SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913492_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: 14238). 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 ERR13913492_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 3162.155 s (19.555 µs/read; 3.07 M reads/minute). === Summary === Total reads processed: 161,705,499 Reads with adapters: 82,572,076 (51.1%) Reads written (passing filters): 161,705,499 (100.0%) Total basepairs processed: 24,255,824,850 bp Quality-trimmed: 99,474,748 bp (0.4%) Total written (filtered): 23,993,787,156 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 82572076 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.4% C: 17.1% G: 0.3% T: 30.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 79229082 40426374.8 0 79229082 2 173147 10106593.7 0 173147 3 158708 2526648.4 0 158708 4 113523 631662.1 0 113523 5 101673 157915.5 0 101673 6 79668 39478.9 0 79668 7 84821 9869.7 0 84821 8 89361 2467.4 0 89361 9 72957 616.9 0 72925 32 10 82678 154.2 1 77181 5497 11 80235 38.6 1 73218 7017 12 77752 9.6 1 52876 24876 13 74449 2.4 1 50661 23788 14 75297 2.4 1 52289 23008 15 68816 2.4 1 47532 21284 16 71448 2.4 1 49145 22303 17 76139 2.4 1 52550 23589 18 59563 2.4 1 41262 18301 19 75271 2.4 1 52980 22291 20 67207 2.4 1 46590 20617 21 53880 2.4 1 37641 16239 22 60111 2.4 1 42363 17748 23 58002 2.4 1 41088 16914 24 70875 2.4 1 50559 20316 25 66746 2.4 1 47078 19668 26 43867 2.4 1 31141 12726 27 47478 2.4 1 33664 13814 28 55964 2.4 1 40747 15217 29 48254 2.4 1 34352 13902 30 53044 2.4 1 38346 14698 31 46742 2.4 1 33873 12869 32 49719 2.4 1 36347 13372 33 44603 2.4 1 32236 12367 34 42796 2.4 1 31045 11751 35 47371 2.4 1 34378 12993 36 47235 2.4 1 35101 12134 37 35075 2.4 1 25141 9934 38 37561 2.4 1 27436 10125 39 39632 2.4 1 29434 10198 40 35372 2.4 1 25919 9453 41 32168 2.4 1 23644 8524 42 31156 2.4 1 22944 8212 43 30949 2.4 1 23001 7948 44 32754 2.4 1 24463 8291 45 27309 2.4 1 20330 6979 46 28721 2.4 1 21585 7136 47 27735 2.4 1 20628 7107 48 27036 2.4 1 20256 6780 49 24782 2.4 1 18886 5896 50 23557 2.4 1 17622 5935 51 23859 2.4 1 17939 5920 52 20963 2.4 1 15963 5000 53 20911 2.4 1 15890 5021 54 20335 2.4 1 15475 4860 55 18332 2.4 1 14131 4201 56 19073 2.4 1 14654 4419 57 16103 2.4 1 12311 3792 58 16574 2.4 1 12819 3755 59 20429 2.4 1 15933 4496 60 11767 2.4 1 8742 3025 61 13616 2.4 1 10407 3209 62 14473 2.4 1 11272 3201 63 12087 2.4 1 9241 2846 64 11179 2.4 1 8615 2564 65 19958 2.4 1 15937 4021 66 7905 2.4 1 5910 1995 67 7179 2.4 1 5474 1705 68 7162 2.4 1 5532 1630 69 9632 2.4 1 7557 2075 70 9389 2.4 1 7184 2205 71 6972 2.4 1 5439 1533 72 7558 2.4 1 5904 1654 73 7148 2.4 1 5451 1697 74 6432 2.4 1 4869 1563 75 8871 2.4 1 6852 2019 76 4985 2.4 1 3774 1211 77 3412 2.4 1 2504 908 78 1468 2.4 1 1100 368 79 2353 2.4 1 1849 504 80 2814 2.4 1 2231 583 81 2796 2.4 1 2180 616 82 2545 2.4 1 1995 550 83 2411 2.4 1 1852 559 84 2194 2.4 1 1643 551 85 2044 2.4 1 1556 488 86 1836 2.4 1 1372 464 87 1707 2.4 1 1176 531 88 1487 2.4 1 1039 448 89 1298 2.4 1 909 389 90 1285 2.4 1 911 374 91 1166 2.4 1 787 379 92 1088 2.4 1 722 366 93 927 2.4 1 605 322 94 844 2.4 1 526 318 95 763 2.4 1 483 280 96 777 2.4 1 475 302 97 670 2.4 1 391 279 98 623 2.4 1 362 261 99 626 2.4 1 371 255 100 615 2.4 1 351 264 101 535 2.4 1 310 225 102 543 2.4 1 306 237 103 470 2.4 1 261 209 104 433 2.4 1 257 176 105 425 2.4 1 226 199 106 373 2.4 1 200 173 107 362 2.4 1 188 174 108 354 2.4 1 173 181 109 336 2.4 1 174 162 110 357 2.4 1 217 140 111 327 2.4 1 147 180 112 307 2.4 1 165 142 113 289 2.4 1 148 141 114 270 2.4 1 139 131 115 247 2.4 1 116 131 116 271 2.4 1 135 136 117 237 2.4 1 139 98 118 232 2.4 1 137 95 119 222 2.4 1 116 106 120 254 2.4 1 139 115 121 211 2.4 1 129 82 122 211 2.4 1 117 94 123 197 2.4 1 109 88 124 203 2.4 1 116 87 125 183 2.4 1 98 85 126 179 2.4 1 101 78 127 159 2.4 1 93 66 128 129 2.4 1 81 48 129 135 2.4 1 86 49 130 108 2.4 1 69 39 131 89 2.4 1 52 37 132 75 2.4 1 47 28 133 58 2.4 1 33 25 134 73 2.4 1 42 31 135 30 2.4 1 15 15 136 36 2.4 1 27 9 137 37 2.4 1 29 8 138 37 2.4 1 24 13 139 11 2.4 1 3 8 140 25 2.4 1 21 4 141 13 2.4 1 6 7 142 14 2.4 1 7 7 143 8 2.4 1 4 4 144 15 2.4 1 10 5 145 13 2.4 1 8 5 146 11 2.4 1 8 3 147 9 2.4 1 3 6 148 8 2.4 1 6 2 149 12 2.4 1 9 3 150 13 2.4 1 3 10 RUN STATISTICS FOR INPUT FILE: ERR13913492_2.fastq.gz ============================================= 161705499 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 161705499 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 32407 (0.02%)