SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913487_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: 15054). 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 ERR13913487_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2530.116 s (21.443 µs/read; 2.80 M reads/minute). === Summary === Total reads processed: 117,994,476 Reads with adapters: 60,201,620 (51.0%) Reads written (passing filters): 117,994,476 (100.0%) Total basepairs processed: 17,699,171,400 bp Quality-trimmed: 71,207,130 bp (0.4%) Total written (filtered): 17,506,541,682 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 60201620 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.5% C: 17.1% G: 0.4% T: 30.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 57732765 29498619.0 0 57732765 2 122231 7374654.8 0 122231 3 113842 1843663.7 0 113842 4 79959 460915.9 0 79959 5 71233 115229.0 0 71233 6 55432 28807.2 0 55432 7 59429 7201.8 0 59429 8 63319 1800.5 0 63319 9 49980 450.1 0 49949 31 10 58789 112.5 1 54795 3994 11 57386 28.1 1 52537 4849 12 55713 7.0 1 39674 16039 13 54291 1.8 1 37990 16301 14 55708 1.8 1 39654 16054 15 50969 1.8 1 36441 14528 16 51098 1.8 1 36167 14931 17 57594 1.8 1 41169 16425 18 41903 1.8 1 30122 11781 19 58287 1.8 1 42460 15827 20 44691 1.8 1 31814 12877 21 41112 1.8 1 29534 11578 22 44680 1.8 1 32528 12152 23 43097 1.8 1 31371 11726 24 46516 1.8 1 33913 12603 25 48984 1.8 1 35346 13638 26 36064 1.8 1 26208 9856 27 39516 1.8 1 28661 10855 28 39632 1.8 1 29353 10279 29 36976 1.8 1 26939 10037 30 37838 1.8 1 28042 9796 31 35424 1.8 1 26268 9156 32 34449 1.8 1 25742 8707 33 36539 1.8 1 27124 9415 34 33829 1.8 1 24839 8990 35 30352 1.8 1 22784 7568 36 31017 1.8 1 23138 7879 37 31213 1.8 1 23655 7558 38 30138 1.8 1 22543 7595 39 27323 1.8 1 20633 6690 40 26855 1.8 1 20018 6837 41 25779 1.8 1 19361 6418 42 27320 1.8 1 20993 6327 43 20523 1.8 1 15507 5016 44 24064 1.8 1 18352 5712 45 21506 1.8 1 16367 5139 46 21478 1.8 1 16481 4997 47 21380 1.8 1 16204 5176 48 21496 1.8 1 16379 5117 49 18284 1.8 1 14230 4054 50 18151 1.8 1 13763 4388 51 18424 1.8 1 14127 4297 52 16203 1.8 1 12665 3538 53 16400 1.8 1 12584 3816 54 16049 1.8 1 12369 3680 55 14305 1.8 1 11203 3102 56 15090 1.8 1 11884 3206 57 12561 1.8 1 9749 2812 58 13012 1.8 1 10137 2875 59 14805 1.8 1 11740 3065 60 9870 1.8 1 7567 2303 61 10928 1.8 1 8554 2374 62 11456 1.8 1 9030 2426 63 9589 1.8 1 7511 2078 64 9205 1.8 1 7232 1973 65 15683 1.8 1 12530 3153 66 6446 1.8 1 4952 1494 67 5829 1.8 1 4518 1311 68 6150 1.8 1 4885 1265 69 7854 1.8 1 6253 1601 70 7625 1.8 1 5892 1733 71 5792 1.8 1 4559 1233 72 6154 1.8 1 4852 1302 73 5876 1.8 1 4645 1231 74 5566 1.8 1 4369 1197 75 7758 1.8 1 5953 1805 76 4847 1.8 1 3727 1120 77 3341 1.8 1 2464 877 78 1389 1.8 1 1060 329 79 2130 1.8 1 1707 423 80 2619 1.8 1 2078 541 81 2384 1.8 1 1895 489 82 2367 1.8 1 1846 521 83 2033 1.8 1 1578 455 84 2014 1.8 1 1544 470 85 1997 1.8 1 1547 450 86 1636 1.8 1 1265 371 87 1607 1.8 1 1210 397 88 1429 1.8 1 1032 397 89 1299 1.8 1 937 362 90 1206 1.8 1 872 334 91 990 1.8 1 705 285 92 928 1.8 1 670 258 93 856 1.8 1 585 271 94 777 1.8 1 546 231 95 724 1.8 1 483 241 96 684 1.8 1 430 254 97 604 1.8 1 413 191 98 542 1.8 1 324 218 99 509 1.8 1 320 189 100 527 1.8 1 314 213 101 441 1.8 1 260 181 102 459 1.8 1 261 198 103 378 1.8 1 218 160 104 359 1.8 1 203 156 105 371 1.8 1 198 173 106 341 1.8 1 184 157 107 295 1.8 1 144 151 108 299 1.8 1 170 129 109 271 1.8 1 133 138 110 248 1.8 1 132 116 111 261 1.8 1 143 118 112 270 1.8 1 141 129 113 227 1.8 1 117 110 114 256 1.8 1 122 134 115 189 1.8 1 93 96 116 194 1.8 1 106 88 117 186 1.8 1 97 89 118 201 1.8 1 111 90 119 190 1.8 1 109 81 120 190 1.8 1 105 85 121 186 1.8 1 101 85 122 162 1.8 1 86 76 123 169 1.8 1 97 72 124 159 1.8 1 94 65 125 136 1.8 1 77 59 126 121 1.8 1 68 53 127 126 1.8 1 79 47 128 106 1.8 1 64 42 129 91 1.8 1 59 32 130 74 1.8 1 42 32 131 71 1.8 1 44 27 132 54 1.8 1 36 18 133 47 1.8 1 35 12 134 45 1.8 1 29 16 135 36 1.8 1 22 14 136 25 1.8 1 16 9 137 21 1.8 1 15 6 138 22 1.8 1 16 6 139 15 1.8 1 11 4 140 17 1.8 1 15 2 141 13 1.8 1 8 5 142 15 1.8 1 10 5 143 7 1.8 1 2 5 144 10 1.8 1 5 5 145 9 1.8 1 7 2 146 3 1.8 1 2 1 147 8 1.8 1 4 4 148 7 1.8 1 2 5 149 8 1.8 1 1 7 150 8 1.8 1 5 3 RUN STATISTICS FOR INPUT FILE: ERR13913487_2.fastq.gz ============================================= 117994476 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 117994476 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 20999 (0.02%)