SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10683999_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: 142975). 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 ERR10683999_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1531.224 s (16.258 µs/read; 3.69 M reads/minute). === Summary === Total reads processed: 94,184,185 Reads with adapters: 46,710,740 (49.6%) Reads written (passing filters): 94,184,185 (100.0%) Total basepairs processed: 14,221,811,935 bp Quality-trimmed: 26,346,523 bp (0.2%) Total written (filtered): 13,497,021,893 bp (94.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 46710740 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 34.9% C: 0.9% G: 16.5% T: 47.7% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 23007465 23546046.2 0 23007465 2 4152371 5886511.6 0 4152371 3 1744844 1471627.9 0 1744844 4 875025 367907.0 0 875025 5 344415 91976.7 0 344415 6 295013 22994.2 0 295013 7 307450 5748.5 0 307450 8 331204 1437.1 0 331204 9 287225 359.3 0 284933 2292 10 308779 89.8 1 286810 21969 11 314668 22.5 1 289218 25450 12 327945 5.6 1 303579 24366 13 288133 1.4 1 269032 19101 14 305473 1.4 1 281719 23754 15 303473 1.4 1 282996 20477 16 299126 1.4 1 274764 24362 17 324888 1.4 1 296549 28339 18 332789 1.4 1 311237 21552 19 232082 1.4 1 217125 14957 20 287738 1.4 1 268915 18823 21 279269 1.4 1 259815 19454 22 272663 1.4 1 252272 20391 23 286551 1.4 1 266119 20432 24 276004 1.4 1 250824 25180 25 274571 1.4 1 255830 18741 26 246050 1.4 1 232135 13915 27 274832 1.4 1 255933 18899 28 265974 1.4 1 249025 16949 29 257365 1.4 1 237331 20034 30 289859 1.4 1 273886 15973 31 201375 1.4 1 190755 10620 32 251182 1.4 1 237120 14062 33 233712 1.4 1 220077 13635 34 242857 1.4 1 229514 13343 35 245131 1.4 1 229185 15946 36 221968 1.4 1 211674 10294 37 230270 1.4 1 215172 15098 38 239498 1.4 1 223839 15659 39 243219 1.4 1 226218 17001 40 219467 1.4 1 209384 10083 41 189396 1.4 1 179263 10133 42 212459 1.4 1 200990 11469 43 238072 1.4 1 221846 16226 44 194332 1.4 1 179452 14880 45 323318 1.4 1 310734 12584 46 81108 1.4 1 74692 6416 47 173509 1.4 1 165104 8405 48 236842 1.4 1 224617 12225 49 162827 1.4 1 155333 7494 50 170405 1.4 1 161026 9379 51 199848 1.4 1 187601 12247 52 170613 1.4 1 162740 7873 53 157147 1.4 1 150178 6969 54 191659 1.4 1 180830 10829 55 246399 1.4 1 236432 9967 56 108807 1.4 1 102537 6270 57 204692 1.4 1 197947 6745 58 147028 1.4 1 141400 5628 59 136761 1.4 1 130842 5919 60 126253 1.4 1 122591 3662 61 70338 1.4 1 66376 3962 62 169174 1.4 1 161783 7391 63 178078 1.4 1 173092 4986 64 83791 1.4 1 80669 3122 65 85929 1.4 1 81497 4432 66 154678 1.4 1 149196 5482 67 109893 1.4 1 105476 4417 68 141617 1.4 1 136316 5301 69 124743 1.4 1 118742 6001 70 190984 1.4 1 184346 6638 71 19432 1.4 1 17932 1500 72 34204 1.4 1 32280 1924 73 74811 1.4 1 71795 3016 74 88764 1.4 1 85229 3535 75 90267 1.4 1 86663 3604 76 87985 1.4 1 84350 3635 77 85167 1.4 1 81624 3543 78 82558 1.4 1 79076 3482 79 79987 1.4 1 76704 3283 80 77292 1.4 1 74102 3190 81 74765 1.4 1 71778 2987 82 70703 1.4 1 67893 2810 83 68324 1.4 1 65458 2866 84 65478 1.4 1 62926 2552 85 63215 1.4 1 60725 2490 86 60000 1.4 1 57641 2359 87 57106 1.4 1 55038 2068 88 54776 1.4 1 52742 2034 89 52600 1.4 1 50606 1994 90 50261 1.4 1 48426 1835 91 46756 1.4 1 45014 1742 92 44792 1.4 1 43155 1637 93 42686 1.4 1 41023 1663 94 40536 1.4 1 39033 1503 95 38181 1.4 1 36832 1349 96 36362 1.4 1 35056 1306 97 33893 1.4 1 32665 1228 98 32202 1.4 1 31086 1116 99 30024 1.4 1 28919 1105 100 28209 1.4 1 27292 917 101 26385 1.4 1 25430 955 102 24580 1.4 1 23730 850 103 22636 1.4 1 21792 844 104 20645 1.4 1 19935 710 105 19167 1.4 1 18507 660 106 17507 1.4 1 16871 636 107 15873 1.4 1 15343 530 108 14225 1.4 1 13735 490 109 12650 1.4 1 12236 414 110 11264 1.4 1 10886 378 111 10311 1.4 1 9925 386 112 8959 1.4 1 8677 282 113 7874 1.4 1 7565 309 114 6729 1.4 1 6470 259 115 5765 1.4 1 5559 206 116 4840 1.4 1 4685 155 117 4087 1.4 1 3952 135 118 3426 1.4 1 3272 154 119 2877 1.4 1 2762 115 120 3313 1.4 1 3202 111 121 1903 1.4 1 1833 70 122 1405 1.4 1 1330 75 123 1049 1.4 1 1000 49 124 835 1.4 1 789 46 125 637 1.4 1 589 48 126 509 1.4 1 465 44 127 344 1.4 1 307 37 128 255 1.4 1 219 36 129 268 1.4 1 239 29 130 186 1.4 1 160 26 131 185 1.4 1 159 26 132 117 1.4 1 98 19 133 164 1.4 1 146 18 134 106 1.4 1 78 28 135 105 1.4 1 90 15 136 97 1.4 1 78 19 137 112 1.4 1 83 29 138 65 1.4 1 50 15 139 84 1.4 1 65 19 140 50 1.4 1 35 15 141 81 1.4 1 65 16 142 51 1.4 1 25 26 143 38 1.4 1 27 11 144 60 1.4 1 32 28 145 54 1.4 1 29 25 146 59 1.4 1 20 39 147 63 1.4 1 30 33 148 60 1.4 1 26 34 149 71 1.4 1 48 23 150 103 1.4 1 16 87 151 44552 1.4 1 144 44408 RUN STATISTICS FOR INPUT FILE: ERR10683999_1.fastq.gz ============================================= 94184185 sequences processed in total