SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913486_2.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: 28018). Second best hit was Nextera (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 ERR13913486_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2413.775 s (21.271 µs/read; 2.82 M reads/minute). === Summary === Total reads processed: 113,478,377 Reads with adapters: 58,991,784 (52.0%) Reads written (passing filters): 113,478,377 (100.0%) Total basepairs processed: 17,021,756,550 bp Quality-trimmed: 69,572,021 bp (0.4%) Total written (filtered): 16,779,176,175 bp (98.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 58991784 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.6% C: 17.2% G: 0.4% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 54676006 28369594.2 0 54676006 2 169421 7092398.6 0 169421 3 155697 1773099.6 0 155697 4 123246 443274.9 0 123246 5 115946 110818.7 0 115946 6 93961 27704.7 0 93961 7 101743 6926.2 0 101743 8 108022 1731.5 0 108022 9 82373 432.9 0 82331 42 10 99262 108.2 1 92282 6980 11 96286 27.1 1 87894 8392 12 92297 6.8 1 65469 26828 13 90112 1.7 1 62787 27325 14 96929 1.7 1 68361 28568 15 81716 1.7 1 57814 23902 16 87598 1.7 1 61491 26107 17 102228 1.7 1 72519 29709 18 68806 1.7 1 48606 20200 19 95204 1.7 1 68385 26819 20 87954 1.7 1 62619 25335 21 65164 1.7 1 46354 18810 22 75750 1.7 1 54374 21376 23 74115 1.7 1 53478 20637 24 99097 1.7 1 72291 26806 25 84881 1.7 1 60526 24355 26 53515 1.7 1 38745 14770 27 58901 1.7 1 42600 16301 28 74832 1.7 1 55435 19397 29 62477 1.7 1 45301 17176 30 74563 1.7 1 55336 19227 31 56566 1.7 1 41373 15193 32 69785 1.7 1 51824 17961 33 67046 1.7 1 49763 17283 34 51070 1.7 1 37616 13454 35 57022 1.7 1 42655 14367 36 63518 1.7 1 47704 15814 37 59857 1.7 1 45030 14827 38 52701 1.7 1 39448 13253 39 64047 1.7 1 48840 15207 40 43326 1.7 1 32219 11107 41 46739 1.7 1 35210 11529 42 41378 1.7 1 31397 9981 43 45982 1.7 1 34724 11258 44 44436 1.7 1 34156 10280 45 42894 1.7 1 32683 10211 46 41499 1.7 1 32211 9288 47 42396 1.7 1 32437 9959 48 43395 1.7 1 33286 10109 49 36923 1.7 1 28731 8192 50 36536 1.7 1 28082 8454 51 38230 1.7 1 29452 8778 52 33179 1.7 1 25915 7264 53 33306 1.7 1 25812 7494 54 32187 1.7 1 24799 7388 55 29207 1.7 1 23044 6163 56 31667 1.7 1 24949 6718 57 25996 1.7 1 20354 5642 58 27404 1.7 1 21671 5733 59 34324 1.7 1 27509 6815 60 19125 1.7 1 14779 4346 61 22521 1.7 1 17937 4584 62 25232 1.7 1 20134 5098 63 20101 1.7 1 15868 4233 64 18714 1.7 1 14913 3801 65 34630 1.7 1 28305 6325 66 12912 1.7 1 10213 2699 67 11958 1.7 1 9525 2433 68 12691 1.7 1 10187 2504 69 16478 1.7 1 13263 3215 70 15519 1.7 1 12430 3089 71 12120 1.7 1 9778 2342 72 13222 1.7 1 10836 2386 73 11959 1.7 1 9659 2300 74 11006 1.7 1 8865 2141 75 15601 1.7 1 12549 3052 76 8723 1.7 1 7048 1675 77 6069 1.7 1 4823 1246 78 2758 1.7 1 2250 508 79 4275 1.7 1 3545 730 80 5051 1.7 1 4155 896 81 4830 1.7 1 4014 816 82 4581 1.7 1 3732 849 83 4157 1.7 1 3389 768 84 3605 1.7 1 2888 717 85 3326 1.7 1 2672 654 86 2942 1.7 1 2374 568 87 2671 1.7 1 2144 527 88 2380 1.7 1 1822 558 89 2105 1.7 1 1618 487 90 1779 1.7 1 1369 410 91 1662 1.7 1 1265 397 92 1502 1.7 1 1112 390 93 1271 1.7 1 932 339 94 1111 1.7 1 819 292 95 1033 1.7 1 751 282 96 866 1.7 1 592 274 97 774 1.7 1 545 229 98 728 1.7 1 485 243 99 630 1.7 1 418 212 100 571 1.7 1 376 195 101 532 1.7 1 327 205 102 541 1.7 1 317 224 103 422 1.7 1 246 176 104 407 1.7 1 235 172 105 367 1.7 1 210 157 106 318 1.7 1 181 137 107 312 1.7 1 171 141 108 301 1.7 1 148 153 109 309 1.7 1 166 143 110 276 1.7 1 156 120 111 264 1.7 1 138 126 112 262 1.7 1 130 132 113 240 1.7 1 129 111 114 238 1.7 1 131 107 115 221 1.7 1 125 96 116 216 1.7 1 109 107 117 204 1.7 1 115 89 118 209 1.7 1 110 99 119 184 1.7 1 106 78 120 180 1.7 1 99 81 121 165 1.7 1 89 76 122 175 1.7 1 104 71 123 144 1.7 1 86 58 124 145 1.7 1 83 62 125 153 1.7 1 90 63 126 142 1.7 1 78 64 127 131 1.7 1 84 47 128 138 1.7 1 92 46 129 92 1.7 1 58 34 130 78 1.7 1 52 26 131 66 1.7 1 41 25 132 72 1.7 1 49 23 133 51 1.7 1 35 16 134 44 1.7 1 23 21 135 39 1.7 1 23 16 136 28 1.7 1 21 7 137 21 1.7 1 15 6 138 18 1.7 1 12 6 139 17 1.7 1 11 6 140 28 1.7 1 23 5 141 15 1.7 1 10 5 142 21 1.7 1 14 7 143 10 1.7 1 8 2 144 18 1.7 1 9 9 145 9 1.7 1 3 6 146 10 1.7 1 5 5 147 5 1.7 1 3 2 148 17 1.7 1 9 8 149 8 1.7 1 3 5 150 14 1.7 1 3 11 RUN STATISTICS FOR INPUT FILE: ERR13913486_2.fastq.gz ============================================= 113478377 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 113478377 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 20190 (0.02%)