SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308520_2.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: 164007). 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 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR12308520_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1518.247 s (18.344 µs/read; 3.27 M reads/minute). === Summary === Total reads processed: 82,766,869 Reads with adapters: 43,241,012 (52.2%) Reads written (passing filters): 82,766,869 (100.0%) Total basepairs processed: 12,497,797,219 bp Quality-trimmed: 44,680,127 bp (0.4%) Total written (filtered): 11,846,512,733 bp (94.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 43241012 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 35.2% C: 2.1% G: 17.7% T: 44.9% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 19605707 20691717.2 0 19605707 2 3552935 5172929.3 0 3552935 3 1685267 1293232.3 0 1685267 4 864346 323308.1 0 864346 5 436416 80827.0 0 436416 6 378985 20206.8 0 378985 7 374668 5051.7 0 374668 8 416902 1262.9 0 416902 9 356611 315.7 0 354646 1965 10 387723 78.9 1 356520 31203 11 410048 19.7 1 365986 44062 12 423967 4.9 1 384051 39916 13 361435 1.2 1 331943 29492 14 387633 1.2 1 345974 41659 15 395115 1.2 1 361930 33185 16 363532 1.2 1 324640 38892 17 411850 1.2 1 365090 46760 18 458492 1.2 1 424295 34197 19 242603 1.2 1 224399 18204 20 353936 1.2 1 326223 27713 21 372107 1.2 1 341701 30406 22 316083 1.2 1 291792 24291 23 371183 1.2 1 341007 30176 24 325552 1.2 1 290694 34858 25 341059 1.2 1 316801 24258 26 287287 1.2 1 268574 18713 27 339069 1.2 1 312720 26349 28 323554 1.2 1 302627 20927 29 306139 1.2 1 280115 26024 30 376692 1.2 1 353472 23220 31 194722 1.2 1 182486 12236 32 312258 1.2 1 293041 19217 33 247429 1.2 1 230520 16909 34 284774 1.2 1 262814 21960 35 283201 1.2 1 262805 20396 36 265964 1.2 1 244624 21340 37 256327 1.2 1 240686 15641 38 244111 1.2 1 228504 15607 39 257715 1.2 1 242254 15461 40 211587 1.2 1 197522 14065 41 234827 1.2 1 221698 13129 42 238277 1.2 1 222983 15294 43 272802 1.2 1 246203 26599 44 170115 1.2 1 157313 12802 45 318309 1.2 1 304034 14275 46 76676 1.2 1 69996 6680 47 192360 1.2 1 180096 12264 48 322347 1.2 1 304345 18002 49 101096 1.2 1 93975 7121 50 204564 1.2 1 191405 13159 51 182165 1.2 1 170487 11678 52 153800 1.2 1 146166 7634 53 139911 1.2 1 133054 6857 54 286832 1.2 1 273801 13031 55 186127 1.2 1 179184 6943 56 58450 1.2 1 53795 4655 57 218818 1.2 1 212874 5944 58 65126 1.2 1 61975 3151 59 86846 1.2 1 82964 3882 60 94528 1.2 1 92084 2444 61 29239 1.2 1 26730 2509 62 130033 1.2 1 124158 5875 63 167572 1.2 1 163786 3786 64 30862 1.2 1 29103 1759 65 47496 1.2 1 44626 2870 66 107463 1.2 1 103468 3995 67 74983 1.2 1 71829 3154 68 92107 1.2 1 88311 3796 69 88766 1.2 1 84520 4246 70 152430 1.2 1 147054 5376 71 15419 1.2 1 14066 1353 72 11369 1.2 1 10478 891 73 32132 1.2 1 30696 1436 74 46663 1.2 1 44735 1928 75 51134 1.2 1 49104 2030 76 50392 1.2 1 48244 2148 77 48725 1.2 1 46709 2016 78 46138 1.2 1 44233 1905 79 43808 1.2 1 41932 1876 80 41101 1.2 1 39304 1797 81 38989 1.2 1 37289 1700 82 36352 1.2 1 34751 1601 83 33826 1.2 1 32374 1452 84 31476 1.2 1 30207 1269 85 29385 1.2 1 28199 1186 86 27067 1.2 1 25970 1097 87 25409 1.2 1 24357 1052 88 23720 1.2 1 22773 947 89 22182 1.2 1 21269 913 90 20704 1.2 1 19804 900 91 18976 1.2 1 18186 790 92 17608 1.2 1 16902 706 93 16249 1.2 1 15571 678 94 14876 1.2 1 14310 566 95 13851 1.2 1 13316 535 96 12669 1.2 1 12171 498 97 11519 1.2 1 11065 454 98 10703 1.2 1 10262 441 99 9985 1.2 1 9566 419 100 9188 1.2 1 8835 353 101 8502 1.2 1 8145 357 102 7789 1.2 1 7493 296 103 6874 1.2 1 6568 306 104 6433 1.2 1 6158 275 105 5607 1.2 1 5353 254 106 5092 1.2 1 4890 202 107 4561 1.2 1 4357 204 108 4262 1.2 1 4057 205 109 3733 1.2 1 3561 172 110 3334 1.2 1 3182 152 111 2976 1.2 1 2845 131 112 2680 1.2 1 2551 129 113 2348 1.2 1 2238 110 114 1998 1.2 1 1899 99 115 1650 1.2 1 1566 84 116 1396 1.2 1 1302 94 117 1250 1.2 1 1181 69 118 1030 1.2 1 967 63 119 956 1.2 1 885 71 120 1625 1.2 1 1558 67 121 1248 1.2 1 1197 51 122 608 1.2 1 555 53 123 533 1.2 1 472 61 124 391 1.2 1 339 52 125 311 1.2 1 283 28 126 308 1.2 1 274 34 127 238 1.2 1 211 27 128 244 1.2 1 213 31 129 205 1.2 1 164 41 130 164 1.2 1 145 19 131 154 1.2 1 132 22 132 148 1.2 1 120 28 133 153 1.2 1 125 28 134 80 1.2 1 65 15 135 101 1.2 1 84 17 136 107 1.2 1 92 15 137 112 1.2 1 90 22 138 66 1.2 1 47 19 139 83 1.2 1 69 14 140 69 1.2 1 51 18 141 105 1.2 1 74 31 142 55 1.2 1 45 10 143 65 1.2 1 33 32 144 44 1.2 1 24 20 145 73 1.2 1 43 30 146 67 1.2 1 37 30 147 57 1.2 1 32 25 148 58 1.2 1 30 28 149 86 1.2 1 60 26 150 166 1.2 1 35 131 151 39291 1.2 1 69 39222 RUN STATISTICS FOR INPUT FILE: ERR12308520_2.fastq.gz ============================================= 82766869 sequences processed in total