SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308508_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: 145236). 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 ERR12308508_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1093.503 s (18.743 µs/read; 3.20 M reads/minute). === Summary === Total reads processed: 58,342,110 Reads with adapters: 29,399,166 (50.4%) Reads written (passing filters): 58,342,110 (100.0%) Total basepairs processed: 8,809,658,610 bp Quality-trimmed: 37,968,163 bp (0.4%) Total written (filtered): 8,370,720,569 bp (95.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 29399166 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.2% C: 2.2% G: 16.2% T: 45.3% none/other: 0.2% Overview of removed sequences length count expect max.err error counts 1 14585749 14585527.5 0 14585749 2 2515916 3646381.9 0 2515916 3 1131216 911595.5 0 1131216 4 542322 227898.9 0 542322 5 231818 56974.7 0 231818 6 200586 14243.7 0 200586 7 200640 3560.9 0 200640 8 219460 890.2 0 219460 9 186933 222.6 0 185716 1217 10 209978 55.6 1 190973 19005 11 216437 13.9 1 193173 23264 12 227105 3.5 1 203973 23132 13 199284 0.9 1 181296 17988 14 204251 0.9 1 181436 22815 15 211277 0.9 1 191688 19589 16 198465 0.9 1 175766 22699 17 222989 0.9 1 196205 26784 18 258308 0.9 1 237277 21031 19 121646 0.9 1 111582 10064 20 192061 0.9 1 175756 16305 21 203030 0.9 1 185411 17619 22 174660 0.9 1 159580 15080 23 203637 0.9 1 186070 17567 24 183408 0.9 1 162088 21320 25 190340 0.9 1 175663 14677 26 157093 0.9 1 145795 11298 27 190245 0.9 1 174342 15903 28 179636 0.9 1 166343 13293 29 176957 0.9 1 159586 17371 30 216134 0.9 1 201272 14862 31 107486 0.9 1 99936 7550 32 166711 0.9 1 154967 11744 33 163557 0.9 1 148876 14681 34 183291 0.9 1 167640 15651 35 132185 0.9 1 123641 8544 36 166835 0.9 1 152938 13897 37 197055 0.9 1 184143 12912 38 95633 0.9 1 89007 6626 39 147326 0.9 1 137531 9795 40 151519 0.9 1 141526 9993 41 138732 0.9 1 128271 10461 42 156465 0.9 1 145635 10830 43 154446 0.9 1 138881 15565 44 122782 0.9 1 111590 11192 45 214218 0.9 1 202604 11614 46 57045 0.9 1 50579 6466 47 135777 0.9 1 123216 12561 48 536387 0.9 1 511749 24638 49 124794 0.9 1 115864 8930 50 122702 0.9 1 115338 7364 51 185616 0.9 1 177160 8456 52 104980 0.9 1 99546 5434 53 53140 0.9 1 49319 3821 54 224053 0.9 1 217267 6786 55 68383 0.9 1 65291 3092 56 25777 0.9 1 23271 2506 57 74672 0.9 1 72580 2092 58 14604 0.9 1 13193 1411 59 32195 0.9 1 30441 1754 60 21960 0.9 1 20795 1165 61 13406 0.9 1 11548 1858 62 86924 0.9 1 83241 3683 63 65601 0.9 1 63932 1669 64 13647 0.9 1 12489 1158 65 22228 0.9 1 20378 1850 66 77097 0.9 1 74023 3074 67 32150 0.9 1 30330 1820 68 55856 0.9 1 53290 2566 69 60516 0.9 1 57343 3173 70 111423 0.9 1 107465 3958 71 26718 0.9 1 25032 1686 72 7807 0.9 1 6978 829 73 17527 0.9 1 16434 1093 74 32258 0.9 1 30887 1371 75 40555 0.9 1 38752 1803 76 42127 0.9 1 40233 1894 77 41492 0.9 1 39631 1861 78 40232 0.9 1 38413 1819 79 38056 0.9 1 36289 1767 80 36498 0.9 1 34809 1689 81 34136 0.9 1 32601 1535 82 32326 0.9 1 30854 1472 83 30204 0.9 1 28830 1374 84 28466 0.9 1 27156 1310 85 26434 0.9 1 25219 1215 86 25066 0.9 1 23967 1099 87 22951 0.9 1 21984 967 88 21605 0.9 1 20626 979 89 20450 0.9 1 19552 898 90 19008 0.9 1 18129 879 91 17864 0.9 1 17093 771 92 16333 0.9 1 15654 679 93 15003 0.9 1 14308 695 94 13918 0.9 1 13352 566 95 12777 0.9 1 12153 624 96 11945 0.9 1 11451 494 97 10846 0.9 1 10342 504 98 10029 0.9 1 9619 410 99 9139 0.9 1 8668 471 100 8434 0.9 1 8033 401 101 7932 0.9 1 7499 433 102 7168 0.9 1 6833 335 103 6517 0.9 1 6179 338 104 5685 0.9 1 5428 257 105 5285 0.9 1 5045 240 106 4568 0.9 1 4340 228 107 4100 0.9 1 3917 183 108 3605 0.9 1 3428 177 109 3265 0.9 1 3095 170 110 2922 0.9 1 2769 153 111 2559 0.9 1 2448 111 112 2224 0.9 1 2097 127 113 1891 0.9 1 1781 110 114 1607 0.9 1 1505 102 115 1489 0.9 1 1384 105 116 1202 0.9 1 1118 84 117 1049 0.9 1 981 68 118 884 0.9 1 823 61 119 822 0.9 1 772 50 120 1473 0.9 1 1397 76 121 1606 0.9 1 1524 82 122 573 0.9 1 526 47 123 447 0.9 1 389 58 124 374 0.9 1 333 41 125 334 0.9 1 299 35 126 285 0.9 1 255 30 127 243 0.9 1 209 34 128 204 0.9 1 175 29 129 234 0.9 1 196 38 130 157 0.9 1 140 17 131 192 0.9 1 167 25 132 125 0.9 1 100 25 133 177 0.9 1 161 16 134 131 0.9 1 109 22 135 160 0.9 1 146 14 136 124 0.9 1 108 16 137 125 0.9 1 114 11 138 87 0.9 1 73 14 139 126 0.9 1 109 17 140 87 0.9 1 74 13 141 91 0.9 1 78 13 142 75 0.9 1 47 28 143 65 0.9 1 51 14 144 45 0.9 1 22 23 145 68 0.9 1 45 23 146 31 0.9 1 17 14 147 51 0.9 1 33 18 148 55 0.9 1 31 24 149 79 0.9 1 53 26 150 145 0.9 1 30 115 151 45464 0.9 1 99 45365 RUN STATISTICS FOR INPUT FILE: ERR12308508_2.fastq.gz ============================================= 58342110 sequences processed in total