Starting /dee2/code/volunteer_pipeline.sh SRR921329 current disk space = 1547845230592 free memory = 1600049776 SRR921329 SRAfilesize bbd608ad795ea9de4f0fe78b9a370adf SRR921329.sra SRR921329.sra file validated SRR921329 is single end SRR921329 is conventional basespace SRR921329 read1 length is 35 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR921329_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 35 %GC 50 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.37875 39.0 33.0 40.0 2.0 40.0 2 32.84325 39.0 33.0 40.0 11.0 40.0 3 32.93775 39.0 33.0 40.0 11.0 40.0 4 32.861 39.0 33.0 40.0 11.0 40.0 5 32.78825 39.0 33.0 40.0 11.0 40.0 6 33.83975 39.0 33.0 40.0 18.0 40.0 7 33.81025 39.0 33.0 40.0 17.0 40.0 8 33.71925 39.0 33.0 40.0 17.0 40.0 9 33.65975 39.0 33.0 40.0 17.0 40.0 10 33.604 39.0 33.0 40.0 17.0 40.0 11 35.60425 39.0 34.0 40.0 31.0 40.0 12 35.53125 39.0 34.0 40.0 30.0 40.0 13 35.69575 39.0 34.0 40.0 31.0 40.0 14 35.80325 39.0 34.0 40.0 31.0 40.0 15 35.6925 39.0 34.0 40.0 31.0 40.0 16 35.604 39.0 34.0 40.0 31.0 40.0 17 35.53225 39.0 34.0 40.0 31.0 40.0 18 35.34325 39.0 33.0 40.0 30.0 40.0 19 35.35825 39.0 34.0 40.0 30.0 40.0 20 35.12275 38.0 33.0 40.0 29.0 40.0 21 35.0365 38.0 33.0 40.0 29.0 40.0 22 34.826 38.0 33.0 40.0 28.0 40.0 23 34.68425 38.0 33.0 40.0 27.0 40.0 24 34.51025 38.0 32.0 40.0 27.0 40.0 25 34.367 38.0 31.0 40.0 27.0 40.0 26 33.69725 38.0 31.0 40.0 23.0 40.0 27 33.57 38.0 31.0 40.0 23.0 40.0 28 33.55825 38.0 31.0 40.0 23.0 40.0 29 33.50925 38.0 31.0 40.0 23.0 40.0 30 33.2315 38.0 31.0 40.0 22.0 40.0 31 33.20525 38.0 31.0 39.0 22.0 40.0 32 33.042 38.0 31.0 40.0 21.0 40.0 33 32.8825 37.0 31.0 39.0 22.0 40.0 34 32.6515 37.0 31.0 39.0 20.0 40.0 35 32.56475 36.0 31.0 39.0 20.0 40.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1 1 0.0 1 2 0.0 1 3 0.0 1 4 0.0 1 5 0.0 1 6 0.0 1 7 0.0 1 8 0.0 1 9 0.0 1 10 0.0 1 11 0.0 1 12 0.0 1 13 0.0 1 14 0.0 1 15 0.0 1 16 0.0 1 17 0.0 1 18 0.0 1 19 0.0 1 20 0.0 1 21 0.0 1 22 0.0 1 23 0.0 1 24 0.0 1 25 0.0 1 26 0.0 1 27 0.0 1 28 0.0 1 29 0.0 1 30 0.0 1 31 0.0 1 32 0.0 1 33 0.0 1 34 0.0 1 35 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 103.0 3 0.0 4 0.0 5 0.0 6 0.0 7 1.0 8 8.0 9 4.0 10 2.0 11 6.0 12 4.0 13 9.0 14 9.0 15 6.0 16 6.0 17 12.0 18 15.0 19 15.0 20 34.0 21 39.0 22 51.0 23 72.0 24 99.0 25 114.0 26 167.0 27 143.0 28 54.0 29 36.0 30 37.0 31 49.0 32 66.0 33 72.0 34 93.0 35 135.0 36 197.0 37 333.0 38 537.0 39 1457.0 40 15.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 22.879256965944272 25.727554179566564 25.1702786377709 26.222910216718265 2 26.025 27.125 22.375 24.474999999999998 3 21.675 19.275000000000002 23.175 35.875 4 23.625 24.825 30.95 20.599999999999998 5 21.625 25.8 20.525 32.05 6 24.7 29.15 25.05 21.099999999999998 7 22.7 32.300000000000004 19.7 25.3 8 23.7 35.325 20.275000000000002 20.7 9 25.825 30.675 22.0 21.5 10 36.975 24.5 18.0 20.525 11 28.175 30.9 20.65 20.275000000000002 12 33.300000000000004 29.425 19.8 17.474999999999998 13 39.45 23.549999999999997 17.775 19.225 14 24.525 35.875 19.975 19.625 15 28.799999999999997 30.55 21.9 18.75 