SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913478_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: 19699). 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 ERR13913478_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2186.211 s (21.525 µs/read; 2.79 M reads/minute). === Summary === Total reads processed: 101,568,210 Reads with adapters: 52,522,696 (51.7%) Reads written (passing filters): 101,568,210 (100.0%) Total basepairs processed: 15,235,231,500 bp Quality-trimmed: 60,781,602 bp (0.4%) Total written (filtered): 15,049,170,611 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 52522696 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% C: 17.4% G: 0.4% T: 29.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 49583951 25392052.5 0 49583951 2 130839 6348013.1 0 130839 3 120129 1587003.3 0 120129 4 92616 396750.8 0 92616 5 86438 99187.7 0 86438 6 69876 24796.9 0 69876 7 74397 6199.2 0 74397 8 79096 1549.8 0 79096 9 62619 387.5 0 62593 26 10 72542 96.9 1 67784 4758 11 71652 24.2 1 65542 6110 12 67472 6.1 1 48020 19452 13 65913 1.5 1 45994 19919 14 67106 1.5 1 47546 19560 15 60557 1.5 1 43019 17538 16 62693 1.5 1 44133 18560 17 74094 1.5 1 52893 21201 18 46664 1.5 1 33379 13285 19 76091 1.5 1 55193 20898 20 51820 1.5 1 36554 15266 21 46048 1.5 1 33025 13023 22 53233 1.5 1 38400 14833 23 51116 1.5 1 36980 14136 24 66336 1.5 1 48306 18030 25 57218 1.5 1 40909 16309 26 37681 1.5 1 27314 10367 27 40368 1.5 1 29316 11052 28 49012 1.5 1 36252 12760 29 44398 1.5 1 32370 12028 30 47653 1.5 1 35017 12636 31 42750 1.5 1 31672 11078 32 42393 1.5 1 31416 10977 33 42159 1.5 1 31306 10853 34 41524 1.5 1 30971 10553 35 34802 1.5 1 25935 8867 36 37134 1.5 1 27652 9482 37 47359 1.5 1 36340 11019 38 28219 1.5 1 21070 7149 39 31032 1.5 1 23108 7924 40 30105 1.5 1 22590 7515 41 31199 1.5 1 23545 7654 42 32753 1.5 1 24979 7774 43 25221 1.5 1 18989 6232 44 28309 1.5 1 21590 6719 45 25696 1.5 1 19613 6083 46 25360 1.5 1 19528 5832 47 25675 1.5 1 19644 6031 48 25122 1.5 1 19183 5939 49 22382 1.5 1 17334 5048 50 21633 1.5 1 16626 5007 51 22202 1.5 1 16976 5226 52 19938 1.5 1 15505 4433 53 19416 1.5 1 15026 4390 54 18859 1.5 1 14536 4323 55 17195 1.5 1 13554 3641 56 18048 1.5 1 14200 3848 57 14668 1.5 1 11501 3167 58 15465 1.5 1 12155 3310 59 17612 1.5 1 14007 3605 60 12349 1.5 1 9695 2654 61 13812 1.5 1 10875 2937 62 13731 1.5 1 10903 2828 63 11806 1.5 1 9233 2573 64 11054 1.5 1 8745 2309 65 18950 1.5 1 15295 3655 66 7694 1.5 1 5988 1706 67 6981 1.5 1 5474 1507 68 7024 1.5 1 5680 1344 69 9463 1.5 1 7603 1860 70 9075 1.5 1 7170 1905 71 6960 1.5 1 5656 1304 72 7486 1.5 1 6133 1353 73 7047 1.5 1 5652 1395 74 6645 1.5 1 5265 1380 75 9359 1.5 1 7481 1878 76 5544 1.5 1 4417 1127 77 3786 1.5 1 2920 866 78 1652 1.5 1 1293 359 79 2546 1.5 1 2064 482 80 3019 1.5 1 2437 582 81 2889 1.5 1 2391 498 82 2786 1.5 1 2279 507 83 2588 1.5 1 2071 517 84 2277 1.5 1 1825 452 85 2093 1.5 1 1677 416 86 1963 1.5 1 1574 389 87 1714 1.5 1 1376 338 88 1560 1.5 1 1229 331 89 1349 1.5 1 1044 305 90 1156 1.5 1 867 289 91 1123 1.5 1 838 285 92 971 1.5 1 746 225 93 825 1.5 1 610 215 94 682 1.5 1 490 192 95 664 1.5 1 462 202 96 576 1.5 1 409 167 97 537 1.5 1 389 148 98 484 1.5 1 315 169 99 412 1.5 1 267 145 100 409 1.5 1 261 148 101 394 1.5 1 258 136 102 363 1.5 1 224 139 103 297 1.5 1 187 110 104 281 1.5 1 166 115 105 229 1.5 1 127 102 106 240 1.5 1 148 92 107 232 1.5 1 128 104 108 245 1.5 1 129 116 109 183 1.5 1 98 85 110 189 1.5 1 108 81 111 162 1.5 1 93 69 112 189 1.5 1 106 83 113 174 1.5 1 83 91 114 167 1.5 1 84 83 115 169 1.5 1 93 76 116 163 1.5 1 98 65 117 159 1.5 1 96 63 118 152 1.5 1 79 73 119 148 1.5 1 88 60 120 152 1.5 1 93 59 121 121 1.5 1 70 51 122 131 1.5 1 64 67 123 121 1.5 1 72 49 124 113 1.5 1 68 45 125 124 1.5 1 79 45 126 108 1.5 1 69 39 127 91 1.5 1 61 30 128 89 1.5 1 61 28 129 73 1.5 1 48 25 130 70 1.5 1 50 20 131 52 1.5 1 36 16 132 52 1.5 1 36 16 133 45 1.5 1 27 18 134 51 1.5 1 38 13 135 49 1.5 1 35 14 136 33 1.5 1 17 16 137 26 1.5 1 13 13 138 15 1.5 1 13 2 139 14 1.5 1 13 1 140 16 1.5 1 11 5 141 11 1.5 1 5 6 142 5 1.5 1 3 2 143 11 1.5 1 6 5 144 10 1.5 1 6 4 145 17 1.5 1 11 6 146 7 1.5 1 3 4 147 19 1.5 1 11 8 148 10 1.5 1 3 7 149 9 1.5 1 3 6 150 16 1.5 1 5 11 RUN STATISTICS FOR INPUT FILE: ERR13913478_2.fastq.gz ============================================= 101568210 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 101568210 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 18131 (0.02%)