SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913488_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: 16534). 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 ERR13913488_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2331.329 s (20.533 µs/read; 2.92 M reads/minute). === Summary === Total reads processed: 113,542,853 Reads with adapters: 58,249,423 (51.3%) Reads written (passing filters): 113,542,853 (100.0%) Total basepairs processed: 17,031,427,950 bp Quality-trimmed: 67,994,293 bp (0.4%) Total written (filtered): 16,839,833,390 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 58249423 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: 30.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 55556377 28385713.2 0 55556377 2 127531 7096428.3 0 127531 3 123638 1774107.1 0 123638 4 88504 443526.8 0 88504 5 80852 110881.7 0 80852 6 63337 27720.4 0 63337 7 67470 6930.1 0 67470 8 71618 1732.5 0 71618 9 57700 433.1 0 57678 22 10 66587 108.3 1 62180 4407 11 65821 27.1 1 60158 5663 12 63093 6.8 1 46558 16535 13 60977 1.7 1 44354 16623 14 65231 1.7 1 47872 17359 15 54266 1.7 1 39992 14274 16 57298 1.7 1 41915 15383 17 70518 1.7 1 51962 18556 18 40405 1.7 1 29653 10752 19 71850 1.7 1 54129 17721 20 46693 1.7 1 34125 12568 21 41243 1.7 1 30577 10666 22 49696 1.7 1 37020 12676 23 47713 1.7 1 35826 11887 24 58758 1.7 1 44162 14596 25 54477 1.7 1 40441 14036 26 34726 1.7 1 25927 8799 27 37980 1.7 1 28470 9510 28 44671 1.7 1 34135 10536 29 38837 1.7 1 29314 9523 30 41440 1.7 1 31518 9922 31 38219 1.7 1 29100 9119 32 38776 1.7 1 29955 8821 33 42990 1.7 1 32841 10149 34 35842 1.7 1 27419 8423 35 30247 1.7 1 22962 7285 36 33254 1.7 1 25872 7382 37 29719 1.7 1 22728 6991 38 31162 1.7 1 24076 7086 39 30698 1.7 1 24000 6698 40 27826 1.7 1 21690 6136 41 29627 1.7 1 23173 6454 42 25552 1.7 1 19676 5876 43 25104 1.7 1 19240 5864 44 24448 1.7 1 19235 5213 45 22713 1.7 1 17921 4792 46 22249 1.7 1 17528 4721 47 22555 1.7 1 17671 4884 48 22783 1.7 1 17759 5024 49 19257 1.7 1 15280 3977 50 19354 1.7 1 15082 4272 51 19422 1.7 1 15262 4160 52 17361 1.7 1 13839 3522 53 16868 1.7 1 13345 3523 54 16615 1.7 1 13087 3528 55 15096 1.7 1 12048 3048 56 16074 1.7 1 12995 3079 57 12878 1.7 1 10310 2568 58 13632 1.7 1 10870 2762 59 16708 1.7 1 13575 3133 60 9622 1.7 1 7585 2037 61 11096 1.7 1 8951 2145 62 12426 1.7 1 10030 2396 63 10163 1.7 1 8124 2039 64 9485 1.7 1 7646 1839 65 17320 1.7 1 14219 3101 66 6699 1.7 1 5292 1407 67 5948 1.7 1 4731 1217 68 6311 1.7 1 5146 1165 69 8416 1.7 1 6873 1543 70 8040 1.7 1 6465 1575 71 6016 1.7 1 4891 1125 72 6495 1.7 1 5260 1235 73 6168 1.7 1 4928 1240 74 5721 1.7 1 4609 1112 75 8218 1.7 1 6652 1566 76 4749 1.7 1 3770 979 77 3356 1.7 1 2627 729 78 1547 1.7 1 1246 301 79 2214 1.7 1 1825 389 80 2598 1.7 1 2156 442 81 2542 1.7 1 2079 463 82 2402 1.7 1 1960 442 83 2172 1.7 1 1738 434 84 2005 1.7 1 1587 418 85 1861 1.7 1 1465 396 86 1735 1.7 1 1371 364 87 1530 1.7 1 1202 328 88 1423 1.7 1 1100 323 89 1189 1.7 1 924 265 90 1093 1.7 1 814 279 91 928 1.7 1 673 255 92 906 1.7 1 674 232 93 850 1.7 1 592 258 94 783 1.7 1 542 241 95 647 1.7 1 430 217 96 567 1.7 1 380 187 97 527 1.7 1 356 171 98 485 1.7 1 314 171 99 426 1.7 1 273 153 100 424 1.7 1 258 166 101 375 1.7 1 237 138 102 376 1.7 1 241 135 103 329 1.7 1 200 129 104 306 1.7 1 186 120 105 253 1.7 1 149 104 106 264 1.7 1 146 118 107 248 1.7 1 122 126 108 263 1.7 1 147 116 109 227 1.7 1 125 102 110 205 1.7 1 107 98 111 211 1.7 1 128 83 112 184 1.7 1 88 96 113 195 1.7 1 106 89 114 219 1.7 1 117 102 115 156 1.7 1 76 80 116 168 1.7 1 96 72 117 158 1.7 1 96 62 118 163 1.7 1 88 75 119 157 1.7 1 91 66 120 143 1.7 1 78 65 121 137 1.7 1 90 47 122 125 1.7 1 68 57 123 145 1.7 1 80 65 124 112 1.7 1 69 43 125 104 1.7 1 70 34 126 100 1.7 1 54 46 127 89 1.7 1 56 33 128 108 1.7 1 71 37 129 72 1.7 1 44 28 130 69 1.7 1 49 20 131 46 1.7 1 32 14 132 48 1.7 1 37 11 133 38 1.7 1 20 18 134 28 1.7 1 19 9 135 23 1.7 1 16 7 136 20 1.7 1 16 4 137 15 1.7 1 10 5 138 13 1.7 1 11 2 139 6 1.7 1 2 4 140 9 1.7 1 4 5 141 4 1.7 1 2 2 142 8 1.7 1 5 3 143 5 1.7 1 1 4 144 3 1.7 1 2 1 145 6 1.7 1 2 4 146 10 1.7 1 2 8 147 12 1.7 1 3 9 148 6 1.7 1 2 4 149 9 1.7 1 2 7 150 14 1.7 1 3 11 RUN STATISTICS FOR INPUT FILE: ERR13913488_2.fastq.gz ============================================= 113542853 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 113542853 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 18516 (0.02%)