16 24.65 31.75 22.05 21.55 17 30.9 25.224999999999998 24.55 19.325 18 33.75 22.35 21.375 22.525000000000002 19 31.4 23.75 19.400000000000002 25.45 20 23.65 26.75 27.075 22.525000000000002 21 27.85 21.775 30.5 19.875 22 32.275 25.324999999999996 18.8 23.599999999999998 23 26.224999999999998 22.5 21.0 30.275000000000002 24 31.825 25.174999999999997 24.125 18.875 25 36.65 24.474999999999998 18.35 20.525 26 29.875 20.7 29.15 20.275000000000002 27 32.225 24.15 21.349999999999998 22.275 28 30.4 23.5 23.1 23.0 29 24.15 31.175000000000004 18.625 26.05 30 25.124999999999996 27.200000000000003 27.0 20.674999999999997 31 29.2 31.75 19.2 19.85 32 27.125 23.599999999999998 21.175 28.1 33 26.224999999999998 26.5 21.85 25.424999999999997 34 25.4 22.425 31.025000000000002 21.15 35 28.475 31.374999999999996 22.15 18.0 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 2.5 2 5.0 3 5.0 4 4.5 5 4.0 6 4.0 7 3.0 8 2.0 9 2.0 10 1.5 11 1.0 12 1.0 13 1.5 14 2.0 15 2.0 16 4.5 17 7.0 18 7.0 19 7.5 20 8.0 21 9.0 22 10.0 23 10.0 24 20.0 25 30.0 26 30.0 27 32.5 28 35.0 29 35.0 30 49.5 31 64.0 32 64.0 33 96.0 34 128.0 35 128.0 36 166.0 37 204.0 38 204.0 39 228.0 40 252.0 41 304.0 42 356.0 43 356.0 44 411.0 45 466.0 46 466.0 47 467.0 48 468.0 49 468.0 50 456.0 51 444.0 52 444.0 53 413.0 54 382.0 55 382.0 56 333.0 57 284.0 58 284.0 59 255.5 60 227.0 61 197.0 62 167.0 63 167.0 64 148.0 65 129.0 66 129.0 67 121.0 68 113.0 69 113.0 70 99.0 71 85.0 72 85.0 73 74.0 74 63.0 75 63.0 76 50.5 77 38.0 78 38.0 79 26.0 80 14.0 81 9.5 82 5.0 83 5.0 84 4.5 85 4.0 86 4.0 87 2.0 88 0.0 89 0.0 90 1.0 91 2.0 92 2.0 93 1.0 94 0.0 95 0.0 96 0.5 97 1.0 98 1.0 99 0.5 100 0.0 >>END_MODULE >>Per base N content warn #Base N-Count 1 19.25 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 >>END_MODULE >>Sequence Length Distribution pass #Length Count 35 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 90.425 #Duplication Level Percentage of deduplicated Percentage of total 1 95.90821122477192 86.725 2 1.6311860658003872 2.9499999999999997 3 1.1335360796239977 3.075 4 0.41470832181365774 1.5 5 0.27647221454243853 1.25 6 0.24882499308819464 1.35 7 0.13823610727121927 0.8750000000000001 8 0.08294166436273154 0.6 9 0.0552944429084877 0.44999999999999996 >10 0.1105888858169754 1.225 >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 ATGTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 14 0.35000000000000003 No Hit CTCTCTCATGGAGAGTTCGATCCTGGCTCAGGATG 13 0.325 No Hit ATTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 11 0.27499999999999997 No Hit AATTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 11 0.27499999999999997 No Hit NATTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 9 0.22499999999999998 No Hit NTGTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 9 0.22499999999999998 No Hit TACTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 8 0.2 No Hit TTCTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 8 0.2 No Hit NACTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 8 0.2 No Hit CACTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 7 