SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913471_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: 17156). 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 ERR13913471_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1667.400 s (18.034 µs/read; 3.33 M reads/minute). === Summary === Total reads processed: 92,457,337 Reads with adapters: 47,389,004 (51.3%) Reads written (passing filters): 92,457,337 (100.0%) Total basepairs processed: 13,868,600,550 bp Quality-trimmed: 55,489,207 bp (0.4%) Total written (filtered): 13,712,069,942 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 47389004 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% C: 17.1% G: 0.3% T: 29.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 45172018 23114334.2 0 45172018 2 99632 5778583.6 0 99632 3 93333 1444645.9 0 93333 4 71122 361161.5 0 71122 5 63019 90290.4 0 63019 6 54275 22572.6 0 54275 7 60561 5643.1 0 60561 8 62864 1410.8 0 62864 9 41260 352.7 0 41243 17 10 57177 88.2 1 52639 4538 11 53436 22.0 1 48985 4451 12 51217 5.5 1 37762 13455 13 49180 1.4 1 34771 14409 14 54723 1.4 1 38425 16298 15 44974 1.4 1 31701 13273 16 47531 1.4 1 33749 13782 17 59417 1.4 1 42026 17391 18 33115 1.4 1 23789 9326 19 61134 1.4 1 43827 17307 20 38933 1.4 1 27824 11109 21 33607 1.4 1 24245 9362 22 41432 1.4 1 29529 11903 23 40484 1.4 1 28957 11527 24 52186 1.4 1 37579 14607 25 46546 1.4 1 33488 13058 26 27597 1.4 1 20118 7479 27 28971 1.4 1 21203 7768 28 37393 1.4 1 27237 10156 29 33293 1.4 1 24496 8797 30 36236 1.4 1 26560 9676 31 30693 1.4 1 22442 8251 32 32171 1.4 1 23659 8512 33 31128 1.4 1 23045 8083 34 30111 1.4 1 22502 7609 35 28435 1.4 1 21155 7280 36 29759 1.4 1 22056 7703 37 28300 1.4 1 21220 7080 38 25419 1.4 1 19047 6372 39 24914 1.4 1 18909 6005 40 26057 1.4 1 19511 6546 41 26200 1.4 1 19831 6369 42 23344 1.4 1 17704 5640 43 17366 1.4 1 13314 4052 44 21304 1.4 1 16215 5089 45 19103 1.4 1 14732 4371 46 19306 1.4 1 14750 4556 47 18934 1.4 1 14361 4573 48 18140 1.4 1 13848 4292 49 16829 1.4 1 13033 3796 50 16122 1.4 1 12427 3695 51 16075 1.4 1 12335 3740 52 14424 1.4 1 11198 3226 53 14502 1.4 1 11297 3205 54 13653 1.4 1 10575 3078 55 12472 1.4 1 9669 2803 56 13162 1.4 1 10287 2875 57 10677 1.4 1 8334 2343 58 11244 1.4 1 8815 2429 59 12556 1.4 1 9929 2627 60 8175 1.4 1 6424 1751 61 9265 1.4 1 7325 1940 62 9806 1.4 1 7751 2055 63 8184 1.4 1 6466 1718 64 7619 1.4 1 6089 1530 65 12876 1.4 1 10325 2551 66 5549 1.4 1 4375 1174 67 4908 1.4 1 3883 1025 68 4938 1.4 1 4002 936 69 6586 1.4 1 5314 1272 70 6262 1.4 1 4938 1324 71 4737 1.4 1 3798 939 72 5020 1.4 1 4049 971 73 4547 1.4 1 3616 931 74 4263 1.4 1 3415 848 75 5177 1.4 1 4142 1035 76 3698 1.4 1 3010 688 77 2814 1.4 1 2215 599 78 801 1.4 1 620 181 79 1824 1.4 1 1511 313 80 2095 1.4 1 1691 404 81 1936 1.4 1 1594 342 82 1760 1.4 1 1465 295 83 1669 1.4 1 1335 334 84 1386 1.4 1 1133 253 85 1450 1.4 1 1161 289 86 1215 1.4 1 980 235 87 1083 1.4 1 855 228 88 1026 1.4 1 815 211 89 822 1.4 1 648 174 90 732 1.4 1 580 152 91 639 1.4 1 499 140 92 601 1.4 1 474 127 93 519 1.4 1 377 142 94 507 1.4 1 391 116 95 417 1.4 1 310 107 96 372 1.4 1 251 121 97 340 1.4 1 227 113 98 302 1.4 1 210 92 99 261 1.4 1 171 90 100 250 1.4 1 162 88 101 225 1.4 1 155 70 102 208 1.4 1 134 74 103 178 1.4 1 129 49 104 167 1.4 1 103 64 105 160 1.4 1 102 58 106 165 1.4 1 97 68 107 137 1.4 1 88 49 108 128 1.4 1 74 54 109 121 1.4 1 69 52 110 123 1.4 1 71 52 111 97 1.4 1 52 45 112 116 1.4 1 54 62 113 120 1.4 1 60 60 114 102 1.4 1 64 38 115 102 1.4 1 59 43 116 88 1.4 1 51 37 117 91 1.4 1 47 44 118 79 1.4 1 44 35 119 82 1.4 1 50 32 120 86 1.4 1 49 37 121 81 1.4 1 59 22 122 90 1.4 1 51 39 123 67 1.4 1 33 34 124 65 1.4 1 42 23 125 66 1.4 1 40 26 126 55 1.4 1 37 18 127 67 1.4 1 41 26 128 54 1.4 1 34 20 129 60 1.4 1 41 19 130 57 1.4 1 41 16 131 26 1.4 1 16 10 132 39 1.4 1 32 7 133 24 1.4 1 17 7 134 27 1.4 1 17 10 135 23 1.4 1 16 7 136 12 1.4 1 9 3 137 14 1.4 1 8 6 138 10 1.4 1 3 7 139 11 1.4 1 5 6 140 8 1.4 1 5 3 141 7 1.4 1 5 2 142 11 1.4 1 6 5 143 3 1.4 1 1 2 144 16 1.4 1 10 6 145 12 1.4 1 4 8 146 2 1.4 1 0 2 147 5 1.4 1 3 2 148 6 1.4 1 3 3 149 7 1.4 1 2 5 150 7 1.4 1 4 3 RUN STATISTICS FOR INPUT FILE: ERR13913471_2.fastq.gz ============================================= 92457337 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 92457337 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 20016 (0.02%)