SUMMARISING RUN PARAMETERS ========================= Input filename: SRR6995995.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 SRR6995995.fastq.gz Processing reads on 1 core in single-end mode ... === Summary === Total reads processed: 39,780,221 Reads with adapters: 23,668,832 (59.5%) Reads written (passing filters): 39,780,221 (100.0%) Total basepairs processed: 4,017,802,321 bp Quality-trimmed: 316,184,920 bp (7.9%) Total written (filtered): 3,165,549,031 bp (78.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 23668832 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 11462116 9945055.2 0 11462116 2 913639 2486263.8 0 913639 3 452031 621566.0 0 452031 4 350618 155391.5 0 350618 5 306933 38847.9 0 306933 6 287673 9712.0 0 287673 7 281622 2428.0 0 281622 8 223594 607.0 0 223594 9 240111 151.7 0 240111 10 227277 37.9 1 227277 11 163863 9.5 1 163863 12 191866 2.4 1 191866 13 162016 0.6 1 162016 14 154332 0.1 1 154332 15 155092 0.0 1 155092 16 135444 0.0 1 135444 17 148906 0.0 1 148906 18 139969 0.0 1 139969 19 77237 0.0 1 77237 20 100751 0.0 2 100751 21 92710 0.0 2 92710 22 92332 0.0 2 92332 23 71942 0.0 2 71942 24 71831 0.0 2 71831 25 70031 0.0 2 70031 26 59001 0.0 2 59001 27 60092 0.0 2 60092 28 69170 0.0 2 69170 29 44476 0.0 2 44476 30 56054 0.0 3 56054 31 26700 0.0 3 26700 32 44622 0.0 3 44622 33 37960 0.0 3 37960 34 33786 0.0 3 33786 35 32078 0.0 3 32078 36 29446 0.0 3 29446 37 24823 0.0 3 24823 38 22225 0.0 3 22225 39 18967 0.0 3 18967 40 18640 0.0 4 18640 41 17506 0.0 4 17506 42 18111 0.0 4 18111 43 14856 0.0 4 14856 44 15499 0.0 4 15499 45 14325 0.0 4 14325 46 11856 0.0 4 11856 47 10329 0.0 4 10329 48 9714 0.0 4 9714 49 9605 0.0 4 9605 50 9484 0.0 5 9484 51 14034 0.0 5 14034 52 13280 0.0 5 13280 53 8932 0.0 5 8932 54 9882 0.0 5 9882 55 9119 0.0 5 9119 56 13038 0.0 5 13038 57 18891 0.0 5 18891 58 20514 0.0 5 20514 59 11921 0.0 5 11921 60 19122 0.0 6 19122 61 23840 0.0 6 23840 62 75716 0.0 6 75716 63 106484 0.0 6 106484 64 28951 0.0 6 28951 65 37257 0.0 6 37257 66 83778 0.0 6 83778 67 294897 0.0 6 294897 68 680706 0.0 6 680706 69 2318979 0.0 6 2318979 70 1329345 0.0 7 1329345 71 473970 0.0 7 473970 72 166570 0.0 7 166570 73 46778 0.0 7 46778 74 24045 0.0 7 24045 75 13890 0.0 7 13890 76 11132 0.0 7 11132 77 15031 0.0 7 15031 78 14608 0.0 7 14608 79 13595 0.0 7 13595 80 11887 0.0 8 11887 81 10350 0.0 8 10350 82 10109 0.0 8 10109 83 9110 0.0 8 9110 84 8688 0.0 8 8688 85 8905 0.0 8 8905 86 9256 0.0 8 9256 87 9870 0.0 8 9870 88 9386 0.0 8 9386 89 9536 0.0 8 9536 90 10143 0.0 9 10143 91 10789 0.0 9 10789 92 11390 0.0 9 11390 93 11919 0.0 9 11919 94 13136 0.0 9 13136 95 14072 0.0 9 14072 96 16424 0.0 9 16424 97 18075 0.0 9 18075 98 20232 0.0 9 20232 99 23227 0.0 9 23227 100 46740 0.0 10 46740 101 194022 0.0 10 194022 RUN STATISTICS FOR INPUT FILE: SRR6995995.fastq.gz ============================================= 39780221 sequences processed in total Sequences removed because they became shorter than the length cutoff of 20 bp: 6483076 (16.3%) 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: 431609 (1.1%); 1,694,834 bp removed