SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913495_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: 23461). 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 ERR13913495_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2571.843 s (20.480 µs/read; 2.93 M reads/minute). === Summary === Total reads processed: 125,580,879 Reads with adapters: 64,833,266 (51.6%) Reads written (passing filters): 125,580,879 (100.0%) Total basepairs processed: 18,837,131,850 bp Quality-trimmed: 78,847,104 bp (0.4%) Total written (filtered): 18,585,512,439 bp (98.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 64833266 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: 29.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 60799634 31395219.8 0 60799634 2 168136 7848804.9 0 168136 3 155918 1962201.2 0 155918 4 117160 490550.3 0 117160 5 107661 122637.6 0 107661 6 86342 30659.4 0 86342 7 92595 7664.8 0 92595 8 99024 1916.2 0 99024 9 76667 479.1 0 76622 45 10 91355 119.8 1 84934 6421 11 87749 29.9 1 80425 7324 12 85908 7.5 1 59685 26223 13 82374 1.9 1 56589 25785 14 87609 1.9 1 60565 27044 15 75768 1.9 1 52419 23349 16 79532 1.9 1 54845 24687 17 98119 1.9 1 68111 30008 18 57782 1.9 1 40320 17462 19 100804 1.9 1 71586 29218 20 66210 1.9 1 45604 20606 21 59403 1.9 1 41606 17797 22 70332 1.9 1 49490 20842 23 68318 1.9 1 48519 19799 24 90057 1.9 1 64571 25486 25 78566 1.9 1 54776 23790 26 49910 1.9 1 35475 14435 27 53583 1.9 1 37863 15720 28 69905 1.9 1 50877 19028 29 57640 1.9 1 41058 16582 30 71050 1.9 1 51518 19532 31 50989 1.9 1 36511 14478 32 69450 1.9 1 50932 18518 33 46314 1.9 1 33363 12951 34 65034 1.9 1 47821 17213 35 42602 1.9 1 30603 11999 36 58475 1.9 1 42950 15525 37 47401 1.9 1 34577 12824 38 47648 1.9 1 35136 12512 39 47978 1.9 1 35601 12377 40 56300 1.9 1 41874 14426 41 52087 1.9 1 38079 14008 42 32816 1.9 1 24514 8302 43 39061 1.9 1 28903 10158 44 41566 1.9 1 31277 10289 45 38146 1.9 1 28588 9558 46 38318 1.9 1 28807 9511 47 38300 1.9 1 28704 9596 48 38637 1.9 1 29129 9508 49 35044 1.9 1 26753 8291 50 33575 1.9 1 25335 8240 51 34616 1.9 1 26182 8434 52 31217 1.9 1 23827 7390 53 30754 1.9 1 23413 7341 54 29438 1.9 1 22430 7008 55 26935 1.9 1 20669 6266 56 29569 1.9 1 23010 6559 57 23516 1.9 1 18019 5497 58 25623 1.9 1 19810 5813 59 31896 1.9 1 24869 7027 60 18683 1.9 1 14247 4436 61 21533 1.9 1 16553 4980 62 23530 1.9 1 18471 5059 63 19406 1.9 1 15088 4318 64 18193 1.9 1 14434 3759 65 33514 1.9 1 26785 6729 66 13092 1.9 1 9986 3106 67 12199 1.9 1 9492 2707 68 12561 1.9 1 9936 2625 69 16916 1.9 1 13501 3415 70 16396 1.9 1 12730 3666 71 12607 1.9 1 10003 2604 72 13672 1.9 1 11032 2640 73 13147 1.9 1 10404 2743 74 11901 1.9 1 9440 2461 75 17140 1.9 1 13655 3485 76 9534 1.9 1 7635 1899 77 6788 1.9 1 5342 1446 78 3136 1.9 1 2465 671 79 4982 1.9 1 4049 933 80 5910 1.9 1 4760 1150 81 5556 1.9 1 4489 1067 82 5435 1.9 1 4377 1058 83 4953 1.9 1 3960 993 84 4421 1.9 1 3547 874 85 3941 1.9 1 3184 757 86 3538 1.9 1 2830 708 87 3282 1.9 1 2594 688 88 2925 1.9 1 2307 618 89 2610 1.9 1 2025 585 90 2397 1.9 1 1859 538 91 1988 1.9 1 1516 472 92 1861 1.9 1 1421 440 93 1542 1.9 1 1129 413 94 1327 1.9 1 982 345 95 1245 1.9 1 919 326 96 989 1.9 1 662 327 97 1001 1.9 1 710 291 98 847 1.9 1 565 282 99 740 1.9 1 487 253 100 666 1.9 1 421 245 101 654 1.9 1 408 246 102 596 1.9 1 382 214 103 498 1.9 1 297 201 104 454 1.9 1 272 182 105 390 1.9 1 229 161 106 401 1.9 1 226 175 107 367 1.9 1 192 175 108 373 1.9 1 209 164 109 324 1.9 1 164 160 110 308 1.9 1 168 140 111 282 1.9 1 145 137 112 312 1.9 1 147 165 113 279 1.9 1 141 138 114 242 1.9 1 123 119 115 222 1.9 1 120 102 116 236 1.9 1 129 107 117 239 1.9 1 135 104 118 242 1.9 1 115 127 119 211 1.9 1 101 110 120 222 1.9 1 117 105 121 187 1.9 1 89 98 122 193 1.9 1 104 89 123 161 1.9 1 84 77 124 162 1.9 1 79 83 125 140 1.9 1 71 69 126 144 1.9 1 79 65 127 117 1.9 1 66 51 128 113 1.9 1 72 41 129 97 1.9 1 52 45 130 92 1.9 1 53 39 131 73 1.9 1 44 29 132 59 1.9 1 37 22 133 57 1.9 1 29 28 134 59 1.9 1 38 21 135 31 1.9 1 20 11 136 37 1.9 1 25 12 137 36 1.9 1 22 14 138 18 1.9 1 7 11 139 12 1.9 1 8 4 140 14 1.9 1 10 4 141 9 1.9 1 4 5 142 9 1.9 1 7 2 143 12 1.9 1 9 3 144 11 1.9 1 4 7 145 9 1.9 1 3 6 146 10 1.9 1 6 4 147 3 1.9 1 2 1 148 6 1.9 1 4 2 149 13 1.9 1 6 7 150 10 1.9 1 3 7 RUN STATISTICS FOR INPUT FILE: ERR13913495_2.fastq.gz ============================================= 125580879 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 125580879 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 29565 (0.02%)