SUMMARISING RUN PARAMETERS ========================= Input filename: SRR6995994.fastq.gz Trimming mode: single-end Trim Galore version: 2.3.0 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Adapter sequence: 'AGATCGGAAGAGC' (user-specified or auto-detected) Maximum trimming error rate: 0.1 Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length single-end: 20 bp Poly-G trimming enabled: removing poly-G tails from 3' end of both R1 and R2 (2-colour sequencer artifact) Output file will be GZIP compressed Trim Galore 2.3.0 — adapter trimming built in This is cutadapt 4.0 (compatible; for MultiQC backwards compatibility) Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR6995994.fastq.gz Processing reads on 1 core in single-end mode ... === Summary === Total reads processed: 9,188,940 Reads with adapters: 7,714,396 (84.0%) Reads written (passing filters): 9,188,940 (100.0%) Total basepairs processed: 928,082,940 bp Quality-trimmed: 208,253,890 bp (22.4%) Total written (filtered): 345,136,219 bp (37.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 7714396 times. No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Overview of removed sequences length count expect max.err error counts 1 1492673 2297235.0 0 1492673 2 128606 574308.8 0 128606 3 46575 143577.2 0 46575 4 41159 35894.3 0 41159 5 37536 8973.6 0 37536 6 41569 2243.4 0 41569 7 48187 560.8 0 48187 8 28646 140.2 0 28646 9 34008 35.1 0 34008 10 40831 8.8 1 40831 11 21065 2.2 1 21065 12 38704 0.5 1 38704 13 27571 0.1 1 27571 14 29986 0.0 1 29986 15 30811 0.0 1 30811 16 33796 0.0 1 33796 17 31481 0.0 1 31481 18 36540 0.0 1 36540 19 16404 0.0 1 16404 20 27251 0.0 2 27251 21 27037 0.0 2 27037 22 29373 0.0 2 29373 23 20042 0.0 2 20042 24 23565 0.0 2 23565 25 26835 0.0 2 26835 26 20970 0.0 2 20970 27 24430 0.0 2 24430 28 29629 0.0 2 29629 29 20776 0.0 2 20776 30 26214 0.0 3 26214 31 11647 0.0 3 11647 32 24787 0.0 3 24787 33 19825 0.0 3 19825 34 22065 0.0 3 22065 35 17506 0.0 3 17506 36 19797 0.0 3 19797 37 16920 0.0 3 16920 38 14304 0.0 3 14304 39 26209 0.0 3 26209 40 19198 0.0 4 19198 41 20520 0.0 4 20520 42 18071 0.0 4 18071 43 14907 0.0 4 14907 44 16886 0.0 4 16886 45 15612 0.0 4 15612 46 12394 0.0 4 12394 47 10591 0.0 4 10591 48 9609 0.0 4 9609 49 9522 0.0 4 9522 50 9294 0.0 5 9294 51 13903 0.0 5 13903 52 13239 0.0 5 13239 53 8979 0.0 5 8979 54 9200 0.0 5 9200 55 8072 0.0 5 8072 56 12312 0.0 5 12312 57 16342 0.0 5 16342 58 16992 0.0 5 16992 59 9771 0.0 5 9771 60 15041 0.0 6 15041 61 18860 0.0 6 18860 62 60094 0.0 6 60094 63 81473 0.0 6 81473 64 21614 0.0 6 21614 65 27266 0.0 6 27266 66 62431 0.0 6 62431 67 216122 0.0 6 216122 68 512942 0.0 6 512942 69 1759487 0.0 6 1759487 70 1030923 0.0 7 1030923 71 385489 0.0 7 385489 72 136008 0.0 7 136008 73 37320 0.0 7 37320 74 18790 0.0 7 18790 75 10622 0.0 7 10622 76 8751 0.0 7 8751 77 11809 0.0 7 11809 78 11503 0.0 7 11503 79 10575 0.0 7 10575 80 9203 0.0 8 9203 81 8005 0.0 8 8005 82 7640 0.0 8 7640 83 6731 0.0 8 6731 84 6624 0.0 8 6624 85 6531 0.0 8 6531 86 6911 0.0 8 6911 87 7263 0.0 8 7263 88 6993 0.0 8 6993 89 7121 0.0 8 7121 90 7430 0.0 9 7430 91 7861 0.0 9 7861 92 8386 0.0 9 8386 93 8863 0.0 9 8863 94 9659 0.0 9 9659 95 10322 0.0 9 10322 96 11715 0.0 9 11715 97 13349 0.0 9 13349 98 14698 0.0 9 14698 99 16886 0.0 9 16886 100 33928 0.0 10 33928 101 140413 0.0 10 140413 RUN STATISTICS FOR INPUT FILE: SRR6995994.fastq.gz ============================================= 9188940 sequences processed in total Sequences removed because they became shorter than the length cutoff of 20 bp: 4990243 (54.3%) Sequences removed because they were longer than the upper length cutoff: 0 (0.0%) Sequences removed because of too many N bases: 0 (0.0%) Reads with poly-G/C trimmed: 103008 (1.1%); 441,874 bp removed