SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913465_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: 16165). Second best hit was Nextera (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 ERR13913465_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2100.573 s (21.223 µs/read; 2.83 M reads/minute). === Summary === Total reads processed: 98,977,739 Reads with adapters: 49,986,904 (50.5%) Reads written (passing filters): 98,977,739 (100.0%) Total basepairs processed: 14,846,660,850 bp Quality-trimmed: 71,684,865 bp (0.5%) Total written (filtered): 14,670,034,607 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 49986904 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.9% C: 17.5% G: 0.4% T: 30.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 47759252 24744434.8 0 47759252 2 130983 6186108.7 0 130983 3 115806 1546527.2 0 115806 4 74627 386631.8 0 74627 5 63640 96657.9 0 63640 6 48701 24164.5 0 48701 7 53363 6041.1 0 53363 8 54978 1510.3 0 54978 9 42110 377.6 0 42091 19 10 51801 94.4 1 48089 3712 11 49722 23.6 1 45468 4254 12 48235 5.9 1 35036 13199 13 47113 1.5 1 33476 13637 14 49191 1.5 1 35421 13770 15 42790 1.5 1 30795 11995 16 45620 1.5 1 32656 12964 17 52814 1.5 1 38105 14709 18 33974 1.5 1 24628 9346 19 56766 1.5 1 41761 15005 20 36664 1.5 1 25924 10740 21 33133 1.5 1 24064 9069 22 39636 1.5 1 28851 10785 23 38358 1.5 1 27979 10379 24 49825 1.5 1 36728 13097 25 41022 1.5 1 29657 11365 26 27259 1.5 1 19996 7263 27 30959 1.5 1 22603 8356 28 36118 1.5 1 26836 9282 29 32492 1.5 1 24029 8463 30 36022 1.5 1 26766 9256 31 28780 1.5 1 21309 7471 32 35872 1.5 1 27029 8843 33 25161 1.5 1 18536 6625 34 36484 1.5 1 27791 8693 35 26725 1.5 1 19710 7015 36 22486 1.5 1 16901 5585 37 25963 1.5 1 19588 6375 38 33417 1.5 1 25560 7857 39 21315 1.5 1 15811 5504 40 21897 1.5 1 16476 5421 41 21993 1.5 1 16529 5464 42 22657 1.5 1 17206 5451 43 20720 1.5 1 15547 5173 44 21018 1.5 1 16016 5002 45 19229 1.5 1 14687 4542 46 19017 1.5 1 14516 4501 47 19079 1.5 1 14545 4534 48 18700 1.5 1 14339 4361 49 16740 1.5 1 13045 3695 50 15837 1.5 1 12071 3766 51 15845 1.5 1 12154 3691 52 14751 1.5 1 11484 3267 53 14322 1.5 1 11031 3291 54 14068 1.5 1 10856 3212 55 12757 1.5 1 9908 2849 56 13656 1.5 1 10704 2952 57 11267 1.5 1 8732 2535 58 11556 1.5 1 9009 2547 59 14640 1.5 1 11593 3047 60 7787 1.5 1 5946 1841 61 9449 1.5 1 7425 2024 62 10488 1.5 1 8294 2194 63 8629 1.5 1 6596 2033 64 8182 1.5 1 6373 1809 65 15309 1.5 1 12180 3129 66 5675 1.5 1 4285 1390 67 5198 1.5 1 4049 1149 68 5529 1.5 1 4306 1223 69 7301 1.5 1 5728 1573 70 7110 1.5 1 5550 1560 71 5380 1.5 1 4239 1141 72 5896 1.5 1 4661 1235 73 5679 1.5 1 4415 1264 74 5389 1.5 1 4146 1243 75 7519 1.5 1 5927 1592 76 4342 1.5 1 3336 1006 77 3139 1.5 1 2391 748 78 1359 1.5 1 1047 312 79 2111 1.5 1 1702 409 80 2584 1.5 1 2075 509 81 2521 1.5 1 2017 504 82 2416 1.5 1 1914 502 83 2321 1.5 1 1804 517 84 2113 1.5 1 1633 480 85 2081 1.5 1 1612 469 86 1937 1.5 1 1505 432 87 1706 1.5 1 1262 444 88 1558 1.5 1 1158 400 89 1365 1.5 1 1016 349 90 1255 1.5 1 942 313 91 1161 1.5 1 846 315 92 1084 1.5 1 798 286 93 930 1.5 1 674 256 94 861 1.5 1 613 248 95 821 1.5 1 555 266 96 677 1.5 1 476 201 97 625 1.5 1 417 208 98 591 1.5 1 387 204 99 529 1.5 1 336 193 100 492 1.5 1 298 194 101 470 1.5 1 293 177 102 454 1.5 1 262 192 103 421 1.5 1 242 179 104 369 1.5 1 200 169 105 349 1.5 1 200 149 106 333 1.5 1 186 147 107 276 1.5 1 136 140 108 294 1.5 1 165 129 109 239 1.5 1 136 103 110 273 1.5 1 150 123 111 218 1.5 1 117 101 112 225 1.5 1 126 99 113 212 1.5 1 105 107 114 211 1.5 1 119 92 115 233 1.5 1 116 117 116 201 1.5 1 116 85 117 163 1.5 1 87 76 118 180 1.5 1 93 87 119 132 1.5 1 76 56 120 166 1.5 1 89 77 121 159 1.5 1 90 69 122 130 1.5 1 75 55 123 133 1.5 1 73 60 124 111 1.5 1 68 43 125 107 1.5 1 67 40 126 124 1.5 1 60 64 127 92 1.5 1 56 36 128 108 1.5 1 73 35 129 73 1.5 1 46 27 130 67 1.5 1 42 25 131 53 1.5 1 25 28 132 50 1.5 1 34 16 133 36 1.5 1 21 15 134 34 1.5 1 16 18 135 28 1.5 1 18 10 136 22 1.5 1 18 4 137 23 1.5 1 17 6 138 19 1.5 1 16 3 139 11 1.5 1 7 4 140 10 1.5 1 6 4 141 3 1.5 1 1 2 142 8 1.5 1 6 2 143 5 1.5 1 3 2 144 7 1.5 1 1 6 145 10 1.5 1 3 7 146 6 1.5 1 2 4 147 8 1.5 1 4 4 148 3 1.5 1 1 2 149 8 1.5 1 5 3 150 12 1.5 1 2 10 RUN STATISTICS FOR INPUT FILE: ERR13913465_2.fastq.gz ============================================= 98977739 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 98977739 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 28260 (0.03%)