SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913490_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: 20533). 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 ERR13913490_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1891.033 s (19.448 µs/read; 3.09 M reads/minute). === Summary === Total reads processed: 97,236,200 Reads with adapters: 50,120,909 (51.5%) Reads written (passing filters): 97,236,200 (100.0%) Total basepairs processed: 14,585,430,000 bp Quality-trimmed: 57,586,542 bp (0.4%) Total written (filtered): 14,408,977,032 bp (98.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 50120909 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.8% C: 17.1% G: 0.3% T: 29.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 47402795 24309050.0 0 47402795 2 111836 6077262.5 0 111836 3 106616 1519315.6 0 106616 4 81332 379828.9 0 81332 5 74457 94957.2 0 74457 6 63831 23739.3 0 63831 7 67382 5934.8 0 67382 8 71700 1483.7 0 71700 9 53769 370.9 0 53752 17 10 65248 92.7 1 60977 4271 11 63387 23.2 1 58537 4850 12 62604 5.8 1 45399 17205 13 59212 1.4 1 42029 17183 14 63824 1.4 1 45696 18128 15 55599 1.4 1 39813 15786 16 56424 1.4 1 40327 16097 17 70210 1.4 1 50616 19594 18 40898 1.4 1 29555 11343 19 71921 1.4 1 52764 19157 20 47328 1.4 1 34016 13312 21 40857 1.4 1 29738 11119 22 50600 1.4 1 36885 13715 23 49403 1.4 1 35692 13711 24 65017 1.4 1 47699 17318 25 56060 1.4 1 40816 15244 26 33457 1.4 1 24489 8968 27 34879 1.4 1 25606 9273 28 45966 1.4 1 34143 11823 29 40382 1.4 1 29878 10504 30 43349 1.4 1 32400 10949 31 39466 1.4 1 29184 10282 32 42476 1.4 1 31770 10706 33 39427 1.4 1 29246 10181 34 34227 1.4 1 25835 8392 35 35964 1.4 1 27197 8767 36 35917 1.4 1 27159 8758 37 33843 1.4 1 25688 8155 38 34235 1.4 1 26314 7921 39 37896 1.4 1 28569 9327 40 25428 1.4 1 19367 6061 41 29493 1.4 1 22660 6833 42 27844 1.4 1 21413 6431 43 27072 1.4 1 20810 6262 44 28742 1.4 1 22090 6652 45 24171 1.4 1 18609 5562 46 24885 1.4 1 19278 5607 47 24584 1.4 1 18923 5661 48 23636 1.4 1 18321 5315 49 21865 1.4 1 17152 4713 50 20955 1.4 1 16312 4643 51 21030 1.4 1 16428 4602 52 19473 1.4 1 15319 4154 53 19231 1.4 1 15093 4138 54 18062 1.4 1 14154 3908 55 16845 1.4 1 13270 3575 56 18045 1.4 1 14396 3649 57 14632 1.4 1 11588 3044 58 15219 1.4 1 12065 3154 59 18124 1.4 1 14459 3665 60 11097 1.4 1 8762 2335 61 12398 1.4 1 9926 2472 62 13746 1.4 1 10935 2811 63 11678 1.4 1 9278 2400 64 10559 1.4 1 8454 2105 65 18883 1.4 1 15447 3436 66 7773 1.4 1 6133 1640 67 6751 1.4 1 5446 1305 68 7025 1.4 1 5720 1305 69 9554 1.4 1 7852 1702 70 8771 1.4 1 7084 1687 71 6689 1.4 1 5458 1231 72 7173 1.4 1 5809 1364 73 6612 1.4 1 5399 1213 74 6232 1.4 1 5128 1104 75 7649 1.4 1 6130 1519 76 5404 1.4 1 4376 1028 77 4042 1.4 1 3263 779 78 1196 1.4 1 986 210 79 2557 1.4 1 2101 456 80 3116 1.4 1 2565 551 81 2883 1.4 1 2442 441 82 2602 1.4 1 2133 469 83 2383 1.4 1 1952 431 84 2203 1.4 1 1772 431 85 1945 1.4 1 1588 357 86 1743 1.4 1 1443 300 87 1569 1.4 1 1272 297 88 1456 1.4 1 1195 261 89 1183 1.4 1 934 249 90 987 1.4 1 762 225 91 929 1.4 1 726 203 92 806 1.4 1 635 171 93 726 1.4 1 557 169 94 640 1.4 1 483 157 95 553 1.4 1 418 135 96 502 1.4 1 376 126 97 455 1.4 1 329 126 98 392 1.4 1 276 116 99 345 1.4 1 233 112 100 338 1.4 1 226 112 101 281 1.4 1 187 94 102 231 1.4 1 134 97 103 247 1.4 1 160 87 104 209 1.4 1 129 80 105 205 1.4 1 116 89 106 186 1.4 1 119 67 107 164 1.4 1 101 63 108 169 1.4 1 104 65 109 154 1.4 1 87 67 110 156 1.4 1 93 63 111 129 1.4 1 75 54 112 106 1.4 1 59 47 113 138 1.4 1 77 61 114 115 1.4 1 68 47 115 111 1.4 1 60 51 116 129 1.4 1 69 60 117 109 1.4 1 52 57 118 114 1.4 1 68 46 119 102 1.4 1 60 42 120 117 1.4 1 76 41 121 96 1.4 1 62 34 122 101 1.4 1 56 45 123 85 1.4 1 56 29 124 78 1.4 1 54 24 125 77 1.4 1 41 36 126 81 1.4 1 50 31 127 76 1.4 1 50 26 128 70 1.4 1 53 17 129 46 1.4 1 30 16 130 49 1.4 1 40 9 131 29 1.4 1 18 11 132 21 1.4 1 14 7 133 31 1.4 1 22 9 134 27 1.4 1 22 5 135 27 1.4 1 17 10 136 30 1.4 1 22 8 137 16 1.4 1 12 4 138 15 1.4 1 10 5 139 13 1.4 1 7 6 140 15 1.4 1 13 2 141 8 1.4 1 5 3 142 9 1.4 1 5 4 143 6 1.4 1 4 2 144 8 1.4 1 5 3 145 9 1.4 1 7 2 146 8 1.4 1 4 4 147 7 1.4 1 3 4 148 11 1.4 1 6 5 149 4 1.4 1 1 3 150 9 1.4 1 3 6 RUN STATISTICS FOR INPUT FILE: ERR13913490_2.fastq.gz ============================================= 97236200 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 97236200 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 19203 (0.02%)