SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308514_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: 143535). 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 ERR12308514_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1138.068 s (15.889 µs/read; 3.78 M reads/minute). === Summary === Total reads processed: 71,624,117 Reads with adapters: 34,666,780 (48.4%) Reads written (passing filters): 71,624,117 (100.0%) Total basepairs processed: 10,815,241,667 bp Quality-trimmed: 45,708,740 bp (0.4%) Total written (filtered): 10,301,965,225 bp (95.3%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 34666780 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 32.7% C: 5.1% G: 19.5% T: 42.6% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 16209895 17906029.2 0 16209895 2 3177277 4476507.3 0 3177277 3 1389031 1119126.8 0 1389031 4 651526 279781.7 0 651526 5 333916 69945.4 0 333916 6 290698 17486.4 0 290698 7 288179 4371.6 0 288179 8 314995 1092.9 0 314995 9 257332 273.2 0 255674 1658 10 295865 68.3 1 270414 25451 11 302072 17.1 1 270914 31158 12 317388 4.3 1 286714 30674 13 276172 1.1 1 252086 24086 14 286916 1.1 1 256895 30021 15 294464 1.1 1 269020 25444 16 274231 1.1 1 244645 29586 17 306004 1.1 1 271592 34412 18 356699 1.1 1 328588 28111 19 166993 1.1 1 153770 13223 20 266288 1.1 1 244070 22218 21 272468 1.1 1 249938 22530 22 241896 1.1 1 221845 20051 23 276177 1.1 1 253393 22784 24 243329 1.1 1 216955 26374 25 255419 1.1 1 236322 19097 26 213228 1.1 1 198740 14488 27 252131 1.1 1 231758 20373 28 242061 1.1 1 224936 17125 29 226952 1.1 1 206539 20413 30 277886 1.1 1 259278 18608 31 149631 1.1 1 139798 9833 32 223551 1.1 1 208455 15096 33 204263 1.1 1 187637 16626 34 235164 1.1 1 216053 19111 35 214947 1.1 1 203438 11509 36 158669 1.1 1 143012 15657 37 198100 1.1 1 183293 14807 38 190069 1.1 1 177643 12426 39 215183 1.1 1 199531 15652 40 143140 1.1 1 133352 9788 41 185728 1.1 1 173662 12066 42 187290 1.1 1 177024 10266 43 154896 1.1 1 142809 12087 44 137144 1.1 1 126922 10222 45 238059 1.1 1 226830 11229 46 58580 1.1 1 52821 5759 47 135949 1.1 1 128110 7839 48 166180 1.1 1 155046 11134 49 117903 1.1 1 111310 6593 50 124509 1.1 1 116547 7962 51 125586 1.1 1 117100 8486 52 122864 1.1 1 115086 7778 53 114897 1.1 1 108372 6525 54 115653 1.1 1 107453 8200 55 147540 1.1 1 138959 8581 56 71626 1.1 1 67150 4476 57 120418 1.1 1 113560 6858 58 130897 1.1 1 124829 6068 59 49991 1.1 1 46349 3642 60 98477 1.1 1 94786 3691 61 62634 1.1 1 59226 3408 62 89849 1.1 1 84263 5586 63 99849 1.1 1 95439 4410 64 77006 1.1 1 73686 3320 65 42156 1.1 1 39430 2726 66 80052 1.1 1 75533 4519 67 81600 1.1 1 77853 3747 68 80673 1.1 1 77020 3653 69 62366 1.1 1 58816 3550 70 103874 1.1 1 99314 4560 71 11674 1.1 1 10688 986 72 14071 1.1 1 13165 906 73 31943 1.1 1 30467 1476 74 40086 1.1 1 38252 1834 75 41382 1.1 1 39441 1941 76 40701 1.1 1 38764 1937 77 39153 1.1 1 37216 1937 78 36305 1.1 1 34522 1783 79 34856 1.1 1 33174 1682 80 32839 1.1 1 31257 1582 81 31294 1.1 1 29796 1498 82 29356 1.1 1 27992 1364 83 27415 1.1 1 26060 1355 84 26258 1.1 1 24988 1270 85 23985 1.1 1 22846 1139 86 22161 1.1 1 21131 1030 87 21310 1.1 1 20315 995 88 19878 1.1 1 19022 856 89 18689 1.1 1 17835 854 90 17579 1.1 1 16752 827 91 16169 1.1 1 15446 723 92 15099 1.1 1 14387 712 93 13969 1.1 1 13309 660 94 13059 1.1 1 12413 646 95 12266 1.1 1 11643 623 96 11379 1.1 1 10846 533 97 10814 1.1 1 10324 490 98 9679 1.1 1 9241 438 99 9358 1.1 1 8907 451 100 8559 1.1 1 8168 391 101 7910 1.1 1 7556 354 102 7281 1.1 1 6927 354 103 6768 1.1 1 6434 334 104 6049 1.1 1 5750 299 105 5768 1.1 1 5476 292 106 5047 1.1 1 4805 242 107 4761 1.1 1 4530 231 108 4235 1.1 1 4017 218 109 3809 1.1 1 3581 228 110 3349 1.1 1 3147 202 111 2970 1.1 1 2786 184 112 2720 1.1 1 2558 162 113 2503 1.1 1 2355 148 114 2074 1.1 1 1934 140 115 1922 1.1 1 1802 120 116 1644 1.1 1 1532 112 117 1475 1.1 1 1355 120 118 1222 1.1 1 1138 84 119 1172 1.1 1 1081 91 120 1855 1.1 1 1748 107 121 1354 1.1 1 1268 86 122 685 1.1 1 603 82 123 625 1.1 1 561 64 124 514 1.1 1 447 67 125 473 1.1 1 392 81 126 352 1.1 1 290 62 127 332 1.1 1 268 64 128 304 1.1 1 229 75 129 247 1.1 1 207 40 130 215 1.1 1 176 39 131 201 1.1 1 170 31 132 161 1.1 1 124 37 133 161 1.1 1 131 30 134 117 1.1 1 89 28 135 136 1.1 1 96 40 136 133 1.1 1 104 29 137 143 1.1 1 105 38 138 106 1.1 1 69 37 139 100 1.1 1 70 30 140 86 1.1 1 51 35 141 125 1.1 1 78 47 142 105 1.1 1 67 38 143 85 1.1 1 46 39 144 81 1.1 1 39 42 145 96 1.1 1 54 42 146 102 1.1 1 49 53 147 75 1.1 1 39 36 148 76 1.1 1 43 33 149 92 1.1 1 49 43 150 148 1.1 1 17 131 151 29079 1.1 1 73 29006 RUN STATISTICS FOR INPUT FILE: ERR12308514_1.fastq.gz ============================================= 71624117 sequences processed in total