SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308510_1.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: 106891). Second best hit was Nextera (count: 1) 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 ERR12308510_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1212.219 s (16.502 µs/read; 3.64 M reads/minute). === Summary === Total reads processed: 73,458,386 Reads with adapters: 35,255,130 (48.0%) Reads written (passing filters): 73,458,386 (100.0%) Total basepairs processed: 11,092,216,286 bp Quality-trimmed: 39,270,870 bp (0.4%) Total written (filtered): 10,686,628,670 bp (96.3%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 35255130 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.3% C: 1.9% G: 16.2% T: 45.6% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 19529831 18364596.5 0 19529831 2 3380892 4591149.1 0 3380892 3 1515588 1147787.3 0 1515588 4 697842 286946.8 0 697842 5 269250 71736.7 0 269250 6 234535 17934.2 0 234535 7 227761 4483.5 0 227761 8 242304 1120.9 0 242304 9 222860 280.2 0 221664 1196 10 230999 70.1 1 211572 19427 11 240495 17.5 1 214681 25814 12 251127 4.4 1 226895 24232 13 207634 1.1 1 190253 17381 14 225046 1.1 1 200725 24321 15 221837 1.1 1 202970 18867 16 217069 1.1 1 192552 24517 17 238378 1.1 1 211283 27095 18 269524 1.1 1 249356 20168 19 125955 1.1 1 116016 9939 20 198763 1.1 1 182674 16089 21 204642 1.1 1 187694 16948 22 173276 1.1 1 159522 13754 23 197101 1.1 1 180275 16826 24 186108 1.1 1 165402 20706 25 183063 1.1 1 169401 13662 26 160238 1.1 1 149366 10872 27 187843 1.1 1 172606 15237 28 171515 1.1 1 160217 11298 29 170474 1.1 1 155087 15387 30 208242 1.1 1 194637 13605 31 98121 1.1 1 91707 6414 32 161710 1.1 1 151182 10528 33 136944 1.1 1 126713 10231 34 154795 1.1 1 141637 13158 35 162765 1.1 1 149488 13277 36 128959 1.1 1 121452 7507 37 141218 1.1 1 131875 9343 38 139408 1.1 1 132159 7249 39 114297 1.1 1 105107 9190 40 133604 1.1 1 124626 8978 41 137754 1.1 1 129036 8718 42 131011 1.1 1 121737 9274 43 162548 1.1 1 144560 17988 44 79246 1.1 1 72333 6913 45 190920 1.1 1 180461 10459 46 38842 1.1 1 34929 3913 47 116383 1.1 1 107409 8974 48 329298 1.1 1 312254 17044 49 65180 1.1 1 60107 5073 50 123000 1.1 1 115985 7015 51 120914 1.1 1 114619 6295 52 80329 1.1 1 76538 3791 53 74461 1.1 1 70217 4244 54 272172 1.1 1 263370 8802 55 59239 1.1 1 56761 2478 56 17174 1.1 1 15574 1600 57 94536 1.1 1 91867 2669 58 13889 1.1 1 12921 968 59 33137 1.1 1 31664 1473 60 29223 1.1 1 28212 1011 61 10002 1.1 1 8894 1108 62 75475 1.1 1 72418 3057 63 78453 1.1 1 76651 1802 64 9665 1.1 1 8959 706 65 19674 1.1 1 18391 1283 66 65262 1.1 1 62960 2302 67 34039 1.1 1 32509 1530 68 52037 1.1 1 49669 2368 69 55838 1.1 1 53079 2759 70 100296 1.1 1 96538 3758 71 14379 1.1 1 13286 1093 72 5165 1.1 1 4713 452 73 16161 1.1 1 15400 761 74 28140 1.1 1 26943 1197 75 33835 1.1 1 32425 1410 76 34356 1.1 1 32848 1508 77 33545 1.1 1 32082 1463 78 31820 1.1 1 30436 1384 79 30390 1.1 1 29016 1374 80 29290 1.1 1 27926 1364 81 27492 1.1 1 26311 1181 82 25619 1.1 1 24521 1098 83 23665 1.1 1 22593 1072 84 22351 1.1 1 21369 982 85 20750 1.1 1 19798 952 86 19443 1.1 1 18650 793 87 18532 1.1 1 17694 838 88 17032 1.1 1 16309 723 89 15742 1.1 1 15038 704 90 14803 1.1 1 14191 612 91 13513 1.1 1 12951 562 92 12434 1.1 1 11907 527 93 11531 1.1 1 11035 496 94 10529 1.1 1 10076 453 95 9761 1.1 1 9302 459 96 8620 1.1 1 8251 369 97 8097 1.1 1 7716 381 98 7377 1.1 1 7023 354 99 6568 1.1 1 6260 308 100 5953 1.1 1 5698 255 101 5357 1.1 1 5133 224 102 5056 1.1 1 4810 246 103 4291 1.1 1 4090 201 104 3803 1.1 1 3632 171 105 3349 1.1 1 3189 160 106 2922 1.1 1 2807 115 107 2739 1.1 1 2577 162 108 2353 1.1 1 2253 100 109 2110 1.1 1 1990 120 110 1709 1.1 1 1622 87 111 1528 1.1 1 1444 84 112 1244 1.1 1 1180 64 113 1241 1.1 1 1158 83 114 934 1.1 1 873 61 115 805 1.1 1 744 61 116 591 1.1 1 545 46 117 553 1.1 1 512 41 118 449 1.1 1 397 52 119 432 1.1 1 377 55 120 438 1.1 1 393 45 121 570 1.1 1 523 47 122 320 1.1 1 286 34 123 217 1.1 1 185 32 124 196 1.1 1 169 27 125 198 1.1 1 157 41 126 167 1.1 1 124 43 127 176 1.1 1 137 39 128 137 1.1 1 116 21 129 141 1.1 1 117 24 130 120 1.1 1 90 30 131 141 1.1 1 124 17 132 90 1.1 1 67 23 133 128 1.1 1 97 31 134 81 1.1 1 58 23 135 113 1.1 1 81 32 136 86 1.1 1 59 27 137 108 1.1 1 89 19 138 66 1.1 1 49 17 139 91 1.1 1 62 29 140 70 1.1 1 51 19 141 82 1.1 1 62 20 142 62 1.1 1 42 20 143 54 1.1 1 40 14 144 55 1.1 1 28 27 145 66 1.1 1 40 26 146 82 1.1 1 43 39 147 61 1.1 1 41 20 148 50 1.1 1 31 19 149 79 1.1 1 57 22 150 116 1.1 1 36 80 151 20400 1.1 1 65 20335 RUN STATISTICS FOR INPUT FILE: ERR12308510_1.fastq.gz ============================================= 73458386 sequences processed in total