SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245584_1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 339695). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245584_1.fastq.gz Processing single-end reads on 1 core ... Finished in 3713.907 s (35.399 µs/read; 1.69 M reads/minute). === Summary === Total reads processed: 104,914,304 Reads with adapters: 64,287,310 (61.3%) Reads written (passing filters): 104,914,304 (100.0%) Total basepairs processed: 15,737,145,600 bp Quality-trimmed: 20,709,119 bp (0.1%) Total written (filtered): 12,705,158,294 bp (80.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 64287310 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 12.9% C: 53.4% G: 5.1% T: 25.0% none/other: 3.6% Overview of removed sequences length count expect max.err error counts 1 18386838 26228576.0 0 18386838 2 3170184 6557144.0 0 3170184 3 1461004 1639286.0 0 1461004 4 885194 409821.5 0 885194 5 459698 102455.4 0 459698 6 405506 25613.8 0 405506 7 398147 6403.5 0 398147 8 430295 1600.9 0 430295 9 409643 400.2 0 408800 843 10 395990 100.1 1 380272 15718 11 440748 25.0 1 409669 31079 12 408499 6.3 1 388866 19633 13 383137 1.6 1 367109 16028 14 408730 1.6 1 382458 26272 15 386560 1.6 1 367628 18932 16 403093 1.6 1 374710 28383 17 410279 1.6 1 383477 26802 18 380044 1.6 1 363956 16088 19 338173 1.6 1 322286 15887 20 372413 1.6 1 353342 19071 21 361581 1.6 1 342779 18802 22 341138 1.6 1 327237 13901 23 362388 1.6 1 343297 19091 24 359111 1.6 1 334211 24900 25 341647 1.6 1 325653 15994 26 330386 1.6 1 314053 16333 27 335725 1.6 1 318936 16789 28 318112 1.6 1 304864 13248 29 338490 1.6 1 316676 21814 30 315633 1.6 1 302877 12756 31 289095 1.6 1 276808 12287 32 307656 1.6 1 294845 12811 33 301936 1.6 1 285479 16457 34 309141 1.6 1 293757 15384 35 282399 1.6 1 268989 13410 36 298508 1.6 1 283233 15275 37 283241 1.6 1 270209 13032 38 267197 1.6 1 257490 9707 39 277261 1.6 1 264411 12850 40 269154 1.6 1 259215 9939 41 294732 1.6 1 281606 13126 42 271734 1.6 1 258451 13283 43 282663 1.6 1 260527 22136 44 255220 1.6 1 240178 15042 45 380910 1.6 1 366165 14745 46 135082 1.6 1 125978 9104 47 228502 1.6 1 220404 8098 48 297324 1.6 1 285941 11383 49 199434 1.6 1 191371 8063 50 270021 1.6 1 255314 14707 51 272364 1.6 1 256013 16351 52 227928 1.6 1 219220 8708 53 211050 1.6 1 204146 6904 54 268815 1.6 1 257634 11181 55 275287 1.6 1 266412 8875 56 199418 1.6 1 190569 8849 57 306025 1.6 1 297566 8459 58 198769 1.6 1 191171 7598 59 223302 1.6 1 213476 9826 60 228337 1.6 1 223196 5141 61 133886 1.6 1 127662 6224 62 238735 1.6 1 230947 7788 63 301370 1.6 1 294784 6586 64 147879 1.6 1 142472 5407 65 162119 1.6 1 155338 6781 66 237880 1.6 1 231384 6496 67 231851 1.6 1 224152 7699 68 309248 1.6 1 298651 10597 69 306160 1.6 1 293217 12943 70 568184 1.6 1 547370 20814 71 39192 1.6 1 34708 4484 72 19378 1.6 1 17352 2026 73 83142 1.6 1 80871 2271 74 154131 1.6 1 150349 3782 75 189222 1.6 1 184198 5024 76 203630 1.6 1 198217 5413 77 209528 1.6 1 203734 5794 78 213858 1.6 1 207703 6155 79 215767 1.6 1 209275 6492 80 217017 1.6 1 210441 6576 81 218608 1.6 1 211943 6665 82 219762 1.6 1 213031 6731 83 221320 1.6 1 214498 6822 84 222371 1.6 1 215651 6720 85 222434 1.6 1 215692 6742 86 225492 1.6 1 218608 6884 87 225244 1.6 1 218345 6899 88 227798 1.6 1 220978 6820 89 227886 1.6 1 220923 6963 90 229917 1.6 1 223257 6660 91 230320 1.6 1 223503 6817 92 231249 1.6 1 224294 6955 93 234208 1.6 1 227509 6699 94 235835 1.6 1 229330 6505 95 239946 1.6 1 233279 6667 96 240058 1.6 1 233387 6671 97 243898 1.6 1 237121 6777 98 244378 1.6 1 237901 6477 99 247927 1.6 1 241198 6729 100 248963 1.6 1 242256 6707 101 252616 1.6 1 245956 6660 102 254463 1.6 1 247601 6862 103 255969 1.6 1 249234 6735 104 259650 1.6 1 252937 6713 105 260239 1.6 1 253519 6720 106 262919 1.6 1 256272 6647 107 265234 1.6 1 258651 6583 108 267460 1.6 1 260696 6764 109 267771 1.6 1 261122 6649 110 271775 1.6 1 265185 6590 111 273014 1.6 1 266364 6650 112 276329 1.6 1 269622 6707 113 280729 1.6 1 273936 6793 114 283527 1.6 1 276813 6714 115 287657 1.6 1 280897 6760 116 294359 1.6 1 287664 6695 117 304459 1.6 1 297618 6841 118 319541 1.6 1 312487 7054 119 343556 1.6 1 336442 7114 120 367756 1.6 1 360245 7511 121 385459 1.6 1 377960 7499 122 387162 1.6 1 379841 7321 123 384376 1.6 1 377424 6952 124 369560 1.6 1 362932 6628 125 337607 1.6 1 328245 9362 126 301724 1.6 1 296286 5438 127 277259 1.6 1 272663 4596 128 258759 1.6 1 254424 4335 129 235416 1.6 1 231433 3983 130 215028 1.6 1 211422 3606 131 207741 1.6 1 204152 3589 132 191469 1.6 1 188084 3385 133 182169 1.6 1 178643 3526 134 161361 1.6 1 157788 3573 135 142033 1.6 1 138444 3589 136 122009 1.6 1 118969 3040 137 116790 1.6 1 114099 2691 138 128570 1.6 1 125265 3305 139 115299 1.6 1 111730 3569 140 118039 1.6 1 114006 4033 141 146777 1.6 1 141415 5362 142 122535 1.6 1 117433 5102 143 124095 1.6 1 117705 6390 144 176398 1.6 1 163392 13006 145 230877 1.6 1 208968 21909 146 120603 1.6 1 108265 12338 147 12792 1.6 1 10051 2741 148 231820 1.6 1 149403 82417 149 77710 1.6 1 62694 15016 150 2286168 1.6 1 1919826 366342 RUN STATISTICS FOR INPUT FILE: SRR18245584_1.fastq.gz ============================================= 104914304 sequences processed in total