SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913477_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: 21031). 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 ERR13913477_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2429.016 s (18.918 µs/read; 3.17 M reads/minute). === Summary === Total reads processed: 128,399,290 Reads with adapters: 66,462,580 (51.8%) Reads written (passing filters): 128,399,290 (100.0%) Total basepairs processed: 19,259,893,500 bp Quality-trimmed: 75,778,440 bp (0.4%) Total written (filtered): 19,021,033,106 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 66462580 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.8% C: 16.9% G: 0.4% T: 30.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 62755023 32099822.5 0 62755023 2 156472 8024955.6 0 156472 3 146561 2006238.9 0 146561 4 111585 501559.7 0 111585 5 102204 125389.9 0 102204 6 80408 31347.5 0 80408 7 86069 7836.9 0 86069 8 91713 1959.2 0 91713 9 74633 489.8 0 74594 39 10 85634 122.5 1 79632 6002 11 83965 30.6 1 76321 7644 12 82908 7.7 1 57760 25148 13 77977 1.9 1 54370 23607 14 83866 1.9 1 59057 24809 15 71520 1.9 1 50185 21335 16 74902 1.9 1 52609 22293 17 90201 1.9 1 63798 26403 18 55257 1.9 1 38961 16296 19 91554 1.9 1 65911 25643 20 63869 1.9 1 44798 19071 21 57555 1.9 1 40666 16889 22 65924 1.9 1 47122 18802 23 63654 1.9 1 45672 17982 24 76803 1.9 1 55476 21327 25 73063 1.9 1 52309 20754 26 49910 1.9 1 35959 13951 27 53128 1.9 1 38102 15026 28 62005 1.9 1 45830 16175 29 53348 1.9 1 38293 15055 30 60550 1.9 1 44749 15801 31 51110 1.9 1 37476 13634 32 56237 1.9 1 41752 14485 33 49935 1.9 1 36623 13312 34 53426 1.9 1 39284 14142 35 48350 1.9 1 35760 12590 36 46773 1.9 1 35073 11700 37 52058 1.9 1 38513 13545 38 42434 1.9 1 31892 10542 39 47656 1.9 1 35905 11751 40 44250 1.9 1 33516 10734 41 38539 1.9 1 28803 9736 42 38326 1.9 1 28619 9707 43 37422 1.9 1 28104 9318 44 38306 1.9 1 29184 9122 45 34703 1.9 1 26225 8478 46 34975 1.9 1 26728 8247 47 35070 1.9 1 26651 8419 48 34588 1.9 1 26268 8320 49 30810 1.9 1 23785 7025 50 29499 1.9 1 22460 7039 51 30814 1.9 1 23607 7207 52 27089 1.9 1 21034 6055 53 27171 1.9 1 20941 6230 54 26646 1.9 1 20548 6098 55 24181 1.9 1 18903 5278 56 26014 1.9 1 20459 5555 57 21556 1.9 1 16756 4800 58 22701 1.9 1 17672 5029 59 26874 1.9 1 21312 5562 60 16402 1.9 1 12597 3805 61 18428 1.9 1 14475 3953 62 20584 1.9 1 16359 4225 63 16712 1.9 1 13164 3548 64 15440 1.9 1 12187 3253 65 28220 1.9 1 22791 5429 66 11879 1.9 1 9212 2667 67 10419 1.9 1 8150 2269 68 10547 1.9 1 8357 2190 69 14232 1.9 1 11375 2857 70 13123 1.9 1 10445 2678 71 10471 1.9 1 8394 2077 72 11361 1.9 1 9169 2192 73 10791 1.9 1 8543 2248 74 9402 1.9 1 7487 1915 75 13906 1.9 1 11057 2849 76 7694 1.9 1 6067 1627 77 5490 1.9 1 4284 1206 78 2297 1.9 1 1837 460 79 3812 1.9 1 3113 699 80 4558 1.9 1 3712 846 81 4259 1.9 1 3430 829 82 3982 1.9 1 3208 774 83 3718 1.9 1 3006 712 84 3345 1.9 1 2661 684 85 3014 1.9 1 2406 608 86 2692 1.9 1 2090 602 87 2459 1.9 1 1949 510 88 2164 1.9 1 1705 459 89 1987 1.9 1 1547 440 90 1785 1.9 1 1371 414 91 1549 1.9 1 1174 375 92 1437 1.9 1 1086 351 93 1229 1.9 1 904 325 94 1063 1.9 1 771 292 95 962 1.9 1 668 294 96 837 1.9 1 577 260 97 750 1.9 1 506 244 98 693 1.9 1 442 251 99 676 1.9 1 437 239 100 563 1.9 1 356 207 101 479 1.9 1 286 193 102 475 1.9 1 286 189 103 433 1.9 1 239 194 104 416 1.9 1 244 172 105 367 1.9 1 222 145 106 329 1.9 1 180 149 107 306 1.9 1 168 138 108 326 1.9 1 172 154 109 290 1.9 1 149 141 110 282 1.9 1 152 130 111 275 1.9 1 143 132 112 232 1.9 1 115 117 113 264 1.9 1 134 130 114 230 1.9 1 117 113 115 212 1.9 1 105 107 116 236 1.9 1 129 107 117 212 1.9 1 114 98 118 222 1.9 1 115 107 119 203 1.9 1 110 93 120 203 1.9 1 132 71 121 196 1.9 1 117 79 122 183 1.9 1 101 82 123 152 1.9 1 80 72 124 150 1.9 1 81 69 125 149 1.9 1 86 63 126 158 1.9 1 94 64 127 135 1.9 1 79 56 128 111 1.9 1 62 49 129 99 1.9 1 64 35 130 85 1.9 1 45 40 131 57 1.9 1 35 22 132 75 1.9 1 48 27 133 42 1.9 1 30 12 134 47 1.9 1 37 10 135 27 1.9 1 20 7 136 31 1.9 1 23 8 137 29 1.9 1 18 11 138 19 1.9 1 12 7 139 15 1.9 1 12 3 140 18 1.9 1 12 6 141 8 1.9 1 2 6 142 9 1.9 1 5 4 143 15 1.9 1 6 9 144 10 1.9 1 2 8 145 8 1.9 1 3 5 146 16 1.9 1 9 7 147 6 1.9 1 2 4 148 8 1.9 1 6 2 149 11 1.9 1 5 6 150 13 1.9 1 5 8 RUN STATISTICS FOR INPUT FILE: ERR13913477_2.fastq.gz ============================================= 128399290 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 128399290 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 24655 (0.02%)