SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245603_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: 91211). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245603_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4404.965 s (51.143 µs/read; 1.17 M reads/minute). === Summary === Total reads processed: 86,130,397 Reads with adapters: 38,244,192 (44.4%) Reads written (passing filters): 86,130,397 (100.0%) Total basepairs processed: 12,919,559,550 bp Quality-trimmed: 20,361,525 bp (0.2%) Total written (filtered): 12,466,484,018 bp (96.5%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 38244192 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 26.5% C: 24.8% G: 9.8% T: 38.8% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 22517975 21532599.2 0 22517975 2 3579386 5383149.8 0 3579386 3 1464841 1345787.5 0 1464841 4 804456 336446.9 0 804456 5 244807 84111.7 0 244807 6 225048 21027.9 0 225048 7 222164 5257.0 0 222164 8 231415 1314.2 0 231415 9 228172 328.6 0 227355 817 10 213006 82.1 1 204877 8129 11 229378 20.5 1 216445 12933 12 223905 5.1 1 214274 9631 13 190533 1.3 1 182919 7614 14 212251 1.3 1 199786 12465 15 195181 1.3 1 186492 8689 16 205400 1.3 1 192478 12922 17 199846 1.3 1 188274 11572 18 184705 1.3 1 176762 7943 19 175316 1.3 1 166983 8333 20 176184 1.3 1 168173 8011 21 174259 1.3 1 165574 8685 22 163945 1.3 1 157266 6679 23 168968 1.3 1 160575 8393 24 166801 1.3 1 156562 10239 25 153895 1.3 1 146911 6984 26 151181 1.3 1 144063 7118 27 150070 1.3 1 143106 6964 28 138996 1.3 1 133312 5684 29 142982 1.3 1 135252 7730 30 136250 1.3 1 130947 5303 31 128751 1.3 1 123396 5355 32 126572 1.3 1 121579 4993 33 126843 1.3 1 120509 6334 34 122499 1.3 1 117520 4979 35 126261 1.3 1 119391 6870 36 111631 1.3 1 107224 4407 37 111478 1.3 1 107297 4181 38 110304 1.3 1 103881 6423 39 104496 1.3 1 100073 4423 40 102146 1.3 1 97827 4319 41 102250 1.3 1 97898 4352 42 93723 1.3 1 90544 3179 43 102081 1.3 1 96704 5377 44 97025 1.3 1 91826 5199 45 136953 1.3 1 131882 5071 46 44542 1.3 1 42066 2476 47 77546 1.3 1 74642 2904 48 106904 1.3 1 102766 4138 49 79660 1.3 1 76410 3250 50 77254 1.3 1 73470 3784 51 108513 1.3 1 103638 4875 52 56812 1.3 1 54807 2005 53 54982 1.3 1 53254 1728 54 87894 1.3 1 84436 3458 55 83451 1.3 1 81033 2418 56 70256 1.3 1 67776 2480 57 76046 1.3 1 74114 1932 58 49587 1.3 1 47805 1782 59 91391 1.3 1 88494 2897 60 43760 1.3 1 42557 1203 61 36375 1.3 1 34943 1432 62 69045 1.3 1 67261 1784 63 65448 1.3 1 64005 1443 64 30828 1.3 1 29823 1005 65 52490 1.3 1 50695 1795 66 76523 1.3 1 74993 1530 67 35771 1.3 1 34579 1192 68 65311 1.3 1 63334 1977 69 63820 1.3 1 61613 2207 70 99267 1.3 1 96115 3152 71 7023 1.3 1 6414 609 72 4499 1.3 1 4209 290 73 16804 1.3 1 16349 455 74 30887 1.3 1 30126 761 75 37878 1.3 1 36923 955 76 40410 1.3 1 39268 1142 77 40138 1.3 1 39061 1077 78 40489 1.3 1 39285 1204 79 39986 1.3 1 38809 1177 80 39563 1.3 1 38387 1176 81 38826 1.3 1 37663 1163 82 38536 1.3 1 37320 1216 83 37856 1.3 1 36703 1153 84 37160 1.3 1 35972 1188 85 36220 1.3 1 35064 1156 86 35413 1.3 1 34294 1119 87 34541 1.3 1 33455 1086 88 33961 1.3 1 32860 1101 89 32959 1.3 1 31893 1066 90 32953 1.3 1 31926 1027 91 32426 1.3 1 31449 977 92 31451 1.3 1 30488 963 93 31197 1.3 1 30212 985 94 30031 1.3 1 29007 1024 95 29307 1.3 1 28255 1052 96 29150 1.3 1 28082 1068 97 28821 1.3 1 27790 1031 98 28143 1.3 1 27106 1037 99 27509 1.3 1 26522 987 100 26895 1.3 1 25881 1014 101 26200 1.3 1 25279 921 102 25426 1.3 1 24437 989 103 24878 1.3 1 23925 953 104 24250 1.3 1 23296 954 105 23915 1.3 1 23022 893 106 23260 1.3 1 22384 876 107 22571 1.3 1 21742 829 108 21977 1.3 1 21232 745 109 21098 1.3 1 20408 690 110 20660 1.3 1 19953 707 111 20214 1.3 1 19493 721 112 19843 1.3 1 19169 674 113 19141 1.3 1 18444 697 114 18874 1.3 1 18234 640 115 17663 1.3 1 17081 582 116 17284 1.3 1 16716 568 117 17109 1.3 1 16560 549 118 16474 1.3 1 15932 542 119 16208 1.3 1 15679 529 120 15916 1.3 1 15465 451 121 15536 1.3 1 15082 454 122 14259 1.3 1 13864 395 123 13557 1.3 1 13218 339 124 12504 1.3 1 12177 327 125 11325 1.3 1 11013 312 126 10212 1.3 1 9982 230 127 9322 1.3 1 9117 205 128 8283 1.3 1 8117 166 129 7285 1.3 1 7122 163 130 6534 1.3 1 6406 128 131 5911 1.3 1 5802 109 132 5221 1.3 1 5132 89 133 4752 1.3 1 4651 101 134 3982 1.3 1 3879 103 135 3240 1.3 1 3155 85 136 2860 1.3 1 2776 84 137 2600 1.3 1 2544 56 138 2809 1.3 1 2746 63 139 2549 1.3 1 2477 72 140 2663 1.3 1 2598 65 141 3240 1.3 1 3175 65 142 2629 1.3 1 2573 56 143 2414 1.3 1 2335 79 144 3796 1.3 1 3585 211 145 4841 1.3 1 4531 310 146 2324 1.3 1 2173 151 147 233 1.3 1 207 26 148 3279 1.3 1 2267 1012 149 1487 1.3 1 1284 203 150 32747 1.3 1 27699 5048 RUN STATISTICS FOR INPUT FILE: SRR18245603_1.fastq.gz ============================================= 86130397 sequences processed in total