SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245585_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: 101592). 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 SRR18245585_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4520.742 s (55.094 µs/read; 1.09 M reads/minute). === Summary === Total reads processed: 82,055,348 Reads with adapters: 37,376,563 (45.6%) Reads written (passing filters): 82,055,348 (100.0%) Total basepairs processed: 12,308,302,200 bp Quality-trimmed: 19,827,938 bp (0.2%) Total written (filtered): 11,825,073,797 bp (96.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 37376563 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 25.8% C: 26.7% G: 9.7% T: 37.7% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 21352426 20513837.0 0 21352426 2 3417770 5128459.2 0 3417770 3 1426204 1282114.8 0 1426204 4 761633 320528.7 0 761633 5 267190 80132.2 0 267190 6 233172 20033.0 0 233172 7 226322 5008.3 0 226322 8 245148 1252.1 0 245148 9 226498 313.0 0 225684 814 10 217771 78.3 1 210120 7651 11 237636 19.6 1 222421 15215 12 219142 4.9 1 210100 9042 13 205711 1.2 1 197983 7728 14 212738 1.2 1 200612 12126 15 203465 1.2 1 194507 8958 16 206083 1.2 1 193561 12522 17 206637 1.2 1 194625 12012 18 194524 1.2 1 187207 7317 19 166011 1.2 1 159120 6891 20 182755 1.2 1 174710 8045 21 173927 1.2 1 166128 7799 22 164586 1.2 1 158793 5793 23 168487 1.2 1 160653 7834 24 170470 1.2 1 160344 10126 25 160143 1.2 1 153379 6764 26 151399 1.2 1 144683 6716 27 152431 1.2 1 145813 6618 28 142418 1.2 1 137277 5141 29 149997 1.2 1 141364 8633 30 139455 1.2 1 134569 4886 31 126520 1.2 1 121554 4966 32 130060 1.2 1 125210 4850 33 131706 1.2 1 124793 6913 34 129880 1.2 1 123270 6610 35 125262 1.2 1 119245 6017 36 115774 1.2 1 111616 4158 37 109971 1.2 1 106233 3738 38 122543 1.2 1 117221 5322 39 130860 1.2 1 126835 4025 40 84019 1.2 1 78818 5201 41 100474 1.2 1 96423 4051 42 98522 1.2 1 95466 3056 43 112843 1.2 1 106875 5968 44 99169 1.2 1 93801 5368 45 140127 1.2 1 135815 4312 46 51287 1.2 1 48209 3078 47 80993 1.2 1 78654 2339 48 105436 1.2 1 101806 3630 49 72222 1.2 1 69579 2643 50 93562 1.2 1 89364 4198 51 97795 1.2 1 92838 4957 52 75714 1.2 1 73290 2424 53 69348 1.2 1 67559 1789 54 90107 1.2 1 87019 3088 55 89104 1.2 1 86689 2415 56 65213 1.2 1 62648 2565 57 99203 1.2 1 97060 2143 58 56714 1.2 1 54759 1955 59 73280 1.2 1 70527 2753 60 68091 1.2 1 66768 1323 61 36803 1.2 1 35275 1528 62 69560 1.2 1 67669 1891 63 88300 1.2 1 86896 1404 64 37362 1.2 1 36115 1247 65 46819 1.2 1 45120 1699 66 63880 1.2 1 62447 1433 67 58857 1.2 1 57108 1749 68 78120 1.2 1 75789 2331 69 76823 1.2 1 73949 2874 70 150757 1.2 1 146203 4554 71 10374 1.2 1 9413 961 72 4298 1.2 1 3876 422 73 18518 1.2 1 17991 527 74 36037 1.2 1 35161 876 75 44070 1.2 1 43024 1046 76 46552 1.2 1 45275 1277 77 46271 1.2 1 44894 1377 78 46495 1.2 1 45198 1297 79 45518 1.2 1 44217 1301 80 45241 1.2 1 43919 1322 81 44319 1.2 1 43018 1301 82 44023 1.2 1 42699 1324 83 42676 1.2 1 41368 1308 84 41849 1.2 1 40590 1259 85 41637 1.2 1 40427 1210 86 40279 1.2 1 39008 1271 87 39534 1.2 1 38311 1223 88 38770 1.2 1 37597 1173 89 37572 1.2 1 36309 1263 90 37141 1.2 1 35965 1176 91 36233 1.2 1 35024 1209 92 35061 1.2 1 33956 1105 93 34732 1.2 1 33667 1065 94 33948 1.2 1 32858 1090 95 33302 1.2 1 32192 1110 96 32032 1.2 1 30960 1072 97 31315 1.2 1 30289 1026 98 30495 1.2 1 29493 1002 99 29491 1.2 1 28544 947 100 29482 1.2 1 28498 984 101 28256 1.2 1 27415 841 102 27346 1.2 1 26493 853 103 26637 1.2 1 25729 908 104 25785 1.2 1 24925 860 105 25210 1.2 1 24343 867 106 24360 1.2 1 23530 830 107 23285 1.2 1 22487 798 108 22899 1.2 1 22122 777 109 22061 1.2 1 21336 725 110 21760 1.2 1 21029 731 111 20797 1.2 1 20111 686 112 20206 1.2 1 19534 672 113 19747 1.2 1 19119 628 114 18869 1.2 1 18246 623 115 18381 1.2 1 17840 541 116 17938 1.2 1 17376 562 117 17658 1.2 1 17156 502 118 17003 1.2 1 16500 503 119 16893 1.2 1 16428 465 120 16590 1.2 1 16150 440 121 16126 1.2 1 15742 384 122 15430 1.2 1 15000 430 123 14739 1.2 1 14384 355 124 13683 1.2 1 13340 343 125 12578 1.2 1 12272 306 126 11471 1.2 1 11222 249 127 10198 1.2 1 9962 236 128 9468 1.2 1 9273 195 129 8574 1.2 1 8413 161 130 7716 1.2 1 7565 151 131 7124 1.2 1 6980 144 132 6273 1.2 1 6163 110 133 5802 1.2 1 5716 86 134 4851 1.2 1 4758 93 135 4306 1.2 1 4208 98 136 3521 1.2 1 3428 93 137 3331 1.2 1 3264 67 138 3577 1.2 1 3478 99 139 3297 1.2 1 3204 93 140 3406 1.2 1 3268 138 141 4204 1.2 1 4033 171 142 3519 1.2 1 3367 152 143 3346 1.2 1 3193 153 144 5001 1.2 1 4604 397 145 6182 1.2 1 5628 554 146 2893 1.2 1 2641 252 147 232 1.2 1 201 31 148 3153 1.2 1 2134 1019 149 1372 1.2 1 1092 280 150 37015 1.2 1 30952 6063 RUN STATISTICS FOR INPUT FILE: SRR18245585_1.fastq.gz ============================================= 82055348 sequences processed in total