SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913475_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: 10212). 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 ERR13913475_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1956.346 s (18.865 µs/read; 3.18 M reads/minute). === Summary === Total reads processed: 103,702,367 Reads with adapters: 52,886,617 (51.0%) Reads written (passing filters): 103,702,367 (100.0%) Total basepairs processed: 15,555,355,050 bp Quality-trimmed: 63,596,598 bp (0.4%) Total written (filtered): 15,399,524,670 bp (99.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 52886617 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: 30.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 51205181 25925591.8 0 51205181 2 103385 6481397.9 0 103385 3 92222 1620349.5 0 92222 4 62220 405087.4 0 62220 5 53212 101271.8 0 53212 6 39611 25318.0 0 39611 7 41803 6329.5 0 41803 8 44781 1582.4 0 44781 9 35863 395.6 0 35850 13 10 41054 98.9 1 34721 6333 11 40128 24.7 1 33204 6924 12 38263 6.2 1 23381 14882 13 36360 1.5 1 21749 14611 14 38080 1.5 1 23332 14748 15 32775 1.5 1 20226 12549 16 35448 1.5 1 21626 13822 17 39566 1.5 1 24198 15368 18 27434 1.5 1 16800 10634 19 36454 1.5 1 22819 13635 20 31940 1.5 1 19769 12171 21 28783 1.5 1 17716 11067 22 29687 1.5 1 18615 11072 23 28363 1.5 1 17863 10500 24 36061 1.5 1 22984 13077 25 32013 1.5 1 19758 12255 26 21504 1.5 1 13445 8059 27 23005 1.5 1 14553 8452 28 27585 1.5 1 17770 9815 29 24178 1.5 1 15550 8628 30 26750 1.5 1 17238 9512 31 22568 1.5 1 14616 7952 32 23239 1.5 1 15216 8023 33 21997 1.5 1 14285 7712 34 20722 1.5 1 13531 7191 35 22385 1.5 1 14644 7741 36 22815 1.5 1 14730 8085 37 17429 1.5 1 11290 6139 38 19616 1.5 1 13178 6438 39 17455 1.5 1 11437 6018 40 19500 1.5 1 13028 6472 41 13914 1.5 1 9113 4801 42 15799 1.5 1 10587 5212 43 14522 1.5 1 9747 4775 44 15498 1.5 1 10434 5064 45 13027 1.5 1 8734 4293 46 13322 1.5 1 8947 4375 47 13324 1.5 1 8999 4325 48 12997 1.5 1 8747 4250 49 11505 1.5 1 7865 3640 50 11070 1.5 1 7287 3783 51 11445 1.5 1 7708 3737 52 10081 1.5 1 6826 3255 53 9666 1.5 1 6457 3209 54 9459 1.5 1 6392 3067 55 8412 1.5 1 5857 2555 56 8908 1.5 1 6150 2758 57 7417 1.5 1 5026 2391 58 7822 1.5 1 5354 2468 59 9359 1.5 1 6637 2722 60 5930 1.5 1 4060 1870 61 6282 1.5 1 4338 1944 62 6732 1.5 1 4698 2034 63 5257 1.5 1 3578 1679 64 5030 1.5 1 3515 1515 65 8830 1.5 1 6348 2482 66 3664 1.5 1 2439 1225 67 3340 1.5 1 2206 1134 68 3565 1.5 1 2481 1084 69 4601 1.5 1 3214 1387 70 4361 1.5 1 2999 1362 71 3321 1.5 1 2292 1029 72 3570 1.5 1 2460 1110 73 3330 1.5 1 2265 1065 74 3129 1.5 1 2108 1021 75 4637 1.5 1 3141 1496 76 2690 1.5 1 1754 936 77 1935 1.5 1 1197 738 78 790 1.5 1 517 273 79 1130 1.5 1 784 346 80 1384 1.5 1 989 395 81 1440 1.5 1 1003 437 82 1333 1.5 1 895 438 83 1267 1.5 1 822 445 84 1212 1.5 1 798 414 85 1207 1.5 1 786 421 86 1061 1.5 1 673 388 87 1067 1.5 1 672 395 88 983 1.5 1 606 377 89 877 1.5 1 532 345 90 813 1.5 1 488 325 91 773 1.5 1 407 366 92 729 1.5 1 425 304 93 702 1.5 1 352 350 94 600 1.5 1 328 272 95 570 1.5 1 293 277 96 563 1.5 1 292 271 97 464 1.5 1 224 240 98 442 1.5 1 223 219 99 413 1.5 1 203 210 100 447 1.5 1 187 260 101 405 1.5 1 194 211 102 371 1.5 1 163 208 103 360 1.5 1 157 203 104 366 1.5 1 178 188 105 311 1.5 1 125 186 106 297 1.5 1 143 154 107 295 1.5 1 121 174 108 293 1.5 1 118 175 109 268 1.5 1 137 131 110 268 1.5 1 115 153 111 265 1.5 1 121 144 112 236 1.5 1 115 121 113 229 1.5 1 84 145 114 263 1.5 1 122 141 115 220 1.5 1 102 118 116 217 1.5 1 111 106 117 188 1.5 1 90 98 118 208 1.5 1 94 114 119 201 1.5 1 90 111 120 192 1.5 1 85 107 121 183 1.5 1 78 105 122 169 1.5 1 76 93 123 152 1.5 1 61 91 124 142 1.5 1 68 74 125 169 1.5 1 83 86 126 152 1.5 1 78 74 127 99 1.5 1 48 51 128 121 1.5 1 60 61 129 91 1.5 1 46 45 130 93 1.5 1 48 45 131 70 1.5 1 44 26 132 42 1.5 1 27 15 133 34 1.5 1 14 20 134 37 1.5 1 25 12 135 28 1.5 1 13 15 136 36 1.5 1 22 14 137 10 1.5 1 7 3 138 14 1.5 1 10 4 139 6 1.5 1 5 1 140 8 1.5 1 4 4 141 6 1.5 1 5 1 142 8 1.5 1 2 6 143 5 1.5 1 3 2 144 1 1.5 1 0 1 145 9 1.5 1 6 3 146 2 1.5 1 1 1 147 8 1.5 1 4 4 148 8 1.5 1 5 3 149 4 1.5 1 3 1 150 4 1.5 1 1 3 RUN STATISTICS FOR INPUT FILE: ERR13913475_2.fastq.gz ============================================= 103702367 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 103702367 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 25361 (0.02%)