SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684001_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: 149537). 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 ERR10684001_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1925.902 s (20.616 µs/read; 2.91 M reads/minute). === Summary === Total reads processed: 93,417,878 Reads with adapters: 55,377,499 (59.3%) Reads written (passing filters): 93,417,878 (100.0%) Total basepairs processed: 14,106,099,578 bp Quality-trimmed: 53,568,965 bp (0.4%) Total written (filtered): 13,343,383,258 bp (94.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 55377499 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.1% C: 18.8% G: 1.0% T: 29.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 35955277 23354469.5 0 35955277 2 1120440 5838617.4 0 1120440 3 461044 1459654.3 0 461044 4 349723 364913.6 0 349723 5 352499 91228.4 0 352499 6 340797 22807.1 0 340797 7 340008 5701.8 0 340008 8 386366 1425.4 0 386366 9 277660 356.4 0 276695 965 10 343429 89.1 1 308266 35163 11 313515 22.3 1 283318 30197 12 330742 5.6 1 290881 39861 13 326501 1.4 1 287013 39488 14 388227 1.4 1 339667 48560 15 252832 1.4 1 224428 28404 16 310038 1.4 1 276232 33806 17 412371 1.4 1 366731 45640 18 201339 1.4 1 178639 22700 19 379696 1.4 1 335791 43905 20 302007 1.4 1 269464 32543 21 215960 1.4 1 193514 22446 22 290279 1.4 1 259548 30731 23 288017 1.4 1 256550 31467 24 328551 1.4 1 288218 40333 25 336554 1.4 1 301146 35408 26 246583 1.4 1 220472 26111 27 217000 1.4 1 192863 24137 28 299869 1.4 1 268612 31257 29 233160 1.4 1 209665 23495 30 297254 1.4 1 267260 29994 31 224606 1.4 1 202117 22489 32 253189 1.4 1 226854 26335 33 245775 1.4 1 221135 24640 34 306106 1.4 1 273289 32817 35 239745 1.4 1 217713 22032 36 222406 1.4 1 201314 21092 37 232403 1.4 1 210625 21778 38 196070 1.4 1 177684 18386 39 244944 1.4 1 221997 22947 40 243593 1.4 1 223289 20304 41 181696 1.4 1 165250 16446 42 231109 1.4 1 210738 20371 43 198560 1.4 1 180986 17574 44 205771 1.4 1 187290 18481 45 212877 1.4 1 193536 19341 46 207900 1.4 1 189912 17988 47 192124 1.4 1 174668 17456 48 187766 1.4 1 171618 16148 49 196436 1.4 1 179318 17118 50 178376 1.4 1 163698 14678 51 172001 1.4 1 157900 14101 52 174754 1.4 1 160796 13958 53 174482 1.4 1 160013 14469 54 187192 1.4 1 171374 15818 55 146801 1.4 1 135255 11546 56 166200 1.4 1 152482 13718 57 203113 1.4 1 186434 16679 58 117643 1.4 1 107914 9729 59 144215 1.4 1 133528 10687 60 155670 1.4 1 143511 12159 61 148382 1.4 1 137208 11174 62 131774 1.4 1 121667 10107 63 206532 1.4 1 191139 15393 64 111764 1.4 1 102942 8822 65 122060 1.4 1 113308 8752 66 92568 1.4 1 85550 7018 67 127406 1.4 1 118398 9008 68 123921 1.4 1 114915 9006 69 110234 1.4 1 102443 7791 70 111657 1.4 1 103891 7766 71 108200 1.4 1 100688 7512 72 112113 1.4 1 104314 7799 73 143614 1.4 1 133853 9761 74 123969 1.4 1 115736 8233 75 111872 1.4 1 104782 7090 76 70916 1.4 1 66123 4793 77 70012 1.4 1 65248 4764 78 72294 1.4 1 67647 4647 79 71488 1.4 1 66839 4649 80 69681 1.4 1 65013 4668 81 67770 1.4 1 63307 4463 82 65811 1.4 1 61634 4177 83 65021 1.4 1 60887 4134 84 62402 1.4 1 58387 4015 85 61318 1.4 1 57424 3894 86 57591 1.4 1 54070 3521 87 54462 1.4 1 51021 3441 88 51844 1.4 1 48725 3119 89 50464 1.4 1 47368 3096 90 49021 1.4 1 46101 2920 91 45158 1.4 1 42347 2811 92 44241 1.4 1 41642 2599 93 41775 1.4 1 39306 2469 94 38566 1.4 1 36253 2313 95 36678 1.4 1 34493 2185 96 35096 1.4 1 32983 2113 97 32463 1.4 1 30557 1906 98 31063 1.4 1 29212 1851 99 30632 1.4 1 28884 1748 100 28491 1.4 1 26969 1522 101 25076 1.4 1 23657 1419 102 22519 1.4 1 21292 1227 103 20740 1.4 1 19615 1125 104 19065 1.4 1 18039 1026 105 18125 1.4 1 17166 959 106 16744 1.4 1 15879 865 107 15034 1.4 1 14281 753 108 13908 1.4 1 13215 693 109 12313 1.4 1 11716 597 110 11086 1.4 1 10524 562 111 10186 1.4 1 9649 537 112 8767 1.4 1 8355 412 113 7778 1.4 1 7415 363 114 6389 1.4 1 6084 305 115 5795 1.4 1 5518 277 116 5045 1.4 1 4804 241 117 4206 1.4 1 4044 162 118 3512 1.4 1 3376 136 119 3054 1.4 1 2909 145 120 5889 1.4 1 5655 234 121 2143 1.4 1 2027 116 122 1471 1.4 1 1405 66 123 1171 1.4 1 1097 74 124 917 1.4 1 875 42 125 673 1.4 1 631 42 126 596 1.4 1 562 34 127 432 1.4 1 407 25 128 285 1.4 1 261 24 129 275 1.4 1 248 27 130 207 1.4 1 189 18 131 208 1.4 1 184 24 132 141 1.4 1 130 11 133 213 1.4 1 195 18 134 128 1.4 1 111 17 135 157 1.4 1 139 18 136 120 1.4 1 103 17 137 147 1.4 1 131 16 138 96 1.4 1 81 15 139 106 1.4 1 87 19 140 97 1.4 1 78 19 141 135 1.4 1 108 27 142 71 1.4 1 52 19 143 87 1.4 1 55 32 144 50 1.4 1 33 17 145 65 1.4 1 44 21 146 52 1.4 1 21 31 147 88 1.4 1 61 27 148 70 1.4 1 43 27 149 114 1.4 1 79 35 150 55 1.4 1 26 29 151 313 1.4 1 232 81 RUN STATISTICS FOR INPUT FILE: ERR10684001_1.fastq.gz ============================================= 93417878 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 93417878 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 95942 (0.10%)