SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10683997_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: 131711). 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 ERR10683997_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1926.383 s (19.101 µs/read; 3.14 M reads/minute). === Summary === Total reads processed: 100,850,601 Reads with adapters: 59,425,456 (58.9%) Reads written (passing filters): 100,850,601 (100.0%) Total basepairs processed: 15,228,440,751 bp Quality-trimmed: 65,935,343 bp (0.4%) Total written (filtered): 14,493,740,105 bp (95.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 59425456 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.1% C: 19.0% G: 0.7% T: 29.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 41413891 25212650.2 0 41413891 2 525662 6303162.6 0 525662 3 458721 1575790.6 0 458721 4 338596 393947.7 0 338596 5 342633 98486.9 0 342633 6 328236 24621.7 0 328236 7 326782 6155.4 0 326782 8 389783 1538.9 0 389783 9 247317 384.7 0 246079 1238 10 335591 96.2 1 306381 29210 11 299572 24.0 1 276704 22868 12 319605 6.0 1 271293 48312 13 308421 1.5 1 259204 49217 14 378081 1.5 1 315207 62874 15 240532 1.5 1 204772 35760 16 301111 1.5 1 256630 44481 17 398951 1.5 1 338910 60041 18 194679 1.5 1 165021 29658 19 376177 1.5 1 318560 57617 20 286261 1.5 1 244142 42119 21 205088 1.5 1 175625 29463 22 278914 1.5 1 238581 40333 23 279901 1.5 1 238284 41617 24 337560 1.5 1 283103 54457 25 318997 1.5 1 272983 46014 26 237694 1.5 1 204099 33595 27 202465 1.5 1 172267 30198 28 291787 1.5 1 250704 41083 29 226171 1.5 1 194737 31434 30 287788 1.5 1 247888 39900 31 221853 1.5 1 191260 30593 32 256990 1.5 1 220162 36828 33 233864 1.5 1 201763 32101 34 249604 1.5 1 214339 35265 35 227867 1.5 1 198198 29669 36 241045 1.5 1 208239 32806 37 218103 1.5 1 188951 29152 38 245116 1.5 1 212987 32129 39 211989 1.5 1 184500 27489 40 206946 1.5 1 181400 25546 41 214229 1.5 1 186969 27260 42 231429 1.5 1 202189 29240 43 190910 1.5 1 167260 23650 44 200535 1.5 1 174864 25671 45 209774 1.5 1 183086 26688 46 204389 1.5 1 179573 24816 47 186938 1.5 1 163663 23275 48 183413 1.5 1 160961 22452 49 190838 1.5 1 168001 22837 50 173322 1.5 1 152850 20472 51 165601 1.5 1 146384 19217 52 170618 1.5 1 150639 19979 53 169095 1.5 1 148790 20305 54 191400 1.5 1 169258 22142 55 132241 1.5 1 117052 15189 56 162260 1.5 1 143248 19012 57 203417 1.5 1 180452 22965 58 108854 1.5 1 95712 13142 59 137823 1.5 1 123257 14566 60 150184 1.5 1 133603 16581 61 143218 1.5 1 127943 15275 62 126126 1.5 1 112473 13653 63 202188 1.5 1 181052 21136 64 106466 1.5 1 94382 12084 65 114215 1.5 1 102640 11575 66 86264 1.5 1 76898 9366 67 121912 1.5 1 109481 12431 68 117396 1.5 1 105570 11826 69 104405 1.5 1 93651 10754 70 105049 1.5 1 94688 10361 71 102912 1.5 1 92704 10208 72 105124 1.5 1 94569 10555 73 134683 1.5 1 121670 13013 74 111537 1.5 1 100928 10609 75 100071 1.5 1 91168 8903 76 64638 1.5 1 58694 5944 77 63818 1.5 1 57690 6128 78 65756 1.5 1 59737 6019 79 64402 1.5 1 58337 6065 80 63291 1.5 1 57426 5865 81 61128 1.5 1 55583 5545 82 58631 1.5 1 53424 5207 83 57403 1.5 1 52261 5142 84 54730 1.5 1 49888 4842 85 53200 1.5 1 48620 4580 86 49695 1.5 1 45505 4190 87 46875 1.5 1 42838 4037 88 45097 1.5 1 41214 3883 89 42693 1.5 1 39184 3509 90 41539 1.5 1 38187 3352 91 37756 1.5 1 34684 3072 92 35995 1.5 1 33037 2958 93 34151 1.5 1 31509 2642 94 30945 1.5 1 28561 2384 95 29404 1.5 1 27150 2254 96 27392 1.5 1 25293 2099 97 25366 1.5 1 23511 1855 98 24048 1.5 1 22298 1750 99 22814 1.5 1 21110 1704 100 21672 1.5 1 20110 1562 101 18365 1.5 1 17097 1268 102 16144 1.5 1 15006 1138 103 14591 1.5 1 13532 1059 104 13271 1.5 1 12366 905 105 12079 1.5 1 11254 825 106 10952 1.5 1 10235 717 107 9601 1.5 1 8974 627 108 8561 1.5 1 8024 537 109 7752 1.5 1 7281 471 110 6556 1.5 1 6160 396 111 5787 1.5 1 5426 361 112 5034 1.5 1 4725 309 113 4050 1.5 1 3795 255 114 3363 1.5 1 3151 212 115 2903 1.5 1 2731 172 116 2477 1.5 1 2335 142 117 1937 1.5 1 1828 109 118 1597 1.5 1 1501 96 119 1275 1.5 1 1176 99 120 2578 1.5 1 2425 153 121 882 1.5 1 820 62 122 610 1.5 1 563 47 123 463 1.5 1 416 47 124 454 1.5 1 405 49 125 296 1.5 1 256 40 126 294 1.5 1 262 32 127 200 1.5 1 181 19 128 164 1.5 1 142 22 129 201 1.5 1 177 24 130 128 1.5 1 113 15 131 142 1.5 1 122 20 132 98 1.5 1 88 10 133 118 1.5 1 104 14 134 76 1.5 1 66 10 135 93 1.5 1 86 7 136 71 1.5 1 62 9 137 78 1.5 1 64 14 138 46 1.5 1 40 6 139 60 1.5 1 50 10 140 46 1.5 1 35 11 141 49 1.5 1 35 14 142 35 1.5 1 26 9 143 43 1.5 1 33 10 144 35 1.5 1 20 15 145 30 1.5 1 23 7 146 29 1.5 1 17 12 147 43 1.5 1 31 12 148 31 1.5 1 14 17 149 49 1.5 1 34 15 150 25 1.5 1 15 10 151 75 1.5 1 47 28 RUN STATISTICS FOR INPUT FILE: ERR10683997_1.fastq.gz ============================================= 100850601 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 100850601 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 32657 (0.03%)