423416.sra Written 110346 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra Read 110345 spots for SRR5423416.sra Written 110345 spots for SRR5423416.sra SRR ids: ['SRR5423416.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_lkwz3b40 SRR5423416.sra spots: 2206901 blocks: [[1, 110345], [110346, 220690], [220691, 331035], [331036, 441380], [441381, 551725], [551726, 662070], [662071, 772415], [772416, 882760], [882761, 993105], [993106, 1103450], [1103451, 1213795], [1213796, 1324140], [1324141, 1434485], [1434486, 1544830], [1544831, 1655175], [1655176, 1765520], [1765521, 1875865], [1875866, 1986210], [1986211, 2096555], [2096556, 2206901]] SRR5423416 file size 387870 SRR5423416 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 SRR5423416 SRR5423416_1.fastq Input file: SRR5423416_1.fastq trimmed: SRR5423416-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 07:58:10 2025 >> started Thu Feb 13 07:59:33 2025 >> done (83.621s) 2206901 reads processed; of these: 76 ( 0.00%) short reads filtered out after trimming by size control 22 ( 0.00%) empty reads filtered out after trimming by size control 2206803 (100.00%) reads available; of these: 45260 ( 2.05%) trimmed reads available after processing 2161543 (97.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 3 0.00% 19 3 0.00% 20 3 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 0 0.00% 25 0 0.00% 26 1 0.00% 27 1 0.00% 28 0 0.00% 29 2 0.00% 30 0 0.00% 31 1 0.00% 32 1 0.00% 33 3 0.00% 34 4 0.00% 35 1 0.00% 36 6 0.00% 37 8 0.00% 38 11 0.00% 39 10 0.00% 40 25 0.00% 41 19 0.00% 42 23 0.00% 43 48 0.00% 44 69 0.00% 45 97 0.00% 46 143 0.01% 47 255 0.01% 48 572 0.03% 49 1395 0.06% 50 5054 0.23% 51 37502 1.70% 52 2161543 97.95% 2206803 reads passed initial QC criterion=sequence-density sequence-density=0.48 sequence-density-rank=1 fanout-score=1.95 fanout-score-rank=25 prefix-density=0.49 prefix-fanout=1.9 sequence=TGAGATGCCTCAGTGCATCCAAACATGGGTAG criterion=fanout-score sequence-density=0.01 sequence-density-rank=24 fanout-score=27.92 fanout-score-rank=1 prefix-density=0.36 prefix-fanout=1.1 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 13 08:07:41 Started mapping on | Feb 13 08:07:44 Finished on | Feb 13 08:48:26 Mapping speed, Million of reads per hour | 3.25 Number of input reads | 2206803 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 1715543 Uniquely mapped reads % | 77.74% Average mapped length | 51.80 Number of splices: Total | 151577 Number of splices: Annotated (sjdb) | 149765 Number of splices: GT/AG | 147373 Number of splices: GC/AG | 3407 Number of splices: AT/AC | 559 Number of splices: Non-canonical | 238 Mismatch rate per base, % | 0.50% Deletion rate per base | 0.01% Deletion average length | 2.67 Insertion rate per base | 0.00% Insertion average length | 1.39 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 424987 % of reads mapped to multiple loci | 19.26% Number of reads mapped to too many loci | 31505 % of reads mapped to too many loci | 1.43% 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 66273 66273 66273 N_multimapping 424987 424987 424987 N_noFeature 224337 1692892 240627 N_ambiguous 12619 87 6176 UnstrandedReadsAssigned:1478587 PositiveStrandReadsAssigned:22564 NegativeStrandReadsAssigned:1468740 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423416 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: SRR5423416-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,206,803 reads, 1,796,601 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,044 rounds 52401 SRR5423416.ke.tsv 34699 SRR5423416.se.tsv 87100 total ==> SRR5423416.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 52 13.3069 Potri.005G024800.1.v4.1 1035 936 1 0.524653 Potri.004G059700.1.v4.1 961 862 0 0 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 42.3515 7.31286 Potri.016G087400.1.v4.1 270 171 4 11.4872 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1 0.293355 Potri.012G127500.1.v4.1 977 878 1 0.559312 ==> SRR5423416.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 9 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 0 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423416 completed mapping pipeline successfully