SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913464_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: 20177). 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 ERR13913464_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2364.486 s (21.141 µs/read; 2.84 M reads/minute). === Summary === Total reads processed: 111,846,018 Reads with adapters: 57,775,433 (51.7%) Reads written (passing filters): 111,846,018 (100.0%) Total basepairs processed: 16,776,902,700 bp Quality-trimmed: 64,868,361 bp (0.4%) Total written (filtered): 16,575,224,248 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 57775433 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.6% C: 17.1% G: 0.3% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 54684332 27961504.5 0 54684332 2 132118 6990376.1 0 132118 3 125148 1747594.0 0 125148 4 94161 436898.5 0 94161 5 86475 109224.6 0 86475 6 67927 27306.2 0 67927 7 72659 6826.5 0 72659 8 77300 1706.6 0 77300 9 61939 426.7 0 61908 31 10 72717 106.7 1 67633 5084 11 70887 26.7 1 64469 6418 12 70192 6.7 1 49811 20381 13 66640 1.7 1 47154 19486 14 71615 1.7 1 51165 20450 15 59985 1.7 1 42868 17117 16 64413 1.7 1 45706 18707 17 69993 1.7 1 50151 19842 18 53099 1.7 1 37936 15163 19 64809 1.7 1 46499 18310 20 61134 1.7 1 43966 17168 21 56361 1.7 1 40565 15796 22 55837 1.7 1 40521 15316 23 54244 1.7 1 39467 14777 24 63219 1.7 1 46475 16744 25 69909 1.7 1 50686 19223 26 40328 1.7 1 29536 10792 27 40708 1.7 1 29495 11213 28 52945 1.7 1 39842 13103 29 44414 1.7 1 32498 11916 30 51700 1.7 1 38730 12970 31 42393 1.7 1 31412 10981 32 49224 1.7 1 37096 12128 33 44524 1.7 1 33223 11301 34 37928 1.7 1 28189 9739 35 44057 1.7 1 32977 11080 36 37802 1.7 1 28404 9398 37 38756 1.7 1 29174 9582 38 39421 1.7 1 29622 9799 39 37216 1.7 1 28138 9078 40 34515 1.7 1 26232 8283 41 37194 1.7 1 28695 8499 42 30547 1.7 1 23064 7483 43 30419 1.7 1 22923 7496 44 30542 1.7 1 23659 6883 45 28966 1.7 1 22223 6743 46 28224 1.7 1 21768 6456 47 27982 1.7 1 21537 6445 48 28733 1.7 1 22109 6624 49 24403 1.7 1 19079 5324 50 24311 1.7 1 18688 5623 51 25213 1.7 1 19445 5768 52 22035 1.7 1 17128 4907 53 22167 1.7 1 17339 4828 54 21553 1.7 1 16689 4864 55 19359 1.7 1 15257 4102 56 20955 1.7 1 16648 4307 57 16999 1.7 1 13318 3681 58 17719 1.7 1 14019 3700 59 21700 1.7 1 17358 4342 60 12821 1.7 1 10030 2791 61 14623 1.7 1 11560 3063 62 16046 1.7 1 12794 3252 63 13235 1.7 1 10500 2735 64 12301 1.7 1 9892 2409 65 21841 1.7 1 17763 4078 66 8828 1.7 1 6796 2032 67 7967 1.7 1 6242 1725 68 8279 1.7 1 6605 1674 69 10845 1.7 1 8746 2099 70 10110 1.7 1 7966 2144 71 7841 1.7 1 6277 1564 72 8564 1.7 1 6988 1576 73 8023 1.7 1 6386 1637 74 7385 1.7 1 5913 1472 75 10292 1.7 1 8232 2060 76 5805 1.7 1 4557 1248 77 4072 1.7 1 3140 932 78 1690 1.7 1 1298 392 79 2625 1.7 1 2130 495 80 3189 1.7 1 2583 606 81 3088 1.7 1 2513 575 82 2966 1.7 1 2373 593 83 2666 1.7 1 2162 504 84 2570 1.7 1 2033 537 85 2251 1.7 1 1733 518 86 2148 1.7 1 1653 495 87 1909 1.7 1 1468 441 88 1659 1.7 1 1260 399 89 1408 1.7 1 1075 333 90 1299 1.7 1 943 356 91 1234 1.7 1 901 333 92 1087 1.7 1 811 276 93 910 1.7 1 659 251 94 847 1.7 1 587 260 95 815 1.7 1 554 261 96 675 1.7 1 478 197 97 618 1.7 1 379 239 98 545 1.7 1 354 191 99 576 1.7 1 369 207 100 481 1.7 1 282 199 101 461 1.7 1 268 193 102 462 1.7 1 285 177 103 353 1.7 1 219 134 104 396 1.7 1 228 168 105 363 1.7 1 219 144 106 304 1.7 1 177 127 107 301 1.7 1 152 149 108 261 1.7 1 121 140 109 262 1.7 1 150 112 110 265 1.7 1 152 113 111 253 1.7 1 130 123 112 243 1.7 1 126 117 113 247 1.7 1 130 117 114 227 1.7 1 120 107 115 203 1.7 1 112 91 116 215 1.7 1 117 98 117 195 1.7 1 114 81 118 173 1.7 1 102 71 119 177 1.7 1 100 77 120 175 1.7 1 96 79 121 175 1.7 1 95 80 122 177 1.7 1 100 77 123 169 1.7 1 92 77 124 155 1.7 1 86 69 125 122 1.7 1 66 56 126 133 1.7 1 77 56 127 108 1.7 1 58 50 128 90 1.7 1 58 32 129 108 1.7 1 64 44 130 82 1.7 1 49 33 131 64 1.7 1 41 23 132 49 1.7 1 35 14 133 43 1.7 1 27 16 134 51 1.7 1 29 22 135 26 1.7 1 21 5 136 26 1.7 1 18 8 137 19 1.7 1 15 4 138 21 1.7 1 17 4 139 10 1.7 1 4 6 140 6 1.7 1 5 1 141 6 1.7 1 4 2 142 7 1.7 1 5 2 143 2 1.7 1 1 1 144 10 1.7 1 7 3 145 5 1.7 1 1 4 146 5 1.7 1 4 1 147 6 1.7 1 5 1 148 11 1.7 1 3 8 149 5 1.7 1 2 3 150 7 1.7 1 1 6 RUN STATISTICS FOR INPUT FILE: ERR13913464_2.fastq.gz ============================================= 111846018 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 111846018 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 18439 (0.02%)