SUMMARISING RUN PARAMETERS ========================== Input filename: MCF7_NOMe-Seq-GSM1383850.end1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.4.4 Cutadapt version: 1.16 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 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 1.16 with Python 2.7.13 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC MCF7_NOMe-Seq-GSM1383850.end1.fastq.gz Running on 1 core Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 10209.67 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 262,903,827 Reads with adapters: 98,914,376 (37.6%) Reads written (passing filters): 262,903,827 (100.0%) Total basepairs processed: 26,290,382,700 bp Quality-trimmed: 1,023,657,290 bp (3.9%) Total written (filtered): 25,133,400,542 bp (95.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 98914376 times. No. of allowed errors: 0-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 39.1% C: 0.6% G: 13.2% T: 47.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 75275155 65725956.8 0 75275155 2 16093731 16431489.2 0 16093731 3 5346004 4107872.3 0 5346004 4 2118318 1026968.1 0 2118318 5 23067 256742.0 0 23067 6 17418 64185.5 0 17418 7 2276 16046.4 0 2276 8 1360 4011.6 0 1360 9 4556 1002.9 0 1102 3454 10 6349 250.7 1 713 5636 11 2901 62.7 1 771 2130 12 1224 15.7 1 676 548 13 656 3.9 1 585 71 14 586 3.9 1 539 47 15 460 3.9 1 414 46 16 442 3.9 1 406 36 17 385 3.9 1 338 47 18 407 3.9 1 364 43 19 421 3.9 1 372 49 20 352 3.9 1 311 41 21 344 3.9 1 286 58 22 371 3.9 1 317 54 23 355 3.9 1 307 48 24 266 3.9 1 214 52 25 322 3.9 1 239 83 26 354 3.9 1 264 90 27 432 3.9 1 338 94 28 343 3.9 1 274 69 29 270 3.9 1 187 83 30 368 3.9 1 263 105 31 351 3.9 1 224 127 32 287 3.9 1 175 112 33 258 3.9 1 157 101 34 246 3.9 1 136 110 35 449 3.9 1 182 267 36 725 3.9 1 448 277 37 584 3.9 1 355 229 38 365 3.9 1 225 140 39 134 3.9 1 97 37 40 77 3.9 1 25 52 41 140 3.9 1 39 101 42 209 3.9 1 79 130 43 169 3.9 1 83 86 44 157 3.9 1 54 103 45 282 3.9 1 71 211 46 291 3.9 1 151 140 47 272 3.9 1 65 207 48 275 3.9 1 100 175 49 249 3.9 1 106 143 50 131 3.9 1 72 59 51 85 3.9 1 20 65 52 128 3.9 1 27 101 53 230 3.9 1 55 175 54 260 3.9 1 100 160 55 392 3.9 1 101 291 56 418 3.9 1 259 159 57 320 3.9 1 66 254 58 393 3.9 1 72 321 59 781 3.9 1 134 647 60 1226 3.9 1 746 480 61 436 3.9 1 247 189 62 251 3.9 1 81 170 63 325 3.9 1 88 237 64 551 3.9 1 153 398 65 833 3.9 1 242 591 66 884 3.9 1 370 514 67 512 3.9 1 305 207 68 223 3.9 1 119 104 69 99 3.9 1 55 44 70 59 3.9 1 24 35 71 27 3.9 1 8 19 72 28 3.9 1 13 15 73 50 3.9 1 25 25 74 29 3.9 1 3 26 75 20 3.9 1 2 18 76 25 3.9 1 1 24 77 21 3.9 1 1 20 78 33 3.9 1 0 33 79 29 3.9 1 6 23 80 25 3.9 1 8 17 81 49 3.9 1 20 29 82 19 3.9 1 0 19 83 21 3.9 1 0 21 84 17 3.9 1 0 17 85 28 3.9 1 0 28 86 17 3.9 1 0 17 87 23 3.9 1 0 23 88 23 3.9 1 0 23 89 26 3.9 1 0 26 90 26 3.9 1 0 26 91 31 3.9 1 0 31 92 35 3.9 1 0 35 93 27 3.9 1 0 27 94 24 3.9 1 0 24 95 20 3.9 1 0 20 96 26 3.9 1 0 26 97 35 3.9 1 0 35 98 24 3.9 1 0 24 99 26 3.9 1 0 26 100 42 3.9 1 0 42 RUN STATISTICS FOR INPUT FILE: MCF7_NOMe-Seq-GSM1383850.end1.fastq.gz ============================================= 262903827 sequences processed in total