SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913484_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: 24901). 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 ERR13913484_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2290.570 s (21.273 µs/read; 2.82 M reads/minute). === Summary === Total reads processed: 107,677,452 Reads with adapters: 55,803,400 (51.8%) Reads written (passing filters): 107,677,452 (100.0%) Total basepairs processed: 16,151,617,800 bp Quality-trimmed: 64,108,747 bp (0.4%) Total written (filtered): 15,935,577,069 bp (98.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 55803400 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.4% C: 17.4% G: 0.3% T: 29.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 52109728 26919363.0 0 52109728 2 142592 6729840.8 0 142592 3 138575 1682460.2 0 138575 4 106452 420615.0 0 106452 5 99611 105153.8 0 99611 6 80149 26288.4 0 80149 7 85929 6572.1 0 85929 8 90863 1643.0 0 90863 9 72795 410.8 0 72770 25 10 85841 102.7 1 79955 5886 11 83418 25.7 1 76290 7128 12 81721 6.4 1 57296 24425 13 78650 1.6 1 54850 23800 14 85851 1.6 1 60769 25082 15 70292 1.6 1 49796 20496 16 75732 1.6 1 53220 22512 17 87432 1.6 1 61904 25528 18 59289 1.6 1 42160 17129 19 78867 1.6 1 56455 22412 20 72918 1.6 1 51932 20986 21 64506 1.6 1 46084 18422 22 67172 1.6 1 48359 18813 23 65319 1.6 1 47155 18164 24 74813 1.6 1 54426 20387 25 72631 1.6 1 52329 20302 26 51274 1.6 1 37256 14018 27 59299 1.6 1 42919 16380 28 59981 1.6 1 44154 15827 29 58649 1.6 1 42907 15742 30 58015 1.6 1 42860 15155 31 55511 1.6 1 40876 14635 32 54397 1.6 1 40309 14088 33 55877 1.6 1 41435 14442 34 51037 1.6 1 37850 13187 35 53198 1.6 1 39209 13989 36 48152 1.6 1 35844 12308 37 50699 1.6 1 38212 12487 38 44519 1.6 1 33236 11283 39 52211 1.6 1 39495 12716 40 39909 1.6 1 29858 10051 41 41890 1.6 1 31925 9965 42 40106 1.6 1 30344 9762 43 39350 1.6 1 29811 9539 44 41997 1.6 1 32371 9626 45 32776 1.6 1 25056 7720 46 36105 1.6 1 27765 8340 47 35196 1.6 1 26843 8353 48 34483 1.6 1 26615 7868 49 31390 1.6 1 24530 6860 50 30860 1.6 1 23724 7136 51 30467 1.6 1 23584 6883 52 27879 1.6 1 21812 6067 53 27598 1.6 1 21371 6227 54 27326 1.6 1 21328 5998 55 24589 1.6 1 19339 5250 56 26729 1.6 1 21290 5439 57 20921 1.6 1 16403 4518 58 22491 1.6 1 17728 4763 59 27677 1.6 1 22206 5471 60 15621 1.6 1 12166 3455 61 17911 1.6 1 14127 3784 62 19854 1.6 1 15909 3945 63 16527 1.6 1 13127 3400 64 15731 1.6 1 12493 3238 65 28271 1.6 1 23038 5233 66 10817 1.6 1 8477 2340 67 9791 1.6 1 7830 1961 68 9885 1.6 1 8002 1883 69 13766 1.6 1 11179 2587 70 12835 1.6 1 10265 2570 71 9613 1.6 1 7816 1797 72 10039 1.6 1 8243 1796 73 9519 1.6 1 7606 1913 74 8723 1.6 1 7074 1649 75 12057 1.6 1 9705 2352 76 6917 1.6 1 5560 1357 77 4864 1.6 1 3861 1003 78 2250 1.6 1 1825 425 79 3399 1.6 1 2826 573 80 3813 1.6 1 3161 652 81 3608 1.6 1 2998 610 82 3408 1.6 1 2802 606 83 3218 1.6 1 2623 595 84 2831 1.6 1 2282 549 85 2562 1.6 1 2019 543 86 2305 1.6 1 1849 456 87 1969 1.6 1 1605 364 88 1762 1.6 1 1386 376 89 1521 1.6 1 1165 356 90 1264 1.6 1 969 295 91 1118 1.6 1 813 305 92 1090 1.6 1 822 268 93 881 1.6 1 655 226 94 861 1.6 1 612 249 95 686 1.6 1 494 192 96 589 1.6 1 406 183 97 550 1.6 1 381 169 98 515 1.6 1 356 159 99 432 1.6 1 279 153 100 461 1.6 1 279 182 101 394 1.6 1 236 158 102 327 1.6 1 188 139 103 311 1.6 1 182 129 104 285 1.6 1 164 121 105 264 1.6 1 158 106 106 248 1.6 1 137 111 107 246 1.6 1 140 106 108 222 1.6 1 121 101 109 196 1.6 1 116 80 110 224 1.6 1 100 124 111 226 1.6 1 123 103 112 202 1.6 1 89 113 113 190 1.6 1 101 89 114 179 1.6 1 102 77 115 175 1.6 1 89 86 116 140 1.6 1 68 72 117 144 1.6 1 78 66 118 150 1.6 1 78 72 119 134 1.6 1 84 50 120 173 1.6 1 88 85 121 127 1.6 1 74 53 122 130 1.6 1 71 59 123 132 1.6 1 65 67 124 124 1.6 1 77 47 125 117 1.6 1 62 55 126 94 1.6 1 48 46 127 105 1.6 1 62 43 128 87 1.6 1 54 33 129 68 1.6 1 43 25 130 76 1.6 1 42 34 131 48 1.6 1 29 19 132 51 1.6 1 36 15 133 29 1.6 1 18 11 134 37 1.6 1 23 14 135 27 1.6 1 20 7 136 33 1.6 1 24 9 137 17 1.6 1 9 8 138 16 1.6 1 10 6 139 21 1.6 1 10 11 140 8 1.6 1 3 5 141 3 1.6 1 1 2 142 11 1.6 1 9 2 143 7 1.6 1 4 3 144 7 1.6 1 4 3 145 7 1.6 1 5 2 146 7 1.6 1 4 3 147 9 1.6 1 5 4 148 10 1.6 1 7 3 149 13 1.6 1 4 9 150 11 1.6 1 3 8 RUN STATISTICS FOR INPUT FILE: ERR13913484_2.fastq.gz ============================================= 107677452 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 107677452 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 24572 (0.02%)