SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913480_1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Python version: could not detect Number of cores used for trimming: 2 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 23597). Second best hit was smallRNA (count: 0) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp Output file will be GZIP compressed This is cutadapt 4.2 with Python 3.10.8 Command line parameters: -j 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR13913480_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1623.553 s (19.233 µs/read; 3.12 M reads/minute). === Summary === Total reads processed: 84,413,993 Reads with adapters: 34,516,894 (40.9%) Reads written (passing filters): 84,413,993 (100.0%) Total basepairs processed: 12,662,098,950 bp Quality-trimmed: 11,683,433 bp (0.1%) Total written (filtered): 12,540,792,298 bp (99.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 34516894 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 37.9% C: 0.1% G: 13.6% T: 48.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 26062083 21103498.2 0 26062083 2 3916835 5275874.6 0 3916835 3 1520067 1318968.6 0 1520067 4 663889 329742.2 0 663889 5 70878 82435.5 0 70878 6 59430 20608.9 0 59430 7 60444 5152.2 0 60444 8 62486 1288.1 0 62486 9 62036 322.0 0 61326 710 10 61573 80.5 1 56597 4976 11 65050 20.1 1 58136 6914 12 61981 5.0 1 56874 5107 13 55940 1.3 1 50377 5563 14 59131 1.3 1 52221 6910 15 56760 1.3 1 50913 5847 16 57717 1.3 1 50326 7391 17 58466 1.3 1 51548 6918 18 55615 1.3 1 50056 5559 19 49894 1.3 1 45060 4834 20 51780 1.3 1 46556 5224 21 50944 1.3 1 45671 5273 22 48122 1.3 1 43841 4281 23 49002 1.3 1 44166 4836 24 49737 1.3 1 44384 5353 25 45827 1.3 1 41691 4136 26 45245 1.3 1 41164 4081 27 45979 1.3 1 41798 4181 28 42530 1.3 1 39054 3476 29 43918 1.3 1 39584 4334 30 41794 1.3 1 38552 3242 31 39077 1.3 1 35815 3262 32 38590 1.3 1 35499 3091 33 38430 1.3 1 34625 3805 34 38374 1.3 1 35108 3266 35 35310 1.3 1 32360 2950 36 33979 1.3 1 31415 2564 37 34142 1.3 1 31227 2915 38 37572 1.3 1 34252 3320 39 30876 1.3 1 28610 2266 40 26274 1.3 1 24304 1970 41 30165 1.3 1 27869 2296 42 28816 1.3 1 26634 2182 43 25255 1.3 1 23264 1991 44 25837 1.3 1 24008 1829 45 27430 1.3 1 25124 2306 46 24624 1.3 1 22568 2056 47 33721 1.3 1 31595 2126 48 13215 1.3 1 12057 1158 49 19414 1.3 1 18280 1134 50 22042 1.3 1 20558 1484 51 19504 1.3 1 18202 1302 52 19312 1.3 1 17821 1491 53 20085 1.3 1 18434 1651 54 17788 1.3 1 16610 1178 55 15427 1.3 1 14486 941 56 15770 1.3 1 14697 1073 57 16790 1.3 1 15601 1189 58 14106 1.3 1 13078 1028 59 15427 1.3 1 14524 903 60 13902 1.3 1 13031 871 61 12185 1.3 1 11267 918 62 11613 1.3 1 11002 611 63 8981 1.3 1 8384 597 64 11828 1.3 1 11110 718 65 11288 1.3 1 10676 612 66 8435 1.3 1 7919 516 67 7161 1.3 1 6677 484 68 9033 1.3 1 8496 537 69 8794 1.3 1 8236 558 70 9823 1.3 1 9231 592 71 8123 1.3 1 7570 553 72 14212 1.3 1 13403 809 73 1152 1.3 1 1008 144 74 731 1.3 1 662 69 75 2606 1.3 1 2449 157 76 3796 1.3 1 3596 200 77 4103 1.3 1 3890 213 78 3811 1.3 1 3590 221 79 3602 1.3 1 3376 226 80 3120 1.3 1 2946 174 81 2888 1.3 1 2711 177 82 2711 1.3 1 2531 180 83 2314 1.3 1 2149 165 84 2120 1.3 1 2003 117 85 1768 1.3 1 1674 94 86 1594 1.3 1 1487 107 87 1488 1.3 1 1404 84 88 1222 1.3 1 1137 85 89 1153 1.3 1 1071 82 90 957 1.3 1 890 67 91 854 1.3 1 790 64 92 694 1.3 1 610 84 93 601 1.3 1 537 64 94 542 1.3 1 490 52 95 476 1.3 1 429 47 96 369 1.3 1 325 44 97 312 1.3 1 267 45 98 276 1.3 1 239 37 99 241 1.3 1 198 43 100 218 1.3 1 171 47 101 203 1.3 1 174 29 102 172 1.3 1 141 31 103 167 1.3 1 136 31 104 160 1.3 1 125 35 105 129 1.3 1 98 31 106 113 1.3 1 94 19 107 122 1.3 1 97 25 108 110 1.3 1 80 30 109 77 1.3 1 61 16 110 87 1.3 1 61 26 111 80 1.3 1 56 24 112 99 1.3 1 72 27 113 82 1.3 1 67 15 114 84 1.3 1 59 25 115 80 1.3 1 66 14 116 76 1.3 1 56 20 117 77 1.3 1 63 14 118 55 1.3 1 42 13 119 59 1.3 1 44 15 120 68 1.3 1 58 10 121 61 1.3 1 44 17 122 54 1.3 1 38 16 123 49 1.3 1 39 10 124 57 1.3 1 45 12 125 55 1.3 1 45 10 126 59 1.3 1 52 7 127 38 1.3 1 26 12 128 35 1.3 1 26 9 129 34 1.3 1 21 13 130 39 1.3 1 33 6 131 50 1.3 1 45 5 132 34 1.3 1 29 5 133 21 1.3 1 20 1 134 49 1.3 1 40 9 135 20 1.3 1 19 1 136 28 1.3 1 23 5 137 12 1.3 1 10 2 138 16 1.3 1 13 3 139 15 1.3 1 11 4 140 14 1.3 1 11 3 141 16 1.3 1 10 6 142 6 1.3 1 3 3 143 9 1.3 1 4 5 144 9 1.3 1 4 5 145 18 1.3 1 11 7 146 11 1.3 1 7 4 147 15 1.3 1 7 8 148 14 1.3 1 7 7 149 29 1.3 1 4 25 150 325 1.3 1 4 321 RUN STATISTICS FOR INPUT FILE: ERR13913480_1.fastq.gz ============================================= 84413993 sequences processed in total