0.17500000000000002 No Hit CTTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 7 0.17500000000000002 No Hit TGCACACCGATGACGATGGTGAAGGCAAGGAAATG 7 0.17500000000000002 No Hit CCGTCTCATGGAGAGTTCGATCCTGGCTCAGGATG 7 0.17500000000000002 No Hit GGGGCGACCCCAGGTCAGGCGGGACTACCCGCTGA 7 0.17500000000000002 No Hit CATTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 6 0.15 No Hit CCCTCTCATGGAGAGTTCGATCCTGGCTCAGGATG 6 0.15 No Hit AGCTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 6 0.15 No Hit TCATCTCATGGAGAGTTCGATCCTGGCTCAGGATG 6 0.15 No Hit NCGTCTCATGGAGAGTTCGATCCTGGCTCAGGATG 6 0.15 No Hit TATTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 6 0.15 No Hit AGATCGGAAGAGCACACGTCTGAACTCCAGTCACT 6 0.15 Illumina Multiplexing PCR Primer 2.01 (100% over 34bp) CAATCTCATGGAGAGTTCGATCCTGGCTCAGGATG 6 0.15 No Hit TCTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 6 0.15 No Hit NCTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit CCTTCTCATGGAGAGTTCGATCCTGGCTCAGGATG 5 0.125 No Hit AGTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit NTTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit ACCTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit TAATCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit AAATCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit GCCTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit TTTTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 5 0.125 No Hit ATCTCAAAAGAGGAAAGGCTTGCGGTGGATACCTA 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 0.15 0.0 0.0 0.0 0.0 2 0.25 0.0 0.0 0.0 0.0 3 0.4 0.0 0.0 0.0 0.0 4 0.5 0.0 0.0 0.0 0.0 5 0.525 0.0 0.0 0.0 0.0 6 0.525 0.0 0.0 0.0 0.0 7 0.55 0.0 0.0 0.0 0.0 8 0.575 0.0 0.0 0.0 0.0 9 0.575 0.0 0.0 0.0 0.0 10 0.625 0.0 0.0 0.0 0.0 11 0.625 0.0 0.0 0.0 0.0 12 0.725 0.0 0.0 0.0 0.0 13 0.75 0.0 0.0 0.0 0.0 14 0.8 0.0 0.0 0.0 0.0 15 0.925 0.0 0.0 0.0 0.0 16 1.0 0.0 0.0 0.0 0.0 17 1.075 0.0 0.0 0.0 0.0 18 1.1 0.0 0.0 0.0 0.0 19 1.1 0.0 0.0 0.0 0.0 20 1.1 0.0 0.0 0.0 0.0 21 1.1 0.0 0.0 0.0 0.0 22 1.1 0.0 0.0 0.0 0.0 23 1.1 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position ATCCTGG 20 0.005573872 28.8 20 GGAGAGT 20 0.005573872 28.8 10 TCGATCC 20 0.005573872 28.8 17 GAGGAAA 30 3.5797428E-5 28.8 10 GATACCT 30 3.5797428E-5 28.8 28 TCAGGAT 20 0.005573872 28.8 28 TTCGATC 20 0.005573872 28.8 16 AGAGGAA 30 3.5797428E-5 28.8 9 AAGAGGA 30 3.5797428E-5 28.8 8 AGGAAAG 30 3.5797428E-5 28.8 11 CTGGCTC 20 0.005573872 28.8 23 GAGTTCG 20 0.005573872 28.8 13 GGATACC 30 3.5797428E-5 28.8 27 AGAGTTC 20 0.005573872 28.8 12 TCAAAAG 30 3.5797428E-5 28.8 4 AAAAGAG 30 3.5797428E-5 28.8 6 AGGCTTG 30 3.5797428E-5 28.8 16 CGGTGGA 30 3.5797428E-5 28.8 23 TCATGGA 20 0.005573872 28.8 6 GGCTTGC 30 3.5797428E-5 28.8 17 >>END_MODULE Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843991 spots for SRR921329.sra Written 843991 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra Read 843983 spots for SRR921329.sra Written 843983 spots for SRR921329.sra SRR ids: ['SRR921329.