SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913483_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: 21228). 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 ERR13913483_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2527.360 s (21.093 µs/read; 2.84 M reads/minute). === Summary === Total reads processed: 119,818,219 Reads with adapters: 62,075,733 (51.8%) Reads written (passing filters): 119,818,219 (100.0%) Total basepairs processed: 17,972,732,850 bp Quality-trimmed: 72,114,427 bp (0.4%) Total written (filtered): 17,747,958,069 bp (98.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 62075733 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% C: 17.1% G: 0.4% T: 29.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 58547875 29954554.8 0 58547875 2 147570 7488638.7 0 147570 3 141416 1872159.7 0 141416 4 106250 468039.9 0 106250 5 99190 117010.0 0 99190 6 77696 29252.5 0 77696 7 82754 7313.1 0 82754 8 88535 1828.3 0 88535 9 72713 457.1 0 72677 36 10 82741 114.3 1 77019 5722 11 82425 28.6 1 74773 7652 12 80092 7.1 1 54890 25202 13 75308 1.8 1 51208 24100 14 75798 1.8 1 52417 23381 15 70100 1.8 1 48289 21811 16 72707 1.8 1 49704 23003 17 75488 1.8 1 52375 23113 18 64024 1.8 1 44274 19750 19 74864 1.8 1 52498 22366 20 69028 1.8 1 47851 21177 21 62518 1.8 1 43618 18900 22 63434 1.8 1 44718 18716 23 60950 1.8 1 43198 17752 24 70984 1.8 1 50449 20535 25 72977 1.8 1 51360 21617 26 45863 1.8 1 32338 13525 27 52495 1.8 1 37245 15250 28 57663 1.8 1 41654 16009 29 54468 1.8 1 38689 15779 30 56141 1.8 1 40619 15522 31 55087 1.8 1 39732 15355 32 51742 1.8 1 37597 14145 33 52235 1.8 1 37916 14319 34 48583 1.8 1 35521 13062 35 48306 1.8 1 35627 12679 36 43338 1.8 1 31641 11697 37 50768 1.8 1 37665 13103 38 37885 1.8 1 27463 10422 39 44061 1.8 1 32615 11446 40 41556 1.8 1 30610 10946 41 37400 1.8 1 27773 9627 42 38016 1.8 1 28246 9770 43 35363 1.8 1 26378 8985 44 37290 1.8 1 28089 9201 45 30909 1.8 1 22973 7936 46 32612 1.8 1 24506 8106 47 31927 1.8 1 23817 8110 48 31984 1.8 1 24063 7921 49 28902 1.8 1 21939 6963 50 28739 1.8 1 21622 7117 51 29386 1.8 1 22128 7258 52 26299 1.8 1 20124 6175 53 25372 1.8 1 19279 6093 54 24803 1.8 1 18833 5970 55 21859 1.8 1 16981 4878 56 23580 1.8 1 18361 5219 57 19079 1.8 1 14565 4514 58 20296 1.8 1 15666 4630 59 24735 1.8 1 19342 5393 60 15201 1.8 1 11577 3624 61 17939 1.8 1 13883 4056 62 18614 1.8 1 14567 4047 63 15345 1.8 1 11971 3374 64 14223 1.8 1 11105 3118 65 24619 1.8 1 19655 4964 66 10461 1.8 1 8043 2418 67 9086 1.8 1 7070 2016 68 9350 1.8 1 7417 1933 69 12263 1.8 1 9847 2416 70 11821 1.8 1 9259 2562 71 9206 1.8 1 7296 1910 72 9995 1.8 1 7908 2087 73 9183 1.8 1 7295 1888 74 8381 1.8 1 6633 1748 75 11595 1.8 1 9167 2428 76 7132 1.8 1 5581 1551 77 4945 1.8 1 3849 1096 78 2193 1.8 1 1700 493 79 3126 1.8 1 2545 581 80 3658 1.8 1 2973 685 81 3752 1.8 1 3078 674 82 3542 1.8 1 2841 701 83 3285 1.8 1 2649 636 84 2961 1.8 1 2364 597 85 2636 1.8 1 2014 622 86 2248 1.8 1 1763 485 87 2131 1.8 1 1644 487 88 1863 1.8 1 1422 441 89 1651 1.8 1 1256 395 90 1513 1.8 1 1161 352 91 1272 1.8 1 899 373 92 1284 1.8 1 968 316 93 1128 1.8 1 818 310 94 891 1.8 1 621 270 95 825 1.8 1 567 258 96 775 1.8 1 546 229 97 684 1.8 1 446 238 98 583 1.8 1 364 219 99 536 1.8 1 337 199 100 600 1.8 1 385 215 101 446 1.8 1 267 179 102 434 1.8 1 254 180 103 343 1.8 1 195 148 104 371 1.8 1 210 161 105 367 1.8 1 219 148 106 305 1.8 1 161 144 107 295 1.8 1 167 128 108 277 1.8 1 151 126 109 272 1.8 1 155 117 110 241 1.8 1 133 108 111 217 1.8 1 100 117 112 213 1.8 1 112 101 113 207 1.8 1 119 88 114 240 1.8 1 124 116 115 184 1.8 1 101 83 116 199 1.8 1 112 87 117 172 1.8 1 95 77 118 194 1.8 1 105 89 119 187 1.8 1 111 76 120 185 1.8 1 112 73 121 142 1.8 1 85 57 122 144 1.8 1 85 59 123 155 1.8 1 99 56 124 128 1.8 1 72 56 125 149 1.8 1 96 53 126 126 1.8 1 71 55 127 121 1.8 1 80 41 128 110 1.8 1 58 52 129 92 1.8 1 60 32 130 76 1.8 1 55 21 131 73 1.8 1 34 39 132 62 1.8 1 42 20 133 51 1.8 1 29 22 134 56 1.8 1 38 18 135 31 1.8 1 19 12 136 38 1.8 1 23 15 137 25 1.8 1 14 11 138 18 1.8 1 13 5 139 11 1.8 1 7 4 140 10 1.8 1 7 3 141 14 1.8 1 10 4 142 12 1.8 1 7 5 143 8 1.8 1 5 3 144 3 1.8 1 3 145 12 1.8 1 6 6 146 7 1.8 1 4 3 147 7 1.8 1 4 3 148 9 1.8 1 4 5 149 6 1.8 1 2 4 150 13 1.8 1 7 6 RUN STATISTICS FOR INPUT FILE: ERR13913483_2.fastq.gz ============================================= 119818219 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 119818219 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 25565 (0.02%)