SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684003_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: 264554). 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 ERR10684003_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1665.165 s (15.288 µs/read; 3.92 M reads/minute). === Summary === Total reads processed: 108,922,671 Reads with adapters: 73,897,493 (67.8%) Reads written (passing filters): 108,922,671 (100.0%) Total basepairs processed: 16,447,323,321 bp Quality-trimmed: 61,091,455 bp (0.4%) Total written (filtered): 14,988,938,144 bp (91.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 73897493 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.1% C: 18.5% G: 0.8% T: 28.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 35101468 27230667.8 0 35101468 2 1169599 6807666.9 0 1169599 3 837189 1701916.7 0 837189 4 710140 425479.2 0 710140 5 734205 106369.8 0 734205 6 711996 26592.4 0 711996 7 717246 6648.1 0 717246 8 858772 1662.0 0 858772 9 554675 415.5 0 551498 3177 10 746530 103.9 1 670255 76275 11 650176 26.0 1 591402 58774 12 709787 6.5 1 616322 93465 13 669675 1.6 1 581857 87818 14 817843 1.6 1 703696 114147 15 517250 1.6 1 453124 64126 16 649626 1.6 1 571892 77734 17 867926 1.6 1 761387 106539 18 431313 1.6 1 377331 53982 19 814441 1.6 1 710932 103509 20 625271 1.6 1 549919 75352 21 463612 1.6 1 411163 52449 22 601306 1.6 1 530547 70759 23 597983 1.6 1 525813 72170 24 643908 1.6 1 557248 86660 25 716873 1.6 1 631783 85090 26 522492 1.6 1 461844 60648 27 450157 1.6 1 394502 55655 28 645124 1.6 1 571394 73730 29 492213 1.6 1 436941 55272 30 713365 1.6 1 634686 78679 31 403573 1.6 1 357092 46481 32 666769 1.6 1 592160 74609 33 364469 1.6 1 323725 40744 34 516048 1.6 1 456628 59420 35 663089 1.6 1 591804 71285 36 316684 1.6 1 280209 36475 37 605561 1.6 1 537806 67755 38 449135 1.6 1 401079 48056 39 453769 1.6 1 409589 44180 40 492594 1.6 1 444906 47688 41 370175 1.6 1 332505 37670 42 457203 1.6 1 411662 45541 43 399055 1.6 1 360262 38793 44 402787 1.6 1 361912 40875 45 431613 1.6 1 386735 44878 46 420331 1.6 1 380279 40052 47 381006 1.6 1 342641 38365 48 364267 1.6 1 329464 34803 49 406362 1.6 1 367444 38918 50 358610 1.6 1 325626 32984 51 354353 1.6 1 321710 32643 52 352047 1.6 1 320583 31464 53 350932 1.6 1 317590 33342 54 392260 1.6 1 355559 36701 55 276942 1.6 1 252235 24707 56 332618 1.6 1 301707 30911 57 412619 1.6 1 374787 37832 58 237835 1.6 1 215250 22585 59 298302 1.6 1 273924 24378 60 334207 1.6 1 304945 29262 61 315330 1.6 1 289182 26148 62 271940 1.6 1 248474 23466 63 437951 1.6 1 402253 35698 64 223919 1.6 1 203773 20146 65 244381 1.6 1 225355 19026 66 186400 1.6 1 170608 15792 67 263059 1.6 1 242144 20915 68 256427 1.6 1 236042 20385 69 231661 1.6 1 213026 18635 70 243213 1.6 1 224028 19185 71 239556 1.6 1 220812 18744 72 243472 1.6 1 224127 19345 73 303583 1.6 1 280605 22978 74 252272 1.6 1 233474 18798 75 230196 1.6 1 214749 15447 76 150128 1.6 1 139547 10581 77 142331 1.6 1 131301 11030 78 147314 1.6 1 136455 10859 79 145973 1.6 1 135007 10966 80 145364 1.6 1 134592 10772 81 144815 1.6 1 134346 10469 82 139027 1.6 1 128922 10105 83 133038 1.6 1 123674 9364 84 126246 1.6 1 117062 9184 85 122386 1.6 1 113944 8442 86 113800 1.6 1 105687 8113 87 106970 1.6 1 99660 7310 88 101393 1.6 1 94466 6927 89 98833 1.6 1 91989 6844 90 96690 1.6 1 90302 6388 91 90142 1.6 1 84215 5927 92 86968 1.6 1 81322 5646 93 81338 1.6 1 76039 5299 94 72848 1.6 1 68207 4641 95 67812 1.6 1 63427 4385 96 62684 1.6 1 58772 3912 97 56911 1.6 1 53284 3627 98 53393 1.6 1 50095 3298 99 51650 1.6 1 48375 3275 100 48676 1.6 1 45844 2832 101 42649 1.6 1 40199 2450 102 39483 1.6 1 37195 2288 103 35264 1.6 1 33193 2071 104 30660 1.6 1 29039 1621 105 27897 1.6 1 26370 1527 106 24601 1.6 1 23241 1360 107 22106 1.6 1 20854 1252 108 20043 1.6 1 18937 1106 109 17373 1.6 1 16456 917 110 14701 1.6 1 13951 750 111 13842 1.6 1 13089 753 112 12330 1.6 1 11660 670 113 10582 1.6 1 10049 533 114 8860 1.6 1 8448 412 115 6997 1.6 1 6691 306 116 5590 1.6 1 5316 274 117 4683 1.6 1 4461 222 118 3892 1.6 1 3702 190 119 3061 1.6 1 2916 145 120 6532 1.6 1 6241 291 121 2332 1.6 1 2225 107 122 1501 1.6 1 1430 71 123 1048 1.6 1 983 65 124 763 1.6 1 731 32 125 542 1.6 1 518 24 126 413 1.6 1 375 38 127 237 1.6 1 219 18 128 221 1.6 1 194 27 129 143 1.6 1 128 15 130 103 1.6 1 95 8 131 101 1.6 1 80 21 132 90 1.6 1 71 19 133 106 1.6 1 94 12 134 50 1.6 1 44 6 135 67 1.6 1 52 15 136 49 1.6 1 40 9 137 59 1.6 1 46 13 138 55 1.6 1 37 18 139 48 1.6 1 40 8 140 41 1.6 1 26 15 141 48 1.6 1 30 18 142 66 1.6 1 36 30 143 34 1.6 1 21 13 144 32 1.6 1 18 14 145 73 1.6 1 52 21 146 36 1.6 1 14 22 147 62 1.6 1 39 23 148 48 1.6 1 24 24 149 60 1.6 1 41 19 150 30 1.6 1 11 19 151 423 1.6 1 286 137 RUN STATISTICS FOR INPUT FILE: ERR10684003_2.fastq.gz ============================================= 108922671 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 108922671 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 101167 (0.09%)