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd__bwztl7z SRR921329.sra spots: 16879668 blocks: [[1, 843983], [843984, 1687966], [1687967, 2531949], [2531950, 3375932], [3375933, 4219915], [4219916, 5063898], [5063899, 5907881], [5907882, 6751864], [6751865, 7595847], [7595848, 8439830], [8439831, 9283813], [9283814, 10127796], [10127797, 10971779], [10971780, 11815762], [11815763, 12659745], [12659746, 13503728], [13503729, 14347711], [14347712, 15191694], [15191695, 16035677], [16035678, 16879668]] SRR921329 file size 2464588 SRR921329 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 SRR921329 SRR921329_1.fastq Input file: SRR921329_1.fastq trimmed: SRR921329-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 00:10:50 2024 >> started Sat Dec 7 00:11:02 2024 >> done (12.729s) 16879668 reads processed; of these: 202003 ( 1.20%) short reads filtered out after trimming by size control 60245 ( 0.36%) empty reads filtered out after trimming by size control 16617420 (98.45%) reads available; of these: 735686 ( 4.43%) trimmed reads available after processing 15881734 (95.57%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 13630 0.08% 19 23123 0.14% 20 52951 0.32% 21 11930 0.07% 22 22804 0.14% 23 29688 0.18% 24 53501 0.32% 25 130203 0.78% 26 20360 0.12% 27 29425 0.18% 28 49436 0.30% 29 69664 0.42% 30 136523 0.82% 31 16504 0.10% 32 18484 0.11% 33 26686 0.16% 34 30774 0.19% 35 15881734 95.57% 16617420 reads passed initial QC criterion=sequence-density sequence-density=7.45 sequence-density-rank=1 fanout-score=44.48 fanout-score-rank=2 prefix-density=7.31 prefix-fanout=44.5 sequence=TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGA criterion=fanout-score sequence-density=1.45 sequence-density-rank=4 fanout-score=44.87 fanout-score-rank=1 prefix-density=1.42 prefix-fanout=44.9 sequence=TACCTGGTTGATCCTGCCAGTAGTCATATGCTT Potential 3prime adapter identified. Now checking if in reference sequence Warning: gzbuffer added in zlib v1.2.3.5. Unable to change buffer size from default of 8192. 1 reads; of these: 1 (100.00%) were unpaired; of these: 1 (100.00%) aligned 0 times 0 (0.00%) aligned exactly 1 time 0 (0.00%) aligned >1 times 0.00% overall alignment rate Adapter seq not found in reference. Now shuffling file before clipping skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -t 20 -x TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGA -o SRR921329 - Input file: STDIN trimmed: SRR921329-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGC -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- minimum overlap length for adapter detection (-k): 3 -- number of concurrent threads (-t): 20 Sat Dec 7 00:11:32 2024 >> started Sat Dec 7 00:11:47 2024 >> done (15.155s) 12463065 reads processed; of these: 910476 ( 7.31%) short reads filtered out after trimming by size control 2239 ( 0.02%) empty reads filtered out after trimming by size control 11550350 (92.68%) reads available; of these: 223945 ( 1.94%) trimmed reads available after processing 11326405 (98.06%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 10278 0.09% 19 16606 0.14% 20 36815 0.32% 21 9297 0.08% 22 17294 0.15% 23 21073 0.18% 24 37776 