SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684018_1.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: 85236). 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 ERR10684018_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 2566.756 s (21.090 µs/read; 2.84 M reads/minute). === Summary === Total reads processed: 121,703,060 Reads with adapters: 68,139,809 (56.0%) Reads written (passing filters): 121,703,060 (100.0%) Total basepairs processed: 18,377,162,060 bp Quality-trimmed: 73,128,214 bp (0.4%) Total written (filtered): 17,769,760,273 bp (96.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 68139809 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.2% C: 17.4% G: 0.6% T: 30.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 53743963 30425765.0 0 53743963 2 693778 7606441.2 0 693778 3 371247 1901610.3 0 371247 4 295786 475402.6 0 295786 5 303499 118850.6 0 303499 6 269230 29712.7 0 269230 7 253799 7428.2 0 253799 8 332566 1857.0 0 332566 9 201682 464.3 0 200784 898 10 281758 116.1 1 258580 23178 11 240445 29.0 1 216576 23869 12 273739 7.3 1 238489 35250 13 259446 1.8 1 227336 32110 14 303173 1.8 1 264963 38210 15 211379 1.8 1 184387 26992 16 250097 1.8 1 219020 31077 17 329779 1.8 1 291617 38162 18 151247 1.8 1 131845 19402 19 332163 1.8 1 292498 39665 20 235335 1.8 1 208414 26921 21 142586 1.8 1 124858 17728 22 225533 1.8 1 198953 26580 23 227699 1.8 1 201266 26433 24 275181 1.8 1 243009 32172 25 255566 1.8 1 227505 28061 26 197526 1.8 1 174768 22758 27 163099 1.8 1 142845 20254 28 241527 1.8 1 216926 24601 29 164802 1.8 1 146001 18801 30 223814 1.8 1 201338 22476 31 173040 1.8 1 154403 18637 32 206829 1.8 1 185869 20960 33 178142 1.8 1 159162 18980 34 227844 1.8 1 203334 24510 35 147244 1.8 1 130692 16552 36 192497 1.8 1 173171 19326 37 158002 1.8 1 143029 14973 38 229122 1.8 1 207135 21987 39 140384 1.8 1 126130 14254 40 160984 1.8 1 146772 14212 41 135228 1.8 1 121858 13370 42 175626 1.8 1 159459 16167 43 139240 1.8 1 125598 13642 44 148469 1.8 1 135421 13048 45 162100 1.8 1 146520 15580 46 151243 1.8 1 137335 13908 47 140366 1.8 1 128694 11672 48 124583 1.8 1 113026 11557 49 139453 1.8 1 126315 13138 50 125469 1.8 1 115358 10111 51 117775 1.8 1 107890 9885 52 122862 1.8 1 112294 10568 53 120877 1.8 1 110560 10317 54 145285 1.8 1 133764 11521 55 86282 1.8 1 78757 7525 56 116168 1.8 1 106070 10098 57 165425 1.8 1 152260 13165 58 73514 1.8 1 66807 6707 59 81578 1.8 1 75017 6561 60 120214 1.8 1 110711 9503 61 101321 1.8 1 93463 7858 62 73249 1.8 1 67105 6144 63 186455 1.8 1 173615 12840 64 71205 1.8 1 65293 5912 65 58854 1.8 1 54321 4533 66 55915 1.8 1 51415 4500 67 93357 1.8 1 87027 6330 68 80855 1.8 1 74808 6047 69 72254 1.8 1 67032 5222 70 83054 1.8 1 77525 5529 71 77222 1.8 1 71803 5419 72 76192 1.8 1 70599 5593 73 100459 1.8 1 93633 6826 74 61011 1.8 1 56793 4218 75 58407 1.8 1 54734 3673 76 42786 1.8 1 39777 3009 77 42534 1.8 1 39652 2882 78 44968 1.8 1 41992 2976 79 44560 1.8 1 41605 2955 80 43732 1.8 1 40918 2814 81 43324 1.8 1 40352 2972 82 42509 1.8 1 39611 2898 83 43080 1.8 1 40357 2723 84 41162 1.8 1 38499 2663 85 40854 1.8 1 38266 2588 86 37935 1.8 1 35560 2375 87 35670 1.8 1 33490 2180 88 33816 1.8 1 31741 2075 89 32699 1.8 1 30697 2002 90 32090 1.8 1 30334 1756 91 30267 1.8 1 28484 1783 92 29069 1.8 1 27430 1639 93 28118 1.8 1 26571 1547 94 25446 1.8 1 24003 1443 95 24460 1.8 1 23035 1425 96 23500 1.8 1 22154 1346 97 22246 1.8 1 21025 1221 98 22310 1.8 1 21063 1247 99 21540 1.8 1 20376 1164 100 20380 1.8 1 19377 1003 101 17464 1.8 1 16518 946 102 16441 1.8 1 15561 880 103 14705 1.8 1 13942 763 104 13622 1.8 1 12919 703 105 13062 1.8 1 12408 654 106 12129 1.8 1 11498 631 107 11294 1.8 1 10757 537 108 10147 1.8 1 9697 450 109 9110 1.8 1 8671 439 110 8323 1.8 1 7919 404 111 7493 1.8 1 7128 365 112 6561 1.8 1 6266 295 113 5605 1.8 1 5359 246 114 4804 1.8 1 4591 213 115 4144 1.8 1 3959 185 116 3410 1.8 1 3244 166 117 2956 1.8 1 2838 118 118 2413 1.8 1 2306 107 119 2078 1.8 1 1960 118 120 11204 1.8 1 10675 529 121 2069 1.8 1 1978 91 122 1021 1.8 1 972 49 123 728 1.8 1 695 33 124 502 1.8 1 470 32 125 372 1.8 1 351 21 126 285 1.8 1 263 22 127 200 1.8 1 182 18 128 155 1.8 1 144 11 129 124 1.8 1 118 6 130 99 1.8 1 90 9 131 91 1.8 1 77 14 132 56 1.8 1 49 7 133 77 1.8 1 64 13 134 56 1.8 1 47 9 135 57 1.8 1 50 7 136 49 1.8 1 42 7 137 53 1.8 1 45 8 138 41 1.8 1 32 9 139 53 1.8 1 44 9 140 38 1.8 1 24 14 141 73 1.8 1 56 17 142 30 1.8 1 18 12 143 43 1.8 1 31 12 144 28 1.8 1 11 17 145 49 1.8 1 26 23 146 33 1.8 1 16 17 147 36 1.8 1 20 16 148 39 1.8 1 14 25 149 41 1.8 1 24 17 150 27 1.8 1 10 17 151 165 1.8 1 126 39 RUN STATISTICS FOR INPUT FILE: ERR10684018_1.fastq.gz ============================================= 121703060 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 121703060 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 95187 (0.08%)