SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913467_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: 11731). 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 ERR13913467_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2228.347 s (22.720 µs/read; 2.64 M reads/minute). === Summary === Total reads processed: 98,078,887 Reads with adapters: 49,854,161 (50.8%) Reads written (passing filters): 98,078,887 (100.0%) Total basepairs processed: 14,711,833,050 bp Quality-trimmed: 66,698,267 bp (0.5%) Total written (filtered): 14,554,410,014 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 49854161 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.3% C: 17.1% G: 0.4% T: 30.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 48080769 24519721.8 0 48080769 2 110825 6129930.4 0 110825 3 100821 1532482.6 0 100821 4 65007 383120.7 0 65007 5 55704 95780.2 0 55704 6 41293 23945.0 0 41293 7 44509 5986.3 0 44509 8 46858 1496.6 0 46858 9 36175 374.1 0 36154 21 10 43937 93.5 1 40599 3338 11 42200 23.4 1 38188 4012 12 40838 5.8 1 28622 12216 13 39437 1.5 1 27419 12018 14 39826 1.5 1 27902 11924 15 37101 1.5 1 26002 11099 16 38328 1.5 1 26906 11422 17 43852 1.5 1 31120 12732 18 27112 1.5 1 19052 8060 19 45455 1.5 1 32533 12922 20 30406 1.5 1 21129 9277 21 27119 1.5 1 19129 7990 22 31714 1.5 1 22540 9174 23 30566 1.5 1 21947 8619 24 39497 1.5 1 28689 10808 25 32956 1.5 1 23450 9506 26 22749 1.5 1 16196 6553 27 25050 1.5 1 17950 7100 28 27733 1.5 1 20386 7347 29 26430 1.5 1 19090 7340 30 26746 1.5 1 19658 7088 31 24159 1.5 1 17581 6578 32 24715 1.5 1 18185 6530 33 24778 1.5 1 18234 6544 34 21427 1.5 1 15742 5685 35 23372 1.5 1 16975 6397 36 22096 1.5 1 16337 5759 37 19238 1.5 1 14136 5102 38 20197 1.5 1 14863 5334 39 18347 1.5 1 13832 4515 40 22343 1.5 1 16795 5548 41 17362 1.5 1 12885 4477 42 14654 1.5 1 10755 3899 43 15017 1.5 1 10989 4028 44 15240 1.5 1 11553 3687 45 14163 1.5 1 10642 3521 46 14041 1.5 1 10615 3426 47 13943 1.5 1 10571 3372 48 14006 1.5 1 10438 3568 49 11667 1.5 1 8915 2752 50 11681 1.5 1 8792 2889 51 11686 1.5 1 8766 2920 52 10256 1.5 1 7728 2528 53 10135 1.5 1 7635 2500 54 9989 1.5 1 7579 2410 55 8871 1.5 1 6802 2069 56 9312 1.5 1 7158 2154 57 7544 1.5 1 5734 1810 58 7987 1.5 1 6107 1880 59 9498 1.5 1 7383 2115 60 5483 1.5 1 4094 1389 61 6244 1.5 1 4796 1448 62 7068 1.5 1 5419 1649 63 5619 1.5 1 4204 1415 64 5194 1.5 1 3931 1263 65 9229 1.5 1 7229 2000 66 3602 1.5 1 2681 921 67 3377 1.5 1 2529 848 68 3400 1.5 1 2561 839 69 4623 1.5 1 3520 1103 70 4376 1.5 1 3264 1112 71 3085 1.5 1 2372 713 72 3502 1.5 1 2688 814 73 3262 1.5 1 2369 893 74 2952 1.5 1 2207 745 75 4124 1.5 1 3039 1085 76 2443 1.5 1 1737 706 77 1874 1.5 1 1284 590 78 783 1.5 1 550 233 79 1086 1.5 1 849 237 80 1251 1.5 1 942 309 81 1305 1.5 1 983 322 82 1328 1.5 1 966 362 83 1209 1.5 1 877 332 84 1196 1.5 1 839 357 85 1090 1.5 1 771 319 86 1000 1.5 1 664 336 87 967 1.5 1 665 302 88 800 1.5 1 541 259 89 800 1.5 1 509 291 90 758 1.5 1 483 275 91 713 1.5 1 441 272 92 670 1.5 1 416 254 93 659 1.5 1 403 256 94 573 1.5 1 362 211 95 526 1.5 1 311 215 96 489 1.5 1 277 212 97 530 1.5 1 293 237 98 482 1.5 1 280 202 99 421 1.5 1 242 179 100 397 1.5 1 230 167 101 400 1.5 1 204 196 102 348 1.5 1 178 170 103 404 1.5 1 206 198 104 354 1.5 1 190 164 105 347 1.5 1 168 179 106 326 1.5 1 174 152 107 289 1.5 1 162 127 108 268 1.5 1 148 120 109 272 1.5 1 142 130 110 250 1.5 1 127 123 111 252 1.5 1 130 122 112 225 1.5 1 114 111 113 249 1.5 1 140 109 114 251 1.5 1 128 123 115 183 1.5 1 94 89 116 220 1.5 1 115 105 117 168 1.5 1 98 70 118 198 1.5 1 111 87 119 181 1.5 1 94 87 120 169 1.5 1 93 76 121 167 1.5 1 89 78 122 160 1.5 1 83 77 123 145 1.5 1 95 50 124 141 1.5 1 79 62 125 117 1.5 1 68 49 126 114 1.5 1 62 52 127 118 1.5 1 70 48 128 85 1.5 1 49 36 129 97 1.5 1 58 39 130 76 1.5 1 60 16 131 53 1.5 1 26 27 132 54 1.5 1 36 18 133 38 1.5 1 23 15 134 44 1.5 1 35 9 135 32 1.5 1 16 16 136 21 1.5 1 15 6 137 12 1.5 1 7 5 138 11 1.5 1 6 5 139 14 1.5 1 8 6 140 15 1.5 1 11 4 141 11 1.5 1 10 1 142 9 1.5 1 8 1 144 10 1.5 1 0 10 145 10 1.5 1 4 6 146 9 1.5 1 6 3 147 6 1.5 1 1 5 148 6 1.5 1 4 2 149 3 1.5 1 1 2 150 2 1.5 1 1 1 RUN STATISTICS FOR INPUT FILE: ERR13913467_2.fastq.gz ============================================= 98078887 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 98078887 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 25270 (0.03%)