SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245590_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: 268362). 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 SRR18245590_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4274.915 s (45.337 µs/read; 1.32 M reads/minute). === Summary === Total reads processed: 94,292,827 Reads with adapters: 53,311,479 (56.5%) Reads written (passing filters): 94,292,827 (100.0%) Total basepairs processed: 14,143,924,050 bp Quality-trimmed: 18,914,477 bp (0.1%) Total written (filtered): 11,940,123,920 bp (84.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 53311479 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 15.9% C: 45.0% G: 6.1% T: 27.9% none/other: 5.1% Overview of removed sequences length count expect max.err error counts 1 18829713 23573206.8 0 18829713 2 3158295 5893301.7 0 3158295 3 1419523 1473325.4 0 1419523 4 837009 368331.4 0 837009 5 392830 92082.8 0 392830 6 346615 23020.7 0 346615 7 339532 5755.2 0 339532 8 363825 1438.8 0 363825 9 346970 359.7 0 346213 757 10 331749 89.9 1 319311 12438 11 367152 22.5 1 341902 25250 12 340595 5.6 1 325242 15353 13 318551 1.4 1 305680 12871 14 336078 1.4 1 315137 20941 15 316330 1.4 1 301420 14910 16 328152 1.4 1 306267 21885 17 333745 1.4 1 312524 21221 18 307803 1.4 1 294993 12810 19 274469 1.4 1 261872 12597 20 296721 1.4 1 282755 13966 21 285273 1.4 1 271502 13771 22 271208 1.4 1 260805 10403 23 287462 1.4 1 272653 14809 24 280881 1.4 1 262004 18877 25 268289 1.4 1 256388 11901 26 253765 1.4 1 241875 11890 27 258548 1.4 1 246306 12242 28 248468 1.4 1 238192 10276 29 249541 1.4 1 234560 14981 30 240624 1.4 1 231213 9411 31 218183 1.4 1 209358 8825 32 228210 1.4 1 218977 9233 33 224346 1.4 1 213273 11073 34 225462 1.4 1 216247 9215 35 243507 1.4 1 229837 13670 36 192821 1.4 1 185026 7795 37 202083 1.4 1 194803 7280 38 200142 1.4 1 187234 12908 39 199756 1.4 1 191106 8650 40 187614 1.4 1 179381 8233 41 194966 1.4 1 186253 8713 42 179430 1.4 1 173971 5459 43 214715 1.4 1 202372 12343 44 182431 1.4 1 171675 10756 45 266284 1.4 1 257013 9271 46 97260 1.4 1 90816 6444 47 153495 1.4 1 148336 5159 48 231757 1.4 1 223510 8247 49 131270 1.4 1 125724 5546 50 196632 1.4 1 186742 9890 51 208842 1.4 1 197393 11449 52 140310 1.4 1 135303 5007 53 122190 1.4 1 118771 3419 54 224422 1.4 1 217509 6913 55 197907 1.4 1 193325 4582 56 128084 1.4 1 122706 5378 57 212079 1.4 1 208103 3976 58 81004 1.4 1 77793 3211 59 163593 1.4 1 157728 5865 60 116868 1.4 1 114547 2321 61 51891 1.4 1 49191 2700 62 149775 1.4 1 145909 3866 63 196219 1.4 1 193538 2681 64 49708 1.4 1 47618 2090 65 96876 1.4 1 93214 3662 66 150403 1.4 1 147291 3112 67 113675 1.4 1 110327 3348 68 173498 1.4 1 168309 5189 69 179652 1.4 1 173232 6420 70 343088 1.4 1 332532 10556 71 31312 1.4 1 28463 2849 72 10915 1.4 1 9803 1112 73 41115 1.4 1 39953 1162 74 87089 1.4 1 85252 1837 75 110261 1.4 1 107710 2551 76 119867 1.4 1 116889 2978 77 122738 1.4 1 119555 3183 78 125461 1.4 1 122081 3380 79 126138 1.4 1 122656 3482 80 127147 1.4 1 123630 3517 81 127963 1.4 1 124360 3603 82 128137 1.4 1 124572 3565 83 128348 1.4 1 124695 3653 84 128972 1.4 1 125395 3577 85 128521 1.4 1 124893 3628 86 129461 1.4 1 125912 3549 87 129893 1.4 1 126378 3515 88 130163 1.4 1 126592 3571 89 130656 1.4 1 127159 3497 90 131534 1.4 1 128044 3490 91 131387 1.4 1 127813 3574 92 133289 1.4 1 129673 3616 93 133011 1.4 1 129584 3427 94 135358 1.4 1 131863 3495 95 135751 1.4 1 132181 3570 96 136784 1.4 1 133331 3453 97 137790 1.4 1 134279 3511 98 138324 1.4 1 134894 3430 99 139502 1.4 1 136021 3481 100 141098 1.4 1 137700 3398 101 142018 1.4 1 138562 3456 102 143017 1.4 1 139549 3468 103 144689 1.4 1 141139 3550 104 146109 1.4 1 142694 3415 105 146614 1.4 1 143151 3463 106 147726 1.4 1 144235 3491 107 148254 1.4 1 144921 3333 108 149589 1.4 1 146186 3403 109 149666 1.4 1 146215 3451 110 152069 1.4 1 148680 3389 111 153729 1.4 1 150335 3394 112 155326 1.4 1 151892 3434 113 157436 1.4 1 154029 3407 114 160200 1.4 1 156807 3393 115 164909 1.4 1 161366 3543 116 171105 1.4 1 167702 3403 117 180818 1.4 1 177200 3618 118 195603 1.4 1 191913 3690 119 219900 1.4 1 215848 4052 120 246979 1.4 1 242657 4322 121 267837 1.4 1 263335 4502 122 272236 1.4 1 267724 4512 123 273682 1.4 1 269378 4304 124 265547 1.4 1 261367 4180 125 240247 1.4 1 233630 6617 126 210340 1.4 1 206997 3343 127 189414 1.4 1 186650 2764 128 176543 1.4 1 173970 2573 129 159699 1.4 1 157313 2386 130 145525 1.4 1 143248 2277 131 145287 1.4 1 143096 2191 132 137657 1.4 1 135534 2123 133 138197 1.4 1 135681 2516 134 124561 1.4 1 122046 2515 135 112203 1.4 1 109508 2695 136 98877 1.4 1 96847 2030 137 96899 1.4 1 95220 1679 138 108079 1.4 1 106090 1989 139 96702 1.4 1 94675 2027 140 98381 1.4 1 96183 2198 141 125706 1.4 1 122560 3146 142 104105 1.4 1 101267 2838 143 114549 1.4 1 110554 3995 144 147173 1.4 1 139455 7718 145 182710 1.4 1 169405 13305 146 98305 1.4 1 89592 8713 147 11952 1.4 1 9092 2860 148 256025 1.4 1 161814 94211 149 76253 1.4 1 61664 14589 150 2702883 1.4 1 2300562 402321 RUN STATISTICS FOR INPUT FILE: SRR18245590_1.fastq.gz ============================================= 94292827 sequences processed in total