0.33% 25 88237 0.76% 26 15285 0.13% 27 21345 0.18% 28 32410 0.28% 29 50134 0.43% 30 105146 0.91% 31 61476 0.53% 32 163304 1.41% 33 15884 0.14% 34 21716 0.19% 35 10826274 93.73% criterion=sequence-density sequence-density=4.39 sequence-density-rank=1 fanout-score=40.41 fanout-score-rank=3 prefix-density=4.32 prefix-fanout=40.4 sequence=TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCT criterion=fanout-score sequence-density=1.54 sequence-density-rank=3 fanout-score=45.09 fanout-score-rank=1 prefix-density=1.51 prefix-fanout=45.1 sequence=TACCTGGTTGATCCTGCCAGTAGTCATATGCTTG Started job on | Dec 07 00:12:21 Started mapping on | Dec 07 00:12:21 Finished on | Dec 07 00:12:36 Mapping speed, Million of reads per hour | 3769.13 Number of input reads | 15704705 Average input read length | 30 UNIQUE READS: Uniquely mapped reads number | 11319267 Uniquely mapped reads % | 72.08% Average mapped length | 30.42 Number of splices: Total | 924741 Number of splices: Annotated (sjdb) | 888191 Number of splices: GT/AG | 910983 Number of splices: GC/AG | 10772 Number of splices: AT/AC | 497 Number of splices: Non-canonical | 2489 Mismatch rate per base, % | 0.29% Deletion rate per base | 0.00% Deletion average length | 1.38 Insertion rate per base | 0.00% Insertion average length | 1.22 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 2368883 % of reads mapped to multiple loci | 15.08% Number of reads mapped to too many loci | 981663 % of reads mapped to too many loci | 6.25% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 6.24% % of reads unmapped: other | 0.35% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 2016555 2016555 2016555 N_multimapping 2368883 2368883 2368883 N_noFeature 595404 853092 10843008 N_ambiguous 231790 12948 1717 UnstrandedReadsAssigned:10492073 PositiveStrandReadsAssigned:10453227 NegativeStrandReadsAssigned:474542 Dataset is classified positive stranded MeadianReadLen=31 20thPercentileLength=31 echo kmer=27 SRR921329 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=27 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [index] k-mer length: 27 [index] number of targets: 52,972 [index] number of k-mers: 66,546,128 [index] number of equivalence classes: 124,662 [quant] running in single-end mode [quant] will process file 1: SRR921329-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,704,705 reads, 9,909,698 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,148 rounds 52973 SRR921329.ke.tsv 35125 SRR921329.se.tsv 88098 total ==> SRR921329.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 4.59408 0.648637 PNS24249 1928 1829 28.2951 2.06411 PNS24246 1044 945 4.59408 0.648637 PNS24248 1044 945 4.59408 0.648637 PNS24244 1471 1372 136.923 13.3155 PNS24243 293 194 0 0 KQK14069 1603 1504 19673.8 1745.32 KQK14071 474 375 27736.5 9868.62 ==> SRR921329.se.tsv <== BRADI_1g14170v3 52119 BRADI_1g53295v3 18 BRADI_1g59795v3 59 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 204 BRADI_1g74790v3 82 BRADI_1g09890v3 12 BRADI_1g77505v3 51 BRADI_1g48960v3 0 SRR921329 completed mapping pipeline successfully