SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684007_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: 235230). 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 ERR10684007_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1460.209 s (18.943 µs/read; 3.17 M reads/minute). === Summary === Total reads processed: 77,086,148 Reads with adapters: 45,947,349 (59.6%) Reads written (passing filters): 77,086,148 (100.0%) Total basepairs processed: 11,640,008,348 bp Quality-trimmed: 20,024,478 bp (0.2%) Total written (filtered): 10,757,409,335 bp (92.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 45947349 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.8% C: 1.9% G: 16.8% T: 44.4% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 16298119 19271537.0 0 16298119 2 3021505 4817884.2 0 3021505 3 1568252 1204471.1 0 1568252 4 954287 301117.8 0 954287 5 619272 75279.4 0 619272 6 563518 18819.9 0 563518 7 585650 4705.0 0 585650 8 617010 1176.2 0 617010 9 585750 294.1 0 580620 5130 10 571684 73.5 1 536367 35317 11 564800 18.4 1 521533 43267 12 555944 4.6 1 517779 38165 13 474706 1.1 1 443668 31038 14 493144 1.1 1 454931 38213 15 483497 1.1 1 451390 32107 16 497144 1.1 1 456429 40715 17 552133 1.1 1 506677 45456 18 584742 1.1 1 548581 36161 19 423521 1.1 1 395636 27885 20 477464 1.1 1 446215 31249 21 448090 1.1 1 416290 31800 22 404821 1.1 1 376378 28443 23 411470 1.1 1 382412 29058 24 392463 1.1 1 356795 35668 25 385690 1.1 1 359471 26219 26 359025 1.1 1 337496 21529 27 417109 1.1 1 388833 28276 28 426755 1.1 1 400468 26287 29 448092 1.1 1 413657 34435 30 475819 1.1 1 449614 26205 31 333283 1.1 1 314450 18833 32 360472 1.1 1 339787 20685 33 316131 1.1 1 296566 19565 34 315196 1.1 1 294908 20288 35 310845 1.1 1 290513 20332 36 308533 1.1 1 292527 16006 37 267624 1.1 1 252859 14765 38 319616 1.1 1 298309 21307 39 338643 1.1 1 319210 19433 40 321454 1.1 1 303815 17639 41 300728 1.1 1 281050 19678 42 287120 1.1 1 269918 17202 43 281181 1.1 1 261382 19799 44 200701 1.1 1 187430 13271 45 360619 1.1 1 346811 13808 46 80548 1.1 1 73202 7346 47 221035 1.1 1 209234 11801 48 251677 1.1 1 237616 14061 49 233913 1.1 1 222189 11724 50 242991 1.1 1 229655 13336 51 236897 1.1 1 222637 14260 52 212284 1.1 1 201068 11216 53 193530 1.1 1 183159 10371 54 185728 1.1 1 173993 11735 55 207281 1.1 1 195530 11751 56 144531 1.1 1 136418 8113 57 188223 1.1 1 178089 10134 58 233721 1.1 1 223851 9870 59 140814 1.1 1 132001 8813 60 216332 1.1 1 207983 8349 61 156005 1.1 1 148165 7840 62 175763 1.1 1 166248 9515 63 167058 1.1 1 159886 7172 64 145157 1.1 1 139370 5787 65 96184 1.1 1 90443 5741 66 140104 1.1 1 133053 7051 67 150815 1.1 1 143547 7268 68 185405 1.1 1 177349 8056 69 148435 1.1 1 139479 8956 70 231984 1.1 1 222893 9091 71 34294 1.1 1 32092 2202 72 51249 1.1 1 48080 3169 73 92043 1.1 1 87765 4278 74 96361 1.1 1 91818 4543 75 93798 1.1 1 89384 4414 76 89820 1.1 1 85605 4215 77 86693 1.1 1 82458 4235 78 84310 1.1 1 80229 4081 79 84103 1.1 1 80075 4028 80 86687 1.1 1 82552 4135 81 87602 1.1 1 83547 4055 82 80817 1.1 1 76978 3839 83 72221 1.1 1 68788 3433 84 67248 1.1 1 64147 3101 85 62346 1.1 1 59473 2873 86 57951 1.1 1 55246 2705 87 55011 1.1 1 52503 2508 88 52005 1.1 1 49681 2324 89 50347 1.1 1 48213 2134 90 50577 1.1 1 48315 2262 91 49338 1.1 1 47224 2114 92 46518 1.1 1 44439 2079 93 43482 1.1 1 41582 1900 94 38837 1.1 1 37112 1725 95 35123 1.1 1 33604 1519 96 32338 1.1 1 30971 1367 97 30091 1.1 1 28762 1329 98 28144 1.1 1 26981 1163 99 26745 1.1 1 25707 1038 100 25127 1.1 1 24077 1050 101 24716 1.1 1 23697 1019 102 23004 1.1 1 22066 938 103 20879 1.1 1 19959 920 104 18474 1.1 1 17731 743 105 16557 1.1 1 15810 747 106 14467 1.1 1 13864 603 107 13331 1.1 1 12779 552 108 12024 1.1 1 11477 547 109 10804 1.1 1 10341 463 110 9813 1.1 1 9434 379 111 8954 1.1 1 8587 367 112 7883 1.1 1 7594 289 113 6922 1.1 1 6615 307 114 5914 1.1 1 5665 249 115 4788 1.1 1 4571 217 116 4072 1.1 1 3902 170 117 3397 1.1 1 3251 146 118 2741 1.1 1 2623 118 119 2224 1.1 1 2119 105 120 3325 1.1 1 3212 113 121 1506 1.1 1 1449 57 122 1094 1.1 1 1028 66 123 826 1.1 1 782 44 124 564 1.1 1 528 36 125 332 1.1 1 298 34 126 304 1.1 1 284 20 127 189 1.1 1 164 25 128 143 1.1 1 118 25 129 146 1.1 1 129 17 130 88 1.1 1 79 9 131 80 1.1 1 54 26 132 60 1.1 1 41 19 133 85 1.1 1 59 26 134 70 1.1 1 51 19 135 69 1.1 1 49 20 136 49 1.1 1 31 18 137 60 1.1 1 40 20 138 39 1.1 1 23 16 139 56 1.1 1 39 17 140 56 1.1 1 28 28 141 56 1.1 1 33 23 142 32 1.1 1 11 21 143 39 1.1 1 18 21 144 48 1.1 1 16 32 145 67 1.1 1 37 30 146 56 1.1 1 12 44 147 67 1.1 1 27 40 148 53 1.1 1 20 33 149 72 1.1 1 32 40 150 120 1.1 1 10 110 151 65371 1.1 1 209 65162 RUN STATISTICS FOR INPUT FILE: ERR10684007_2.fastq.gz ============================================= 77086148 sequences processed in total