SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913496_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: 23102). 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 ERR13913496_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 3672.554 s (21.830 µs/read; 2.75 M reads/minute). === Summary === Total reads processed: 168,235,405 Reads with adapters: 86,961,193 (51.7%) Reads written (passing filters): 168,235,405 (100.0%) Total basepairs processed: 25,235,310,750 bp Quality-trimmed: 104,147,407 bp (0.4%) Total written (filtered): 24,906,995,173 bp (98.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 86961193 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% C: 17.0% G: 0.4% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 81871049 42058851.2 0 81871049 2 218346 10514712.8 0 218346 3 195744 2628678.2 0 195744 4 147213 657169.6 0 147213 5 133991 164292.4 0 133991 6 106000 41073.1 0 106000 7 113794 10268.3 0 113794 8 121253 2567.1 0 121253 9 96568 641.8 0 96534 34 10 112676 160.4 1 104982 7694 11 111918 40.1 1 102201 9717 12 107738 10.0 1 75776 31962 13 104080 2.5 1 72344 31736 14 110882 2.5 1 77893 32989 15 95612 2.5 1 67190 28422 16 100102 2.5 1 70131 29971 17 117784 2.5 1 82943 34841 18 76662 2.5 1 53716 22946 19 112795 2.5 1 80706 32089 20 94031 2.5 1 65924 28107 21 77589 2.5 1 54880 22709 22 88413 2.5 1 63153 25260 23 86712 2.5 1 62370 24342 24 106529 2.5 1 77466 29063 25 94014 2.5 1 67041 26973 26 68087 2.5 1 48990 19097 27 73157 2.5 1 52572 20585 28 81625 2.5 1 59977 21648 29 74410 2.5 1 53989 20421 30 77734 2.5 1 56946 20788 31 74828 2.5 1 54602 20226 32 73552 2.5 1 54245 19307 33 72496 2.5 1 53282 19214 34 73164 2.5 1 54067 19097 35 64536 2.5 1 47496 17040 36 65672 2.5 1 48850 16822 37 72242 2.5 1 53742 18500 38 66148 2.5 1 49191 16957 39 55626 2.5 1 41449 14177 40 67312 2.5 1 51034 16278 41 45454 2.5 1 33760 11694 42 61245 2.5 1 46371 14874 43 47481 2.5 1 35487 11994 44 54925 2.5 1 41901 13024 45 48211 2.5 1 36546 11665 46 50299 2.5 1 38267 12032 47 49175 2.5 1 37311 11864 48 47996 2.5 1 36583 11413 49 44655 2.5 1 34577 10078 50 42454 2.5 1 32371 10083 51 42116 2.5 1 32328 9788 52 39795 2.5 1 30952 8843 53 38579 2.5 1 29862 8717 54 38609 2.5 1 29943 8666 55 35314 2.5 1 27686 7628 56 36348 2.5 1 28383 7965 57 32298 2.5 1 25315 6983 58 32955 2.5 1 25855 7100 59 35972 2.5 1 28497 7475 60 27600 2.5 1 21422 6178 61 27967 2.5 1 22201 5766 62 30088 2.5 1 23911 6177 63 25696 2.5 1 20244 5452 64 23561 2.5 1 18648 4913 65 41278 2.5 1 33337 7941 66 17577 2.5 1 13634 3943 67 16154 2.5 1 12809 3345 68 16797 2.5 1 13409 3388 69 21284 2.5 1 17111 4173 70 20833 2.5 1 16578 4255 71 16172 2.5 1 13007 3165 72 17640 2.5 1 14246 3394 73 16561 2.5 1 13198 3363 74 15422 2.5 1 12357 3065 75 22444 2.5 1 18142 4302 76 13029 2.5 1 10464 2565 77 9292 2.5 1 7471 1821 78 4101 2.5 1 3313 788 79 6317 2.5 1 5187 1130 80 7375 2.5 1 6040 1335 81 7141 2.5 1 5869 1272 82 6802 2.5 1 5577 1225 83 6228 2.5 1 5119 1109 84 5830 2.5 1 4733 1097 85 5289 2.5 1 4309 980 86 4755 2.5 1 3798 957 87 4310 2.5 1 3442 868 88 3718 2.5 1 2991 727 89 3434 2.5 1 2675 759 90 3003 2.5 1 2367 636 91 2651 2.5 1 2032 619 92 2299 2.5 1 1817 482 93 2010 2.5 1 1528 482 94 1792 2.5 1 1333 459 95 1590 2.5 1 1149 441 96 1323 2.5 1 911 412 97 1146 2.5 1 802 344 98 1023 2.5 1 692 331 99 952 2.5 1 622 330 100 870 2.5 1 575 295 101 874 2.5 1 536 338 102 742 2.5 1 477 265 103 636 2.5 1 389 247 104 593 2.5 1 329 264 105 545 2.5 1 308 237 106 531 2.5 1 288 243 107 488 2.5 1 276 212 108 464 2.5 1 230 234 109 397 2.5 1 237 160 110 363 2.5 1 209 154 111 383 2.5 1 216 167 112 393 2.5 1 217 176 113 338 2.5 1 179 159 114 330 2.5 1 174 156 115 317 2.5 1 187 130 116 347 2.5 1 187 160 117 296 2.5 1 168 128 118 322 2.5 1 165 157 119 284 2.5 1 155 129 120 293 2.5 1 185 108 121 257 2.5 1 135 122 122 271 2.5 1 158 113 123 274 2.5 1 147 127 124 252 2.5 1 129 123 125 208 2.5 1 128 80 126 222 2.5 1 132 90 127 185 2.5 1 104 81 128 169 2.5 1 109 60 129 165 2.5 1 96 69 130 136 2.5 1 99 37 131 98 2.5 1 55 43 132 123 2.5 1 88 35 133 84 2.5 1 58 26 134 63 2.5 1 46 17 135 68 2.5 1 57 11 136 64 2.5 1 40 24 137 27 2.5 1 17 10 138 37 2.5 1 24 13 139 37 2.5 1 21 16 140 18 2.5 1 12 6 141 19 2.5 1 11 8 142 10 2.5 1 4 6 143 14 2.5 1 8 6 144 22 2.5 1 12 10 145 15 2.5 1 9 6 146 21 2.5 1 14 7 147 12 2.5 1 7 5 148 25 2.5 1 9 16 149 23 2.5 1 12 11 150 19 2.5 1 3 16 RUN STATISTICS FOR INPUT FILE: ERR13913496_2.fastq.gz ============================================= 168235405 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 168235405 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 37131 (0.02%)