SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913469_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: 17848). 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 ERR13913469_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2515.887 s (22.251 µs/read; 2.70 M reads/minute). === Summary === Total reads processed: 113,067,415 Reads with adapters: 58,029,446 (51.3%) Reads written (passing filters): 113,067,415 (100.0%) Total basepairs processed: 16,960,112,250 bp Quality-trimmed: 71,488,816 bp (0.4%) Total written (filtered): 16,759,788,334 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 58029446 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 55077746 28266853.8 0 55077746 2 143580 7066713.4 0 143580 3 135017 1766678.4 0 135017 4 99514 441669.6 0 99514 5 88063 110417.4 0 88063 6 70646 27604.3 0 70646 7 75216 6901.1 0 75216 8 79371 1725.3 0 79371 9 62581 431.3 0 62552 29 10 73774 107.8 1 69040 4734 11 71224 27.0 1 65318 5906 12 69570 6.7 1 50072 19498 13 66954 1.7 1 48118 18836 14 69337 1.7 1 50206 19131 15 61823 1.7 1 44932 16891 16 63825 1.7 1 46069 17756 17 72662 1.7 1 52817 19845 18 49471 1.7 1 35934 13537 19 77564 1.7 1 57274 20290 20 51776 1.7 1 37353 14423 21 47537 1.7 1 34824 12713 22 54737 1.7 1 40399 14338 23 52561 1.7 1 38697 13864 24 65133 1.7 1 48238 16895 25 59055 1.7 1 43203 15852 26 38846 1.7 1 28716 10130 27 42738 1.7 1 31873 10865 28 48999 1.7 1 36886 12113 29 43672 1.7 1 32487 11185 30 46306 1.7 1 34919 11387 31 41639 1.7 1 31294 10345 32 41960 1.7 1 31832 10128 33 43859 1.7 1 33148 10711 34 37920 1.7 1 28502 9418 35 37539 1.7 1 28546 8993 36 35213 1.7 1 27024 8189 37 37571 1.7 1 28570 9001 38 32551 1.7 1 24637 7914 39 35777 1.7 1 27622 8155 40 33265 1.7 1 25333 7932 41 26656 1.7 1 20629 6027 42 28461 1.7 1 21964 6497 43 27751 1.7 1 21459 6292 44 28005 1.7 1 21592 6413 45 24673 1.7 1 19206 5467 46 25042 1.7 1 19387 5655 47 24627 1.7 1 19035 5592 48 23829 1.7 1 18436 5393 49 21388 1.7 1 16902 4486 50 20128 1.7 1 15755 4373 51 20498 1.7 1 16122 4376 52 18352 1.7 1 14422 3930 53 18185 1.7 1 14293 3892 54 17591 1.7 1 13641 3950 55 15742 1.7 1 12481 3261 56 17377 1.7 1 13844 3533 57 13734 1.7 1 10798 2936 58 14244 1.7 1 11370 2874 59 16806 1.7 1 13538 3268 60 10090 1.7 1 7924 2166 61 11605 1.7 1 9230 2375 62 12400 1.7 1 9961 2439 63 10347 1.7 1 8124 2223 64 9710 1.7 1 7739 1971 65 17121 1.7 1 13965 3156 66 7044 1.7 1 5487 1557 67 6327 1.7 1 5053 1274 68 6651 1.7 1 5407 1244 69 8421 1.7 1 6855 1566 70 8071 1.7 1 6377 1694 71 6020 1.7 1 4840 1180 72 6806 1.7 1 5509 1297 73 6288 1.7 1 5057 1231 74 5899 1.7 1 4698 1201 75 8302 1.7 1 6662 1640 76 4817 1.7 1 3834 983 77 3416 1.7 1 2645 771 78 1559 1.7 1 1252 307 79 2389 1.7 1 1972 417 80 2736 1.7 1 2251 485 81 2740 1.7 1 2227 513 82 2560 1.7 1 2081 479 83 2432 1.7 1 1968 464 84 2290 1.7 1 1786 504 85 2085 1.7 1 1644 441 86 1919 1.7 1 1475 444 87 1661 1.7 1 1335 326 88 1572 1.7 1 1209 363 89 1364 1.7 1 1052 312 90 1253 1.7 1 962 291 91 1128 1.7 1 868 260 92 1009 1.7 1 739 270 93 895 1.7 1 661 234 94 813 1.7 1 575 238 95 719 1.7 1 500 219 96 662 1.7 1 470 192 97 626 1.7 1 439 187 98 577 1.7 1 409 168 99 521 1.7 1 336 185 100 475 1.7 1 310 165 101 445 1.7 1 299 146 102 390 1.7 1 259 131 103 343 1.7 1 195 148 104 323 1.7 1 193 130 105 321 1.7 1 181 140 106 310 1.7 1 185 125 107 293 1.7 1 181 112 108 264 1.7 1 154 110 109 253 1.7 1 152 101 110 250 1.7 1 148 102 111 214 1.7 1 113 101 112 198 1.7 1 112 86 113 200 1.7 1 112 88 114 192 1.7 1 112 80 115 173 1.7 1 110 63 116 199 1.7 1 130 69 117 183 1.7 1 96 87 118 170 1.7 1 86 84 119 160 1.7 1 93 67 120 145 1.7 1 80 65 121 136 1.7 1 92 44 122 127 1.7 1 73 54 123 122 1.7 1 60 62 124 132 1.7 1 65 67 125 116 1.7 1 68 48 126 122 1.7 1 81 41 127 86 1.7 1 48 38 128 102 1.7 1 69 33 129 79 1.7 1 47 32 130 55 1.7 1 38 17 131 48 1.7 1 29 19 132 40 1.7 1 24 16 133 40 1.7 1 25 15 134 24 1.7 1 18 6 135 29 1.7 1 19 10 136 28 1.7 1 20 8 137 20 1.7 1 10 10 138 11 1.7 1 8 3 139 7 1.7 1 3 4 140 16 1.7 1 9 7 141 12 1.7 1 6 6 142 11 1.7 1 4 7 143 5 1.7 1 3 2 144 10 1.7 1 8 2 145 6 1.7 1 1 5 146 4 1.7 1 2 2 147 5 1.7 1 3 2 148 10 1.7 1 8 2 149 9 1.7 1 2 7 150 7 1.7 1 1 6 RUN STATISTICS FOR INPUT FILE: ERR13913469_2.fastq.gz ============================================= 113067415 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 113067415 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 27669 (0.02%)