SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308519_1.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: 99083). 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 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR12308519_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1403.004 s (17.634 µs/read; 3.40 M reads/minute). === Summary === Total reads processed: 79,561,917 Reads with adapters: 37,403,022 (47.0%) Reads written (passing filters): 79,561,917 (100.0%) Total basepairs processed: 12,013,849,467 bp Quality-trimmed: 31,202,268 bp (0.3%) Total written (filtered): 11,611,518,961 bp (96.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 37403022 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 35.3% C: 0.8% G: 16.4% T: 47.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 21244772 19890479.2 0 21244772 2 3615461 4972619.8 0 3615461 3 1582853 1243155.0 0 1582853 4 758649 310788.7 0 758649 5 271835 77697.2 0 271835 6 229839 19424.3 0 229839 7 225113 4856.1 0 225113 8 245436 1214.0 0 245436 9 221160 303.5 0 219748 1412 10 226773 75.9 1 209036 17737 11 245037 19.0 1 218424 26613 12 252307 4.7 1 228932 23375 13 211022 1.2 1 194212 16810 14 232703 1.2 1 207332 25371 15 227379 1.2 1 208922 18457 16 220373 1.2 1 196334 24039 17 243366 1.2 1 215672 27694 18 267683 1.2 1 248335 19348 19 131550 1.2 1 121706 9844 20 198040 1.2 1 182871 15169 21 207097 1.2 1 190386 16711 22 175871 1.2 1 162560 13311 23 208327 1.2 1 191702 16625 24 184647 1.2 1 164545 20102 25 194881 1.2 1 181334 13547 26 156929 1.2 1 147126 9803 27 188755 1.2 1 174656 14099 28 173529 1.2 1 162077 11452 29 180748 1.2 1 164675 16073 30 202836 1.2 1 190818 12018 31 107405 1.2 1 100780 6625 32 155331 1.2 1 146068 9263 33 152139 1.2 1 140633 11506 34 166721 1.2 1 153646 13075 35 130904 1.2 1 123838 7066 36 155390 1.2 1 145292 10098 37 174459 1.2 1 163115 11344 38 130411 1.2 1 116784 13627 39 162472 1.2 1 153988 8484 40 81361 1.2 1 75667 5694 41 133377 1.2 1 125379 7998 42 124702 1.2 1 117698 7004 43 162294 1.2 1 150048 12246 44 78257 1.2 1 72864 5393 45 186187 1.2 1 178221 7966 46 35252 1.2 1 32267 2985 47 107370 1.2 1 101427 5943 48 136077 1.2 1 128943 7134 49 78554 1.2 1 74675 3879 50 104474 1.2 1 97809 6665 51 100991 1.2 1 94454 6537 52 91966 1.2 1 87298 4668 53 88710 1.2 1 84275 4435 54 102477 1.2 1 95668 6809 55 121664 1.2 1 116410 5254 56 45963 1.2 1 43154 2809 57 106445 1.2 1 101662 4783 58 97397 1.2 1 93821 3576 59 42442 1.2 1 39809 2633 60 82545 1.2 1 80213 2332 61 41317 1.2 1 39284 2033 62 72233 1.2 1 68704 3529 63 88705 1.2 1 85683 3022 64 54297 1.2 1 52477 1820 65 33931 1.2 1 32036 1895 66 61935 1.2 1 59391 2544 67 64452 1.2 1 61809 2643 68 69485 1.2 1 66505 2980 69 60998 1.2 1 57941 3057 70 99761 1.2 1 95965 3796 71 6975 1.2 1 6298 677 72 8408 1.2 1 7897 511 73 24028 1.2 1 23065 963 74 32554 1.2 1 31289 1265 75 34625 1.2 1 33264 1361 76 34361 1.2 1 32948 1413 77 32454 1.2 1 31172 1282 78 30811 1.2 1 29521 1290 79 29557 1.2 1 28407 1150 80 27948 1.2 1 26793 1155 81 26236 1.2 1 25160 1076 82 24649 1.2 1 23718 931 83 22921 1.2 1 21979 942 84 21191 1.2 1 20342 849 85 19987 1.2 1 19180 807 86 18439 1.2 1 17720 719 87 17373 1.2 1 16638 735 88 16128 1.2 1 15494 634 89 15120 1.2 1 14544 576 90 13746 1.2 1 13224 522 91 12680 1.2 1 12213 467 92 11697 1.2 1 11264 433 93 10712 1.2 1 10247 465 94 9967 1.2 1 9569 398 95 8985 1.2 1 8636 349 96 8236 1.2 1 7965 271 97 7645 1.2 1 7361 284 98 6690 1.2 1 6445 245 99 6215 1.2 1 5973 242 100 5809 1.2 1 5631 178 101 5038 1.2 1 4845 193 102 4501 1.2 1 4356 145 103 4080 1.2 1 3923 157 104 3475 1.2 1 3327 148 105 3155 1.2 1 3030 125 106 2843 1.2 1 2730 113 107 2406 1.2 1 2318 88 108 2027 1.2 1 1941 86 109 1823 1.2 1 1724 99 110 1516 1.2 1 1450 66 111 1346 1.2 1 1293 53 112 1152 1.2 1 1107 45 113 919 1.2 1 873 46 114 763 1.2 1 727 36 115 607 1.2 1 571 36 116 514 1.2 1 482 32 117 428 1.2 1 414 14 118 366 1.2 1 344 22 119 332 1.2 1 303 29 120 286 1.2 1 273 13 121 256 1.2 1 224 32 122 201 1.2 1 191 10 123 177 1.2 1 142 35 124 146 1.2 1 126 20 125 109 1.2 1 95 14 126 123 1.2 1 102 21 127 95 1.2 1 77 18 128 110 1.2 1 90 20 129 99 1.2 1 84 15 130 86 1.2 1 79 7 131 74 1.2 1 62 12 132 74 1.2 1 62 12 133 72 1.2 1 61 11 134 68 1.2 1 61 7 135 64 1.2 1 58 6 136 42 1.2 1 34 8 137 54 1.2 1 46 8 138 39 1.2 1 28 11 139 35 1.2 1 27 8 140 41 1.2 1 31 10 141 61 1.2 1 45 16 142 40 1.2 1 27 13 143 19 1.2 1 12 7 144 48 1.2 1 29 19 145 36 1.2 1 25 11 146 48 1.2 1 19 29 147 43 1.2 1 24 19 148 37 1.2 1 17 20 149 40 1.2 1 24 16 150 31 1.2 1 11 20 151 1108 1.2 1 18 1090 RUN STATISTICS FOR INPUT FILE: ERR12308519_1.fastq.gz ============================================= 79561917 sequences processed in total