SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913493_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: 14006). 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 ERR13913493_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2380.966 s (20.510 µs/read; 2.93 M reads/minute). === Summary === Total reads processed: 116,088,097 Reads with adapters: 59,458,270 (51.2%) Reads written (passing filters): 116,088,097 (100.0%) Total basepairs processed: 17,413,214,550 bp Quality-trimmed: 71,440,849 bp (0.4%) Total written (filtered): 17,226,624,756 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 59458270 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.4% C: 17.2% G: 0.4% T: 30.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 57040812 29022024.2 0 57040812 2 132208 7255506.1 0 132208 3 120730 1813876.5 0 120730 4 87700 453469.1 0 87700 5 77174 113367.3 0 77174 6 58769 28341.8 0 58769 7 64284 7085.5 0 64284 8 68487 1771.4 0 68487 9 50751 442.8 0 50733 18 10 62189 110.7 1 57433 4756 11 60368 27.7 1 54811 5557 12 56719 6.9 1 39704 17015 13 55063 1.7 1 38070 16993 14 58842 1.7 1 41010 17832 15 50237 1.7 1 35094 15143 16 52367 1.7 1 36427 15940 17 63163 1.7 1 44134 19029 18 37212 1.7 1 25929 11283 19 64433 1.7 1 45925 18508 20 41967 1.7 1 28907 13060 21 37018 1.7 1 25876 11142 22 43999 1.7 1 31085 12914 23 42813 1.7 1 30508 12305 24 56763 1.7 1 41049 15714 25 47605 1.7 1 33237 14368 26 30547 1.7 1 21782 8765 27 31100 1.7 1 22133 8967 28 41650 1.7 1 30576 11074 29 34148 1.7 1 24395 9753 30 41869 1.7 1 30449 11420 31 28866 1.7 1 20651 8215 32 39311 1.7 1 28932 10379 33 27054 1.7 1 19419 7635 34 36703 1.7 1 27240 9463 35 25114 1.7 1 18097 7017 36 29388 1.7 1 21445 7943 37 38571 1.7 1 28924 9647 38 23849 1.7 1 17253 6596 39 20946 1.7 1 15497 5449 40 30874 1.7 1 23312 7562 41 23292 1.7 1 17039 6253 42 19283 1.7 1 14383 4900 43 20801 1.7 1 15309 5492 44 20590 1.7 1 15382 5208 45 19724 1.7 1 14817 4907 46 18994 1.7 1 14207 4787 47 18882 1.7 1 14106 4776 48 19171 1.7 1 14256 4915 49 16098 1.7 1 12172 3926 50 15855 1.7 1 11810 4045 51 16051 1.7 1 11980 4071 52 13923 1.7 1 10613 3310 53 13893 1.7 1 10418 3475 54 13390 1.7 1 10099 3291 55 11801 1.7 1 9051 2750 56 12643 1.7 1 9744 2899 57 10448 1.7 1 7957 2491 58 10780 1.7 1 8248 2532 59 12797 1.7 1 9915 2882 60 7933 1.7 1 5944 1989 61 8606 1.7 1 6557 2049 62 9398 1.7 1 7294 2104 63 7438 1.7 1 5673 1765 64 6962 1.7 1 5366 1596 65 11919 1.7 1 9338 2581 66 5100 1.7 1 3825 1275 67 4524 1.7 1 3474 1050 68 4687 1.7 1 3583 1104 69 6153 1.7 1 4819 1334 70 5811 1.7 1 4377 1434 71 4381 1.7 1 3393 988 72 4780 1.7 1 3671 1109 73 4549 1.7 1 3427 1122 74 4061 1.7 1 3065 996 75 5702 1.7 1 4318 1384 76 3330 1.7 1 2457 873 77 2288 1.7 1 1664 624 78 964 1.7 1 710 254 79 1468 1.7 1 1139 329 80 1839 1.7 1 1421 418 81 1809 1.7 1 1382 427 82 1673 1.7 1 1247 426 83 1615 1.7 1 1220 395 84 1540 1.7 1 1093 447 85 1466 1.7 1 1081 385 86 1251 1.7 1 900 351 87 1195 1.7 1 867 328 88 1042 1.7 1 729 313 89 958 1.7 1 675 283 90 931 1.7 1 615 316 91 784 1.7 1 530 254 92 757 1.7 1 493 264 93 696 1.7 1 441 255 94 667 1.7 1 434 233 95 546 1.7 1 356 190 96 495 1.7 1 295 200 97 515 1.7 1 293 222 98 496 1.7 1 288 208 99 442 1.7 1 242 200 100 427 1.7 1 259 168 101 406 1.7 1 226 180 102 406 1.7 1 220 186 103 362 1.7 1 193 169 104 329 1.7 1 164 165 105 334 1.7 1 186 148 106 270 1.7 1 144 126 107 293 1.7 1 152 141 108 265 1.7 1 139 126 109 278 1.7 1 162 116 110 254 1.7 1 135 119 111 227 1.7 1 113 114 112 219 1.7 1 123 96 113 238 1.7 1 126 112 114 218 1.7 1 117 101 115 188 1.7 1 86 102 116 191 1.7 1 109 82 117 172 1.7 1 93 79 118 193 1.7 1 104 89 119 158 1.7 1 78 80 120 205 1.7 1 117 88 121 156 1.7 1 82 74 122 188 1.7 1 105 83 123 152 1.7 1 85 67 124 129 1.7 1 79 50 125 166 1.7 1 101 65 126 148 1.7 1 87 61 127 115 1.7 1 66 49 128 124 1.7 1 69 55 129 105 1.7 1 58 47 130 95 1.7 1 58 37 131 62 1.7 1 42 20 132 60 1.7 1 39 21 133 45 1.7 1 24 21 134 33 1.7 1 22 11 135 26 1.7 1 18 8 136 41 1.7 1 23 18 137 12 1.7 1 7 5 138 15 1.7 1 11 4 139 14 1.7 1 9 5 140 15 1.7 1 11 4 141 7 1.7 1 4 3 142 13 1.7 1 8 5 143 6 1.7 1 1 5 144 7 1.7 1 5 2 145 12 1.7 1 5 7 146 6 1.7 1 2 4 147 13 1.7 1 7 6 148 8 1.7 1 2 6 149 5 1.7 1 0 5 150 9 1.7 1 1 8 RUN STATISTICS FOR INPUT FILE: ERR13913493_2.fastq.gz ============================================= 116088097 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 116088097 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 24495 (0.02%)