SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913463_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: 15121). 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 ERR13913463_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1997.455 s (20.627 µs/read; 2.91 M reads/minute). === Summary === Total reads processed: 96,836,254 Reads with adapters: 49,621,684 (51.2%) Reads written (passing filters): 96,836,254 (100.0%) Total basepairs processed: 14,525,438,100 bp Quality-trimmed: 58,800,034 bp (0.4%) Total written (filtered): 14,365,728,587 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 49621684 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.5% C: 17.1% G: 0.4% T: 30.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 47451464 24209063.5 0 47451464 2 106114 6052265.9 0 106114 3 99808 1513066.5 0 99808 4 72306 378266.6 0 72306 5 67129 94566.7 0 67129 6 53181 23641.7 0 53181 7 55904 5910.4 0 55904 8 59104 1477.6 0 59104 9 48184 369.4 0 48159 25 10 55368 92.4 1 51807 3561 11 53425 23.1 1 49028 4397 12 51721 5.8 1 35888 15833 13 49261 1.4 1 33696 15565 14 51462 1.4 1 35936 15526 15 45097 1.4 1 31399 13698 16 46943 1.4 1 32506 14437 17 55461 1.4 1 38716 16745 18 34988 1.4 1 24333 10655 19 55566 1.4 1 39699 15867 20 39797 1.4 1 27686 12111 21 34885 1.4 1 24291 10594 22 40141 1.4 1 28566 11575 23 39122 1.4 1 27716 11406 24 47235 1.4 1 33977 13258 25 42540 1.4 1 29968 12572 26 28963 1.4 1 20711 8252 27 32971 1.4 1 23274 9697 28 35360 1.4 1 25773 9587 29 33677 1.4 1 23961 9716 30 34437 1.4 1 25035 9402 31 31454 1.4 1 22773 8681 32 31568 1.4 1 23266 8302 33 30651 1.4 1 22266 8385 34 27679 1.4 1 20166 7513 35 28003 1.4 1 20348 7655 36 28343 1.4 1 20630 7713 37 25316 1.4 1 18746 6570 38 25844 1.4 1 18751 7093 39 24380 1.4 1 17755 6625 40 23342 1.4 1 17194 6148 41 25452 1.4 1 19208 6244 42 17103 1.4 1 12554 4549 43 19992 1.4 1 14907 5085 44 20639 1.4 1 15560 5079 45 17733 1.4 1 13365 4368 46 17952 1.4 1 13494 4458 47 17613 1.4 1 13159 4454 48 17749 1.4 1 13190 4559 49 15153 1.4 1 11512 3641 50 14871 1.4 1 11137 3734 51 15464 1.4 1 11771 3693 52 13903 1.4 1 10630 3273 53 13224 1.4 1 9973 3251 54 12775 1.4 1 9785 2990 55 11106 1.4 1 8553 2553 56 11896 1.4 1 9162 2734 57 9939 1.4 1 7546 2393 58 10118 1.4 1 7733 2385 59 12352 1.4 1 9553 2799 60 7442 1.4 1 5644 1798 61 8350 1.4 1 6327 2023 62 8821 1.4 1 6924 1897 63 7353 1.4 1 5734 1619 64 6792 1.4 1 5248 1544 65 11834 1.4 1 9317 2517 66 4758 1.4 1 3551 1207 67 4344 1.4 1 3331 1013 68 4485 1.4 1 3488 997 69 5805 1.4 1 4518 1287 70 5359 1.4 1 4109 1250 71 4073 1.4 1 3155 918 72 4414 1.4 1 3461 953 73 3992 1.4 1 3067 925 74 3671 1.4 1 2779 892 75 5260 1.4 1 4058 1202 76 3332 1.4 1 2491 841 77 2306 1.4 1 1681 625 78 899 1.4 1 675 224 79 1340 1.4 1 1050 290 80 1631 1.4 1 1279 352 81 1608 1.4 1 1250 358 82 1450 1.4 1 1085 365 83 1462 1.4 1 1111 351 84 1333 1.4 1 1006 327 85 1225 1.4 1 946 279 86 1105 1.4 1 822 283 87 1022 1.4 1 729 293 88 890 1.4 1 652 238 89 818 1.4 1 584 234 90 706 1.4 1 495 211 91 661 1.4 1 446 215 92 699 1.4 1 459 240 93 605 1.4 1 424 181 94 566 1.4 1 360 206 95 485 1.4 1 287 198 96 447 1.4 1 251 196 97 382 1.4 1 239 143 98 374 1.4 1 232 142 99 333 1.4 1 188 145 100 321 1.4 1 173 148 101 323 1.4 1 194 129 102 327 1.4 1 168 159 103 290 1.4 1 168 122 104 271 1.4 1 164 107 105 262 1.4 1 154 108 106 263 1.4 1 145 118 107 264 1.4 1 133 131 108 252 1.4 1 126 126 109 182 1.4 1 92 90 110 226 1.4 1 112 114 111 196 1.4 1 108 88 112 192 1.4 1 100 92 113 199 1.4 1 106 93 114 168 1.4 1 92 76 115 169 1.4 1 90 79 116 171 1.4 1 96 75 117 150 1.4 1 81 69 118 170 1.4 1 103 67 119 129 1.4 1 74 55 120 159 1.4 1 81 78 121 112 1.4 1 68 44 122 126 1.4 1 67 59 123 112 1.4 1 57 55 124 99 1.4 1 58 41 125 111 1.4 1 61 50 126 110 1.4 1 69 41 127 99 1.4 1 70 29 128 85 1.4 1 54 31 129 64 1.4 1 38 26 130 69 1.4 1 37 32 131 45 1.4 1 34 11 132 41 1.4 1 23 18 133 32 1.4 1 21 11 134 40 1.4 1 26 14 135 18 1.4 1 15 3 136 25 1.4 1 21 4 137 25 1.4 1 22 3 138 16 1.4 1 13 3 139 14 1.4 1 9 5 140 7 1.4 1 5 2 141 10 1.4 1 4 6 142 11 1.4 1 6 5 143 7 1.4 1 4 3 144 12 1.4 1 8 4 145 6 1.4 1 4 2 146 8 1.4 1 6 2 147 12 1.4 1 4 8 148 6 1.4 1 3 3 149 8 1.4 1 3 5 150 10 1.4 1 2 8 RUN STATISTICS FOR INPUT FILE: ERR13913463_2.fastq.gz ============================================= 96836254 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 96836254 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 19915 (0.02%)