SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245598_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 234452). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245598_2.fastq.gz Processing single-end reads on 1 core ... Finished in 6515.745 s (67.369 µs/read; 0.89 M reads/minute). === Summary === Total reads processed: 96,717,703 Reads with adapters: 61,102,141 (63.2%) Reads written (passing filters): 96,717,703 (100.0%) Total basepairs processed: 14,507,655,450 bp Quality-trimmed: 61,684,666 bp (0.4%) Total written (filtered): 12,561,447,631 bp (86.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 61102141 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 44.8% C: 17.5% G: 1.2% T: 33.1% none/other: 3.4% Overview of removed sequences length count expect max.err error counts 1 34674729 24179425.8 0 34674729 2 405906 6044856.4 0 405906 3 394673 1511214.1 0 394673 4 363618 377803.5 0 363618 5 355082 94450.9 0 355082 6 299923 23612.7 0 299923 7 308688 5903.2 0 308688 8 334816 1475.8 0 334816 9 262326 368.9 0 261206 1120 10 310473 92.2 1 286318 24155 11 309133 23.1 1 277952 31181 12 310415 5.8 1 281532 28883 13 285209 1.4 1 261050 24159 14 296808 1.4 1 269063 27745 15 270135 1.4 1 247182 22953 16 281561 1.4 1 255579 25982 17 296968 1.4 1 272327 24641 18 230883 1.4 1 212448 18435 19 276129 1.4 1 252949 23180 20 271888 1.4 1 250320 21568 21 228180 1.4 1 206235 21945 22 241070 1.4 1 222291 18779 23 232042 1.4 1 215354 16688 24 263986 1.4 1 242693 21293 25 267613 1.4 1 248889 18724 26 181386 1.4 1 166009 15377 27 203956 1.4 1 185373 18583 28 216548 1.4 1 202420 14128 29 208566 1.4 1 190844 17722 30 210133 1.4 1 194762 15371 31 194969 1.4 1 180724 14245 32 195551 1.4 1 182543 13008 33 216241 1.4 1 200555 15686 34 185107 1.4 1 167710 17397 35 183065 1.4 1 169448 13617 36 189719 1.4 1 177928 11791 37 172198 1.4 1 160134 12064 38 171396 1.4 1 159488 11908 39 183358 1.4 1 170691 12667 40 155790 1.4 1 145173 10617 41 164293 1.4 1 153957 10336 42 217701 1.4 1 205370 12331 43 120574 1.4 1 110114 10460 44 287117 1.4 1 273926 13191 45 201706 1.4 1 188620 13086 46 129355 1.4 1 114908 14447 47 311926 1.4 1 302439 9487 48 50613 1.4 1 43721 6892 49 147387 1.4 1 137049 10338 50 52173 1.4 1 47980 4193 51 93749 1.4 1 86436 7313 52 59354 1.4 1 54223 5131 53 129089 1.4 1 122287 6802 54 209853 1.4 1 201882 7971 55 56893 1.4 1 50920 5973 56 142459 1.4 1 130581 11878 57 559597 1.4 1 545907 13690 58 84643 1.4 1 77077 7566 59 44562 1.4 1 38383 6179 60 306444 1.4 1 297094 9350 61 46817 1.4 1 43053 3764 62 52988 1.4 1 46454 6534 63 313254 1.4 1 301546 11708 64 388825 1.4 1 380564 8261 65 36705 1.4 1 32744 3961 66 77244 1.4 1 72964 4280 67 46690 1.4 1 44398 2292 68 33826 1.4 1 30428 3398 69 52047 1.4 1 48802 3245 70 83630 1.4 1 79979 3651 71 35768 1.4 1 33108 2660 72 34229 1.4 1 31422 2807 73 46690 1.4 1 43311 3379 74 57897 1.4 1 52956 4941 75 105114 1.4 1 96774 8340 76 146550 1.4 1 137563 8987 77 99916 1.4 1 93240 6676 78 101760 1.4 1 96569 5191 79 102940 1.4 1 97914 5026 80 105668 1.4 1 100748 4920 81 108433 1.4 1 103338 5095 82 115514 1.4 1 109109 6405 83 140792 1.4 1 133839 6953 84 133779 1.4 1 126279 7500 85 152635 1.4 1 145243 7392 86 128944 1.4 1 122579 6365 87 117236 1.4 1 110818 6418 88 113096 1.4 1 106814 6282 89 108945 1.4 1 104102 4843 90 108788 1.4 1 104691 4097 91 107262 1.4 1 103251 4011 92 108507 1.4 1 104569 3938 93 109637 1.4 1 105760 3877 94 109185 1.4 1 105107 4078 95 110363 1.4 1 106218 4145 96 111317 1.4 1 107352 3965 97 114023 1.4 1 109986 4037 98 120063 1.4 1 116250 3813 99 125252 1.4 1 121164 4088 100 128386 1.4 1 124437 3949 101 120936 1.4 1 117148 3788 102 117279 1.4 1 113490 3789 103 115610 1.4 1 111877 3733 104 115131 1.4 1 111302 3829 105 119431 1.4 1 115733 3698 106 120996 1.4 1 117147 3849 107 123774 1.4 1 120140 3634 108 124887 1.4 1 121110 3777 109 122561 1.4 1 118666 3895 110 124409 1.4 1 120474 3935 111 126710 1.4 1 122738 3972 112 129607 1.4 1 125564 4043 113 134347 1.4 1 130229 4118 114 131984 1.4 1 127808 4176 115 131758 1.4 1 127560 4198 116 135335 1.4 1 131223 4112 117 136396 1.4 1 132041 4355 118 143402 1.4 1 138706 4696 119 145935 1.4 1 141109 4826 120 148894 1.4 1 143770 5124 121 149972 1.4 1 144621 5351 122 148566 1.4 1 142745 5821 123 162648 1.4 1 155727 6921 124 154384 1.4 1 147628 6756 125 158001 1.4 1 149919 8082 126 152449 1.4 1 143280 9169 127 148686 1.4 1 137462 11224 128 151387 1.4 1 136380 15007 129 160368 1.4 1 137435 22933 130 161101 1.4 1 126360 34741 131 179585 1.4 1 125233 54352 132 195127 1.4 1 118964 76163 133 207513 1.4 1 114762 92751 134 199247 1.4 1 103261 95986 135 191057 1.4 1 93386 97671 136 174262 1.4 1 81723 92539 137 148026 1.4 1 79286 68740 138 133150 1.4 1 84350 48800 139 114801 1.4 1 78738 36063 140 107997 1.4 1 79938 28059 141 116095 1.4 1 96388 19707 142 90870 1.4 1 78366 12504 143 97094 1.4 1 84132 12962 144 125497 1.4 1 108143 17354 145 152075 1.4 1 128976 23099 146 84201 1.4 1 68256 15945 147 17720 1.4 1 12600 5120 148 219075 1.4 1 189234 29841 149 89691 1.4 1 74339 15352 150 1991674 1.4 1 1769278 222396 RUN STATISTICS FOR INPUT FILE: SRR18245598_2.fastq.gz ============================================= 96717703 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 96717703 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 5160087 (5.34%)