SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913480_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: 23597). 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 ERR13913480_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1666.069 s (19.737 µs/read; 3.04 M reads/minute). === Summary === Total reads processed: 84,413,993 Reads with adapters: 43,757,714 (51.8%) Reads written (passing filters): 84,413,993 (100.0%) Total basepairs processed: 12,662,098,950 bp Quality-trimmed: 46,336,811 bp (0.4%) Total written (filtered): 12,504,666,881 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 43757714 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% C: 17.2% G: 0.3% T: 29.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 41098918 21103498.2 0 41098918 2 105763 5275874.6 0 105763 3 97311 1318968.6 0 97311 4 78246 329742.2 0 78246 5 72115 82435.5 0 72115 6 63147 20608.9 0 63147 7 67031 5152.2 0 67031 8 70856 1288.1 0 70856 9 53744 322.0 0 53714 30 10 64614 80.5 1 60522 4092 11 62198 20.1 1 57614 4584 12 61162 5.0 1 44237 16925 13 58080 1.3 1 41133 16947 14 62876 1.3 1 44754 18122 15 53630 1.3 1 38237 15393 16 55078 1.3 1 39290 15788 17 69958 1.3 1 50189 19769 18 40568 1.3 1 29053 11515 19 70315 1.3 1 51302 19013 20 46715 1.3 1 33471 13244 21 40445 1.3 1 29137 11308 22 48901 1.3 1 35388 13513 23 48196 1.3 1 34956 13240 24 62737 1.3 1 45702 17035 25 55212 1.3 1 39883 15329 26 33616 1.3 1 24757 8859 27 35337 1.3 1 25889 9448 28 46252 1.3 1 33959 12293 29 40089 1.3 1 29777 10312 30 44700 1.3 1 33191 11509 31 37383 1.3 1 27709 9674 32 39733 1.3 1 29534 10199 33 39747 1.3 1 29626 10121 34 35500 1.3 1 26396 9104 35 35293 1.3 1 26692 8601 36 35639 1.3 1 26906 8733 37 33085 1.3 1 24931 8154 38 32678 1.3 1 24849 7829 39 31943 1.3 1 24149 7794 40 31738 1.3 1 24266 7472 41 29738 1.3 1 22559 7179 42 27296 1.3 1 20912 6384 43 26916 1.3 1 20582 6334 44 28274 1.3 1 21623 6651 45 23513 1.3 1 18126 5387 46 24834 1.3 1 19225 5609 47 24379 1.3 1 18629 5750 48 23080 1.3 1 17760 5320 49 21737 1.3 1 16999 4738 50 21063 1.3 1 16381 4682 51 20782 1.3 1 16221 4561 52 18688 1.3 1 14676 4012 53 18753 1.3 1 14759 3994 54 17720 1.3 1 13885 3835 55 16497 1.3 1 13019 3478 56 18195 1.3 1 14429 3766 57 13512 1.3 1 10622 2890 58 14871 1.3 1 11752 3119 59 16437 1.3 1 13185 3252 60 11690 1.3 1 9232 2458 61 12611 1.3 1 10038 2573 62 12976 1.3 1 10420 2556 63 11183 1.3 1 9006 2177 64 10364 1.3 1 8352 2012 65 17471 1.3 1 14221 3250 66 7293 1.3 1 5702 1591 67 6846 1.3 1 5483 1363 68 6822 1.3 1 5556 1266 69 9172 1.3 1 7467 1705 70 8430 1.3 1 6863 1567 71 6463 1.3 1 5285 1178 72 6906 1.3 1 5595 1311 73 6537 1.3 1 5345 1192 74 5915 1.3 1 4837 1078 75 7288 1.3 1 5907 1381 76 5308 1.3 1 4313 995 77 4106 1.3 1 3316 790 78 1221 1.3 1 987 234 79 2536 1.3 1 2096 440 80 2806 1.3 1 2319 487 81 2715 1.3 1 2206 509 82 2601 1.3 1 2168 433 83 2269 1.3 1 1902 367 84 2097 1.3 1 1714 383 85 1844 1.3 1 1493 351 86 1659 1.3 1 1332 327 87 1556 1.3 1 1283 273 88 1285 1.3 1 1021 264 89 1168 1.3 1 933 235 90 986 1.3 1 794 192 91 889 1.3 1 700 189 92 760 1.3 1 590 170 93 629 1.3 1 496 133 94 590 1.3 1 445 145 95 524 1.3 1 399 125 96 417 1.3 1 301 116 97 386 1.3 1 272 114 98 318 1.3 1 232 86 99 291 1.3 1 208 83 100 253 1.3 1 165 88 101 259 1.3 1 183 76 102 228 1.3 1 156 72 103 208 1.3 1 142 66 104 194 1.3 1 130 64 105 166 1.3 1 100 66 106 143 1.3 1 87 56 107 161 1.3 1 97 64 108 135 1.3 1 91 44 109 107 1.3 1 63 44 110 131 1.3 1 78 53 111 105 1.3 1 63 42 112 130 1.3 1 88 42 113 111 1.3 1 64 47 114 114 1.3 1 70 44 115 101 1.3 1 62 39 116 97 1.3 1 53 44 117 87 1.3 1 56 31 118 83 1.3 1 54 29 119 81 1.3 1 50 31 120 86 1.3 1 48 38 121 81 1.3 1 44 37 122 69 1.3 1 40 29 123 66 1.3 1 44 22 124 81 1.3 1 49 32 125 70 1.3 1 43 27 126 72 1.3 1 46 26 127 48 1.3 1 24 24 128 43 1.3 1 30 13 129 36 1.3 1 23 13 130 48 1.3 1 33 15 131 57 1.3 1 44 13 132 34 1.3 1 22 12 133 29 1.3 1 18 11 134 46 1.3 1 34 12 135 23 1.3 1 16 7 136 29 1.3 1 16 13 137 13 1.3 1 7 6 138 11 1.3 1 10 1 139 13 1.3 1 9 4 140 13 1.3 1 9 4 141 13 1.3 1 8 5 142 3 1.3 1 3 143 8 1.3 1 4 4 144 5 1.3 1 3 2 145 12 1.3 1 9 3 146 11 1.3 1 6 5 147 11 1.3 1 6 5 148 8 1.3 1 6 2 149 8 1.3 1 4 4 150 11 1.3 1 3 8 RUN STATISTICS FOR INPUT FILE: ERR13913480_2.fastq.gz ============================================= 84413993 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 84413993 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 16127 (0.02%)