SUMMARISING RUN PARAMETERS ========================= Input filename: SRR6995996.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 SRR6995996.fastq.gz Processing reads on 1 core in single-end mode ... === Summary === Total reads processed: 33,409,414 Reads with adapters: 17,611,436 (52.7%) Reads written (passing filters): 33,409,414 (100.0%) Total basepairs processed: 3,374,350,814 bp Quality-trimmed: 220,159,975 bp (6.5%) Total written (filtered): 2,845,747,408 bp (84.3%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 17611436 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 10442109 8352353.5 0 10442109 2 858546 2088088.4 0 858546 3 323061 522022.1 0 323061 4 208999 130505.5 0 208999 5 156468 32626.4 0 156468 6 150095 8156.6 0 150095 7 150683 2039.1 0 150683 8 112087 509.8 0 112087 9 121113 127.4 0 121113 10 120183 31.9 1 120183 11 82513 8.0 1 82513 12 101876 2.0 1 101876 13 82802 0.5 1 82802 14 79808 0.1 1 79808 15 80044 0.0 1 80044 16 70782 0.0 1 70782 17 77593 0.0 1 77593 18 76669 0.0 1 76669 19 37746 0.0 1 37746 20 52871 0.0 2 52871 21 48510 0.0 2 48510 22 50987 0.0 2 50987 23 35225 0.0 2 35225 24 35323 0.0 2 35323 25 35800 0.0 2 35800 26 29366 0.0 2 29366 27 30804 0.0 2 30804 28 35277 0.0 2 35277 29 22003 0.0 2 22003 30 27014 0.0 3 27014 31 12785 0.0 3 12785 32 21700 0.0 3 21700 33 20186 0.0 3 20186 34 19001 0.0 3 19001 35 14386 0.0 3 14386 36 11967 0.0 3 11967 37 13575 0.0 3 13575 38 13727 0.0 3 13727 39 10169 0.0 3 10169 40 11801 0.0 4 11801 41 10037 0.0 4 10037 42 10199 0.0 4 10199 43 7545 0.0 4 7545 44 7278 0.0 4 7278 45 6505 0.0 4 6505 46 5769 0.0 4 5769 47 5357 0.0 4 5357 48 4426 0.0 4 4426 49 4041 0.0 4 4041 50 5250 0.0 5 5250 51 7084 0.0 5 7084 52 6642 0.0 5 6642 53 4818 0.0 5 4818 54 5451 0.0 5 5451 55 5173 0.0 5 5173 56 6834 0.0 5 6834 57 10395 0.0 5 10395 58 11081 0.0 5 11081 59 7370 0.0 5 7370 60 12415 0.0 6 12415 61 16006 0.0 6 16006 62 40675 0.0 6 40675 63 71680 0.0 6 71680 64 22344 0.0 6 22344 65 27767 0.0 6 27767 66 60311 0.0 6 60311 67 205204 0.0 6 205204 68 445144 0.0 6 445144 69 1354225 0.0 6 1354225 70 645223 0.0 7 645223 71 244033 0.0 7 244033 72 91071 0.0 7 91071 73 26535 0.0 7 26535 74 13931 0.0 7 13931 75 8024 0.0 7 8024 76 6493 0.0 7 6493 77 8718 0.0 7 8718 78 8528 0.0 7 8528 79 8007 0.0 7 8007 80 6845 0.0 8 6845 81 6103 0.0 8 6103 82 5921 0.0 8 5921 83 5230 0.0 8 5230 84 4955 0.0 8 4955 85 4970 0.0 8 4970 86 5269 0.0 8 5269 87 5662 0.0 8 5662 88 5293 0.0 8 5293 89 5353 0.0 8 5353 90 5769 0.0 9 5769 91 6086 0.0 9 6086 92 6382 0.0 9 6382 93 6697 0.0 9 6697 94 7313 0.0 9 7313 95 8005 0.0 9 8005 96 9214 0.0 9 9214 97 10205 0.0 9 10205 98 11439 0.0 9 11439 99 13235 0.0 9 13235 100 26743 0.0 10 26743 101 111504 0.0 10 111504 RUN STATISTICS FOR INPUT FILE: SRR6995996.fastq.gz ============================================= 33409414 sequences processed in total Sequences removed because they became shorter than the length cutoff of 20 bp: 3780011 (11.3%) 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: 422934 (1.3%); 1,729,806 bp removed