SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913473_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: 8002). 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 ERR13913473_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2543.510 s (22.046 µs/read; 2.72 M reads/minute). === Summary === Total reads processed: 115,373,304 Reads with adapters: 58,322,782 (50.6%) Reads written (passing filters): 115,373,304 (100.0%) Total basepairs processed: 17,305,995,600 bp Quality-trimmed: 73,441,947 bp (0.4%) Total written (filtered): 17,142,084,288 bp (99.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 58322782 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.3% C: 17.3% G: 0.4% T: 30.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 56807921 28843326.0 0 56807921 2 110623 7210831.5 0 110623 3 99172 1802707.9 0 99172 4 61024 450677.0 0 61024 5 51267 112669.2 0 51267 6 37937 28167.3 0 37937 7 39622 7041.8 0 39622 8 42465 1760.5 0 42465 9 33785 440.1 0 33767 18 10 39705 110.0 1 36994 2711 11 38263 27.5 1 34726 3537 12 36744 6.9 1 25873 10871 13 35130 1.7 1 24581 10549 14 36922 1.7 1 26248 10674 15 31537 1.7 1 22367 9170 16 33176 1.7 1 23276 9900 17 39451 1.7 1 28030 11421 18 23588 1.7 1 16629 6959 19 40235 1.7 1 29174 11061 20 26309 1.7 1 18377 7932 21 23882 1.7 1 16872 7010 22 27761 1.7 1 19950 7811 23 26773 1.7 1 19280 7493 24 33307 1.7 1 24296 9011 25 29430 1.7 1 20893 8537 26 18693 1.7 1 13409 5284 27 20256 1.7 1 14634 5622 28 23843 1.7 1 17561 6282 29 21585 1.7 1 15597 5988 30 22192 1.7 1 16296 5896 31 20104 1.7 1 14609 5495 32 19745 1.7 1 14552 5193 33 20717 1.7 1 15203 5514 34 16373 1.7 1 11915 4458 35 18142 1.7 1 13198 4944 36 17383 1.7 1 12913 4470 37 15814 1.7 1 11570 4244 38 15431 1.7 1 11414 4017 39 14514 1.7 1 10840 3674 40 15157 1.7 1 11252 3905 41 12539 1.7 1 9071 3468 42 12369 1.7 1 9111 3258 43 12173 1.7 1 8937 3236 44 11939 1.7 1 8940 2999 45 9554 1.7 1 7227 2327 46 10202 1.7 1 7601 2601 47 9950 1.7 1 7350 2600 48 9563 1.7 1 7031 2532 49 8603 1.7 1 6465 2138 50 8277 1.7 1 6114 2163 51 8092 1.7 1 6056 2036 52 7117 1.7 1 5304 1813 53 6927 1.7 1 5114 1813 54 6885 1.7 1 4995 1890 55 5853 1.7 1 4414 1439 56 6094 1.7 1 4642 1452 57 5033 1.7 1 3684 1349 58 5298 1.7 1 3931 1367 59 6272 1.7 1 4754 1518 60 3645 1.7 1 2611 1034 61 4166 1.7 1 3048 1118 62 4229 1.7 1 3168 1061 63 3505 1.7 1 2587 918 64 3234 1.7 1 2412 822 65 5909 1.7 1 4420 1489 66 2286 1.7 1 1584 702 67 2175 1.7 1 1566 609 68 2160 1.7 1 1561 599 69 2842 1.7 1 2041 801 70 2724 1.7 1 1943 781 71 2042 1.7 1 1417 625 72 2211 1.7 1 1579 632 73 2128 1.7 1 1458 670 74 2078 1.7 1 1411 667 75 2931 1.7 1 1985 946 76 1786 1.7 1 1175 611 77 1388 1.7 1 858 530 78 483 1.7 1 327 156 79 719 1.7 1 515 204 80 881 1.7 1 669 212 81 900 1.7 1 633 267 82 934 1.7 1 646 288 83 929 1.7 1 613 316 84 844 1.7 1 561 283 85 849 1.7 1 528 321 86 811 1.7 1 517 294 87 765 1.7 1 458 307 88 710 1.7 1 405 305 89 718 1.7 1 453 265 90 679 1.7 1 430 249 91 589 1.7 1 354 235 92 590 1.7 1 364 226 93 581 1.7 1 347 234 94 518 1.7 1 301 217 95 563 1.7 1 315 248 96 489 1.7 1 273 216 97 472 1.7 1 254 218 98 456 1.7 1 269 187 99 432 1.7 1 255 177 100 432 1.7 1 240 192 101 415 1.7 1 229 186 102 417 1.7 1 222 195 103 384 1.7 1 211 173 104 333 1.7 1 184 149 105 327 1.7 1 174 153 106 290 1.7 1 149 141 107 314 1.7 1 156 158 108 311 1.7 1 170 141 109 284 1.7 1 149 135 110 299 1.7 1 171 128 111 281 1.7 1 145 136 112 288 1.7 1 141 147 113 248 1.7 1 133 115 114 233 1.7 1 109 124 115 211 1.7 1 116 95 116 210 1.7 1 119 91 117 205 1.7 1 124 81 118 201 1.7 1 113 88 119 163 1.7 1 82 81 120 194 1.7 1 103 91 121 164 1.7 1 95 69 122 181 1.7 1 97 84 123 162 1.7 1 89 73 124 151 1.7 1 84 67 125 139 1.7 1 76 63 126 135 1.7 1 87 48 127 113 1.7 1 68 45 128 134 1.7 1 81 53 129 74 1.7 1 42 32 130 74 1.7 1 45 29 131 50 1.7 1 28 22 132 45 1.7 1 24 21 133 44 1.7 1 19 25 134 50 1.7 1 36 14 135 28 1.7 1 21 7 136 27 1.7 1 18 9 137 14 1.7 1 10 4 138 15 1.7 1 10 5 139 16 1.7 1 10 6 140 8 1.7 1 7 1 141 9 1.7 1 3 6 142 2 1.7 1 1 1 143 7 1.7 1 4 3 144 3 1.7 1 2 1 145 4 1.7 1 3 1 146 4 1.7 1 1 3 147 5 1.7 1 2 3 148 8 1.7 1 4 4 149 3 1.7 1 1 2 150 4 1.7 1 1 3 RUN STATISTICS FOR INPUT FILE: ERR13913473_2.fastq.gz ============================================= 115373304 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 115373304 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 29150 (0.03%)