SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308523_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: 143366). 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 ERR12308523_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1325.661 s (20.175 µs/read; 2.97 M reads/minute). === Summary === Total reads processed: 65,707,566 Reads with adapters: 32,905,446 (50.1%) Reads written (passing filters): 65,707,566 (100.0%) Total basepairs processed: 9,921,842,466 bp Quality-trimmed: 43,093,234 bp (0.4%) Total written (filtered): 9,432,011,132 bp (95.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 32905446 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 34.3% C: 1.7% G: 17.0% T: 47.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 16273190 16426891.5 0 16273190 2 2849043 4106722.9 0 2849043 3 1285997 1026680.7 0 1285997 4 623210 256670.2 0 623210 5 261676 64167.5 0 261676 6 226423 16041.9 0 226423 7 224800 4010.5 0 224800 8 245855 1002.6 0 245855 9 212256 250.7 0 210507 1749 10 233366 62.7 1 211756 21610 11 245693 15.7 1 216288 29405 12 257502 3.9 1 229908 27594 13 217729 1.0 1 196773 20956 14 236379 1.0 1 207377 29002 15 238790 1.0 1 215669 23121 16 223464 1.0 1 196295 27169 17 249485 1.0 1 217750 31735 18 286055 1.0 1 261411 24644 19 133245 1.0 1 120914 12331 20 215963 1.0 1 196026 19937 21 218071 1.0 1 197954 20117 22 193111 1.0 1 175225 17886 23 219280 1.0 1 198525 20755 24 207243 1.0 1 182106 25137 25 207520 1.0 1 189877 17643 26 179227 1.0 1 165341 13886 27 210065 1.0 1 191271 18794 28 194424 1.0 1 179033 15391 29 195109 1.0 1 174739 20370 30 228306 1.0 1 211566 16740 31 124215 1.0 1 114473 9742 32 186736 1.0 1 172430 14306 33 166405 1.0 1 152180 14225 34 183353 1.0 1 165636 17717 35 173812 1.0 1 160143 13669 36 178469 1.0 1 164673 13796 37 148626 1.0 1 137535 11091 38 174677 1.0 1 159800 14877 39 179873 1.0 1 168080 11793 40 135308 1.0 1 121721 13587 41 162915 1.0 1 151806 11109 42 164733 1.0 1 151436 13297 43 198062 1.0 1 172491 25571 44 112517 1.0 1 100883 11634 45 234646 1.0 1 219920 14726 46 65793 1.0 1 58143 7650 47 160984 1.0 1 140703 20281 48 911420 1.0 1 870518 40902 49 187699 1.0 1 176034 11665 50 106399 1.0 1 99302 7097 51 167430 1.0 1 158948 8482 52 99385 1.0 1 94381 5004 53 37252 1.0 1 33457 3795 54 198508 1.0 1 191776 6732 55 40036 1.0 1 37774 2262 56 21584 1.0 1 19525 2059 57 54635 1.0 1 52768 1867 58 10730 1.0 1 9616 1114 59 20546 1.0 1 19208 1338 60 15505 1.0 1 14398 1107 61 11144 1.0 1 9341 1803 62 82277 1.0 1 78810 3467 63 44014 1.0 1 42560 1454 64 12589 1.0 1 11609 980 65 17069 1.0 1 15143 1926 66 74819 1.0 1 71853 2966 67 25146 1.0 1 23298 1848 68 57195 1.0 1 54128 3067 69 64970 1.0 1 60883 4087 70 118875 1.0 1 113914 4961 71 37608 1.0 1 35409 2199 72 8122 1.0 1 7299 823 73 14602 1.0 1 13573 1029 74 32457 1.0 1 30812 1645 75 44512 1.0 1 42228 2284 76 48601 1.0 1 46227 2374 77 48597 1.0 1 46097 2500 78 47038 1.0 1 44649 2389 79 44880 1.0 1 42532 2348 80 43204 1.0 1 40972 2232 81 40640 1.0 1 38591 2049 82 38782 1.0 1 36808 1974 83 36699 1.0 1 34803 1896 84 34525 1.0 1 32756 1769 85 33034 1.0 1 31431 1603 86 31096 1.0 1 29580 1516 87 28999 1.0 1 27555 1444 88 27734 1.0 1 26392 1342 89 25569 1.0 1 24342 1227 90 23654 1.0 1 22520 1134 91 22621 1.0 1 21518 1103 92 21116 1.0 1 20132 984 93 19667 1.0 1 18736 931 94 18073 1.0 1 17183 890 95 17347 1.0 1 16537 810 96 16037 1.0 1 15244 793 97 14866 1.0 1 14194 672 98 13965 1.0 1 13297 668 99 12796 1.0 1 12209 587 100 11674 1.0 1 11124 550 101 10977 1.0 1 10477 500 102 9908 1.0 1 9458 450 103 9260 1.0 1 8853 407 104 8524 1.0 1 8133 391 105 7756 1.0 1 7393 363 106 6897 1.0 1 6582 315 107 6427 1.0 1 6117 310 108 5515 1.0 1 5268 247 109 4852 1.0 1 4640 212 110 4395 1.0 1 4204 191 111 3992 1.0 1 3815 177 112 3457 1.0 1 3267 190 113 2952 1.0 1 2801 151 114 2636 1.0 1 2512 124 115 2289 1.0 1 2165 124 116 1846 1.0 1 1753 93 117 1721 1.0 1 1628 93 118 1340 1.0 1 1253 87 119 1111 1.0 1 1039 72 120 1086 1.0 1 1032 54 121 911 1.0 1 852 59 122 679 1.0 1 626 53 123 523 1.0 1 476 47 124 470 1.0 1 423 47 125 328 1.0 1 291 37 126 314 1.0 1 289 25 127 237 1.0 1 195 42 128 191 1.0 1 162 29 129 176 1.0 1 156 20 130 152 1.0 1 123 29 131 144 1.0 1 135 9 132 116 1.0 1 101 15 133 112 1.0 1 94 18 134 101 1.0 1 73 28 135 94 1.0 1 82 12 136 74 1.0 1 60 14 137 99 1.0 1 83 16 138 82 1.0 1 66 16 139 114 1.0 1 94 20 140 78 1.0 1 46 32 141 95 1.0 1 70 25 142 51 1.0 1 33 18 143 64 1.0 1 40 24 144 61 1.0 1 39 22 145 98 1.0 1 56 42 146 73 1.0 1 37 36 147 67 1.0 1 40 27 148 83 1.0 1 52 31 149 80 1.0 1 53 27 150 116 1.0 1 27 89 151 21379 1.0 1 64 21315 RUN STATISTICS FOR INPUT FILE: ERR12308523_2.fastq.gz ============================================= 65707566 sequences processed in total