SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684015_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: 113330). 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 ERR10684015_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2417.095 s (17.685 µs/read; 3.39 M reads/minute). === Summary === Total reads processed: 136,675,754 Reads with adapters: 79,419,090 (58.1%) Reads written (passing filters): 136,675,754 (100.0%) Total basepairs processed: 20,638,038,854 bp Quality-trimmed: 74,174,928 bp (0.4%) Total written (filtered): 19,796,185,039 bp (95.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 79419090 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.4% C: 17.3% G: 0.5% T: 30.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 59401274 34168938.5 0 59401274 2 443264 8542234.6 0 443264 3 462111 2135558.7 0 462111 4 387262 533889.7 0 387262 5 408880 133472.4 0 408880 6 361259 33368.1 0 361259 7 347326 8342.0 0 347326 8 439153 2085.5 0 439153 9 270203 521.4 0 269240 963 10 369940 130.3 1 341772 28168 11 332609 32.6 1 300553 32056 12 369886 8.1 1 322010 47876 13 353123 2.0 1 307038 46085 14 417188 2.0 1 362678 54510 15 281759 2.0 1 244312 37447 16 342637 2.0 1 297574 45063 17 448005 2.0 1 393985 54020 18 213683 2.0 1 184975 28708 19 445662 2.0 1 390600 55062 20 330093 2.0 1 290470 39623 21 197179 2.0 1 170927 26252 22 309407 2.0 1 270894 38513 23 312885 2.0 1 273941 38944 24 409844 2.0 1 360535 49309 25 365916 2.0 1 323774 42142 26 259436 2.0 1 228064 31372 27 203002 2.0 1 176336 26666 28 346840 2.0 1 310446 36394 29 226398 2.0 1 198854 27544 30 331748 2.0 1 296669 35079 31 228119 2.0 1 201391 26728 32 308712 2.0 1 276177 32535 33 223405 2.0 1 197870 25535 34 286278 2.0 1 253662 32616 35 320156 2.0 1 288624 31532 36 270687 2.0 1 241666 29021 37 231099 2.0 1 206180 24919 38 187473 2.0 1 166973 20500 39 252916 2.0 1 226226 26690 40 285507 2.0 1 257189 28318 41 191755 2.0 1 171083 20672 42 249560 2.0 1 224592 24968 43 211622 2.0 1 190053 21569 44 217364 2.0 1 196107 21257 45 236291 2.0 1 212382 23909 46 231098 2.0 1 207998 23100 47 205163 2.0 1 186520 18643 48 194728 2.0 1 175374 19354 49 213543 2.0 1 192188 21355 50 192640 2.0 1 175964 16676 51 183044 2.0 1 166492 16552 52 189126 2.0 1 171849 17277 53 184273 2.0 1 167673 16600 54 210678 2.0 1 192543 18135 55 143557 2.0 1 130373 13184 56 179035 2.0 1 162550 16485 57 243367 2.0 1 222830 20537 58 116580 2.0 1 105354 11226 59 138161 2.0 1 126026 12135 60 184923 2.0 1 169299 15624 61 165013 2.0 1 150922 14091 62 118058 2.0 1 107485 10573 63 287237 2.0 1 265493 21744 64 113811 2.0 1 103922 9889 65 93974 2.0 1 86015 7959 66 88248 2.0 1 80642 7606 67 148737 2.0 1 137949 10788 68 130595 2.0 1 119973 10622 69 116816 2.0 1 107604 9212 70 130526 2.0 1 120840 9686 71 125479 2.0 1 115884 9595 72 123510 2.0 1 113710 9800 73 160525 2.0 1 148734 11791 74 96366 2.0 1 89245 7121 75 95747 2.0 1 89208 6539 76 69643 2.0 1 64711 4932 77 67799 2.0 1 62743 5056 78 71285 2.0 1 66260 5025 79 70520 2.0 1 65387 5133 80 69634 2.0 1 64625 5009 81 68121 2.0 1 63247 4874 82 66402 2.0 1 61670 4732 83 68160 2.0 1 63631 4529 84 64532 2.0 1 60079 4453 85 64241 2.0 1 59929 4312 86 58488 2.0 1 54716 3772 87 55162 2.0 1 51550 3612 88 52223 2.0 1 48824 3399 89 50220 2.0 1 47003 3217 90 49348 2.0 1 46312 3036 91 45492 2.0 1 42747 2745 92 43490 2.0 1 40903 2587 93 42006 2.0 1 39273 2733 94 37803 2.0 1 35481 2322 95 36178 2.0 1 34005 2173 96 34052 2.0 1 32071 1981 97 32433 2.0 1 30504 1929 98 32042 2.0 1 30222 1820 99 30656 2.0 1 28875 1781 100 28850 2.0 1 27256 1594 101 24826 2.0 1 23453 1373 102 22310 2.0 1 21146 1164 103 19936 2.0 1 18890 1046 104 18565 2.0 1 17587 978 105 17245 2.0 1 16323 922 106 15376 2.0 1 14641 735 107 14057 2.0 1 13315 742 108 12559 2.0 1 11945 614 109 11221 2.0 1 10671 550 110 9952 2.0 1 9440 512 111 8442 2.0 1 8029 413 112 7342 2.0 1 6987 355 113 6166 2.0 1 5881 285 114 5186 2.0 1 4918 268 115 4244 2.0 1 4035 209 116 3650 2.0 1 3491 159 117 2821 2.0 1 2659 162 118 2255 2.0 1 2151 104 119 1838 2.0 1 1760 78 120 4943 2.0 1 4683 260 121 1201 2.0 1 1149 52 122 737 2.0 1 702 35 123 495 2.0 1 455 40 124 322 2.0 1 306 16 125 229 2.0 1 219 10 126 153 2.0 1 134 19 127 105 2.0 1 91 14 128 81 2.0 1 70 11 129 71 2.0 1 60 11 130 50 2.0 1 45 5 131 31 2.0 1 30 1 132 25 2.0 1 18 7 133 39 2.0 1 30 9 134 15 2.0 1 12 3 135 32 2.0 1 26 6 136 21 2.0 1 17 4 137 20 2.0 1 17 3 138 14 2.0 1 13 1 139 24 2.0 1 19 5 140 18 2.0 1 11 7 141 20 2.0 1 15 5 142 10 2.0 1 5 5 143 14 2.0 1 8 6 144 14 2.0 1 7 7 145 15 2.0 1 9 6 146 11 2.0 1 6 5 147 15 2.0 1 4 11 148 6 2.0 1 2 4 149 25 2.0 1 15 10 150 11 2.0 1 4 7 151 78 2.0 1 51 27 RUN STATISTICS FOR INPUT FILE: ERR10684015_2.fastq.gz ============================================= 136675754 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 136675754 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 47068 (0.03%)