SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245594_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: 1650). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245594_2.fastq.gz Processing single-end reads on 1 core ... Finished in 3557.900 s (44.262 µs/read; 1.36 M reads/minute). === Summary === Total reads processed: 80,383,621 Reads with adapters: 41,847,352 (52.1%) Reads written (passing filters): 80,383,621 (100.0%) Total basepairs processed: 12,057,543,150 bp Quality-trimmed: 38,032,019 bp (0.3%) Total written (filtered): 11,963,542,567 bp (99.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 41847352 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% C: 16.5% G: 0.4% T: 30.3% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 41562521 20095905.2 0 41562521 2 41232 5023976.3 0 41232 3 50068 1255994.1 0 50068 4 15756 313998.5 0 15756 5 5592 78499.6 0 5592 6 3259 19624.9 0 3259 7 3427 4906.2 0 3427 8 3334 1226.6 0 3334 9 2808 306.6 0 2802 6 10 3232 76.7 1 3009 223 11 2826 19.2 1 2458 368 12 3005 4.8 1 2752 253 13 2430 1.2 1 2194 236 14 2746 1.2 1 2516 230 15 2288 1.2 1 2107 181 16 2073 1.2 1 1889 184 17 2801 1.2 1 2564 237 18 1493 1.2 1 1383 110 19 2530 1.2 1 2321 209 20 1744 1.2 1 1581 163 21 1551 1.2 1 1398 153 22 1734 1.2 1 1591 143 23 1674 1.2 1 1542 132 24 2020 1.2 1 1843 177 25 1657 1.2 1 1542 115 26 1407 1.2 1 1267 140 27 1292 1.2 1 1139 153 28 1551 1.2 1 1425 126 29 1214 1.2 1 1082 132 30 1380 1.2 1 1262 118 31 1043 1.2 1 957 86 32 1218 1.2 1 1116 102 33 1059 1.2 1 965 94 34 1320 1.2 1 1165 155 35 967 1.2 1 907 60 36 1171 1.2 1 998 173 37 1398 1.2 1 1305 93 38 837 1.2 1 723 114 39 791 1.2 1 686 105 40 860 1.2 1 801 59 41 818 1.2 1 743 75 42 1440 1.2 1 1321 119 43 551 1.2 1 474 77 44 3146 1.2 1 2974 172 45 761 1.2 1 680 81 46 254 1.2 1 207 47 47 976 1.2 1 939 37 48 209 1.2 1 186 23 49 386 1.2 1 338 48 50 253 1.2 1 231 22 51 274 1.2 1 241 33 52 159 1.2 1 144 15 53 568 1.2 1 531 37 54 907 1.2 1 847 60 55 302 1.2 1 262 40 56 549 1.2 1 514 35 57 1260 1.2 1 1209 51 58 365 1.2 1 331 34 59 312 1.2 1 299 13 60 953 1.2 1 901 52 61 445 1.2 1 417 28 62 186 1.2 1 174 12 63 938 1.2 1 904 34 64 1500 1.2 1 1462 38 65 461 1.2 1 440 21 66 380 1.2 1 366 14 67 440 1.2 1 414 26 68 123 1.2 1 113 10 69 190 1.2 1 177 13 70 264 1.2 1 251 13 71 112 1.2 1 99 13 72 80 1.2 1 71 9 73 123 1.2 1 110 13 74 107 1.2 1 93 14 75 192 1.2 1 172 20 76 291 1.2 1 274 17 77 296 1.2 1 280 16 78 313 1.2 1 288 25 79 359 1.2 1 332 27 80 322 1.2 1 292 30 81 336 1.2 1 306 30 82 358 1.2 1 337 21 83 373 1.2 1 352 21 84 369 1.2 1 341 28 85 375 1.2 1 346 29 86 340 1.2 1 311 29 87 313 1.2 1 290 23 88 322 1.2 1 296 26 89 308 1.2 1 278 30 90 298 1.2 1 276 22 91 326 1.2 1 299 27 92 294 1.2 1 274 20 93 310 1.2 1 284 26 94 312 1.2 1 284 28 95 344 1.2 1 324 20 96 311 1.2 1 287 24 97 322 1.2 1 302 20 98 322 1.2 1 293 29 99 285 1.2 1 269 16 100 341 1.2 1 323 18 101 306 1.2 1 288 18 102 291 1.2 1 271 20 103 290 1.2 1 275 15 104 304 1.2 1 284 20 105 313 1.2 1 294 19 106 270 1.2 1 254 16 107 283 1.2 1 258 25 108 266 1.2 1 244 22 109 258 1.2 1 243 15 110 277 1.2 1 258 19 111 309 1.2 1 289 20 112 280 1.2 1 254 26 113 268 1.2 1 244 24 114 294 1.2 1 266 28 115 299 1.2 1 252 47 116 267 1.2 1 234 33 117 282 1.2 1 219 63 118 271 1.2 1 194 77 119 338 1.2 1 211 127 120 431 1.2 1 237 194 121 458 1.2 1 215 243 122 578 1.2 1 221 357 123 807 1.2 1 286 521 124 844 1.2 1 219 625 125 981 1.2 1 228 753 126 1170 1.2 1 214 956 127 1292 1.2 1 184 1108 128 1351 1.2 1 199 1152 129 1295 1.2 1 223 1072 130 1216 1.2 1 250 966 131 960 1.2 1 236 724 132 826 1.2 1 301 525 133 714 1.2 1 312 402 134 679 1.2 1 327 352 135 654 1.2 1 328 326 136 665 1.2 1 343 322 137 626 1.2 1 342 284 138 627 1.2 1 373 254 139 602 1.2 1 390 212 140 639 1.2 1 441 198 141 714 1.2 1 571 143 142 681 1.2 1 592 89 143 1003 1.2 1 917 86 144 1484 1.2 1 1398 86 145 2800 1.2 1 2712 88 146 1976 1.2 1 1913 63 147 604 1.2 1 573 31 148 9924 1.2 1 9772 152 149 3679 1.2 1 3629 50 150 32173 1.2 1 31788 385 RUN STATISTICS FOR INPUT FILE: SRR18245594_2.fastq.gz ============================================= 80383621 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 80383621 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 83096 (0.10%)