SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913479_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: 10267). 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 ERR13913479_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2151.997 s (21.315 µs/read; 2.81 M reads/minute). === Summary === Total reads processed: 100,960,578 Reads with adapters: 51,225,781 (50.7%) Reads written (passing filters): 100,960,578 (100.0%) Total basepairs processed: 15,144,086,700 bp Quality-trimmed: 61,039,000 bp (0.4%) Total written (filtered): 14,997,183,063 bp (99.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 51225781 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.5% C: 17.3% G: 0.4% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 49657228 25240144.5 0 49657228 2 88423 6310036.1 0 88423 3 85124 1577509.0 0 85124 4 56841 394377.3 0 56841 5 49527 98594.3 0 49527 6 41640 24648.6 0 41640 7 43298 6162.1 0 43298 8 46655 1540.5 0 46655 9 35004 385.1 0 34990 14 10 41660 96.3 1 38983 2677 11 39729 24.1 1 36551 3178 12 38861 6.0 1 28723 10138 13 36462 1.5 1 26472 9990 14 39156 1.5 1 28494 10662 15 33604 1.5 1 24507 9097 16 34759 1.5 1 25485 9274 17 41909 1.5 1 30667 11242 18 26008 1.5 1 19206 6802 19 40786 1.5 1 30452 10334 20 29737 1.5 1 21695 8042 21 25172 1.5 1 18326 6846 22 29297 1.5 1 21568 7729 23 27979 1.5 1 20752 7227 24 32195 1.5 1 23764 8431 25 32738 1.5 1 24208 8530 26 20697 1.5 1 15461 5236 27 22836 1.5 1 16940 5896 28 26169 1.5 1 19744 6425 29 23729 1.5 1 17727 6002 30 24254 1.5 1 18331 5923 31 22352 1.5 1 16814 5538 32 21077 1.5 1 15933 5144 33 20482 1.5 1 15471 5011 34 19654 1.5 1 14901 4753 35 19999 1.5 1 15143 4856 36 18817 1.5 1 14243 4574 37 17883 1.5 1 13641 4242 38 20374 1.5 1 15758 4616 39 15198 1.5 1 11628 3570 40 13772 1.5 1 10501 3271 41 15584 1.5 1 11972 3612 42 12806 1.5 1 9907 2899 43 12688 1.5 1 9717 2971 44 13156 1.5 1 10278 2878 45 11146 1.5 1 8649 2497 46 12118 1.5 1 9389 2729 47 11029 1.5 1 8580 2449 48 11685 1.5 1 8971 2714 49 10202 1.5 1 8034 2168 50 8918 1.5 1 6872 2046 51 10421 1.5 1 8116 2305 52 7560 1.5 1 5942 1618 53 7998 1.5 1 6205 1793 54 7205 1.5 1 5537 1668 55 6763 1.5 1 5343 1420 56 8021 1.5 1 6355 1666 57 5325 1.5 1 4124 1201 58 6116 1.5 1 4848 1268 59 9075 1.5 1 7232 1843 60 4207 1.5 1 3266 941 61 4547 1.5 1 3607 940 62 5885 1.5 1 4724 1161 63 3588 1.5 1 2740 848 64 3939 1.5 1 3070 869 65 7713 1.5 1 6247 1466 66 2226 1.5 1 1730 496 67 2257 1.5 1 1781 476 68 2708 1.5 1 2176 532 69 3642 1.5 1 2948 694 70 3011 1.5 1 2328 683 71 2495 1.5 1 2001 494 72 2718 1.5 1 2169 549 73 2074 1.5 1 1605 469 74 2024 1.5 1 1585 439 75 2457 1.5 1 1887 570 76 2130 1.5 1 1619 511 77 1896 1.5 1 1418 478 78 578 1.5 1 414 164 79 760 1.5 1 599 161 80 1068 1.5 1 858 210 81 1091 1.5 1 863 228 82 973 1.5 1 772 201 83 936 1.5 1 702 234 84 773 1.5 1 598 175 85 783 1.5 1 606 177 86 724 1.5 1 543 181 87 648 1.5 1 477 171 88 583 1.5 1 421 162 89 564 1.5 1 395 169 90 492 1.5 1 357 135 91 492 1.5 1 336 156 92 450 1.5 1 297 153 93 385 1.5 1 268 117 94 354 1.5 1 233 121 95 348 1.5 1 235 113 96 324 1.5 1 210 114 97 319 1.5 1 181 138 98 289 1.5 1 177 112 99 285 1.5 1 170 115 100 252 1.5 1 155 97 101 239 1.5 1 143 96 102 222 1.5 1 127 95 103 196 1.5 1 119 77 104 250 1.5 1 169 81 105 173 1.5 1 91 82 106 165 1.5 1 93 72 107 173 1.5 1 96 77 108 160 1.5 1 91 69 109 127 1.5 1 72 55 110 142 1.5 1 86 56 111 124 1.5 1 65 59 112 131 1.5 1 83 48 113 150 1.5 1 90 60 114 144 1.5 1 67 77 115 100 1.5 1 61 39 116 136 1.5 1 73 63 117 104 1.5 1 59 45 118 114 1.5 1 63 51 119 77 1.5 1 45 32 120 100 1.5 1 52 48 121 89 1.5 1 49 40 122 95 1.5 1 53 42 123 53 1.5 1 27 26 124 78 1.5 1 56 22 125 71 1.5 1 42 29 126 75 1.5 1 44 31 127 62 1.5 1 37 25 128 56 1.5 1 44 12 129 49 1.5 1 33 16 130 28 1.5 1 19 9 131 31 1.5 1 23 8 132 31 1.5 1 18 13 133 27 1.5 1 16 11 134 16 1.5 1 14 2 135 9 1.5 1 4 5 136 11 1.5 1 7 4 137 4 1.5 1 0 4 138 12 1.5 1 9 3 139 6 1.5 1 4 2 140 5 1.5 1 2 3 141 4 1.5 1 3 1 142 3 1.5 1 1 2 143 7 1.5 1 4 3 144 4 1.5 1 2 2 145 4 1.5 1 2 2 146 6 1.5 1 4 2 147 6 1.5 1 4 2 148 7 1.5 1 2 5 149 8 1.5 1 3 5 150 8 1.5 1 1 7 RUN STATISTICS FOR INPUT FILE: ERR13913479_2.fastq.gz ============================================= 100960578 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 100960578 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 21354 (0.02%)