SUMMARISING RUN PARAMETERS ========================== Input filename: ERR3678840_1.fastq Trimming mode: paired-end Trim Galore version: 0.4.4_dev Cutadapt version: 1.9.1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; 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: 100 bp This is cutadapt 1.9.1 with Python 2.7.12 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA ERR3678840_1.fastq Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 6.16 s (17 us/read; 3.48 M reads/minute). === Summary === Total reads processed: 356,967 Reads with adapters: 97,834 (27.4%) Reads written (passing filters): 356,967 (100.0%) Total basepairs processed: 76,767,293 bp Quality-trimmed: 36 bp (0.0%) Total written (filtered): 76,548,524 bp (99.7%) === Adapter 1 === Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 97834 times. No. of allowed errors: 0-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 34.3% C: 20.9% G: 17.1% T: 27.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 73619 89241.8 0 73619 2 14982 22310.4 0 14982 3 2688 5577.6 0 2688 4 1327 1394.4 0 1327 5 340 348.6 0 340 6 444 87.2 0 444 7 252 21.8 0 252 8 422 5.4 0 422 9 541 1.4 0 535 6 10 282 0.3 1 275 7 11 396 0.1 1 389 7 12 620 0.0 1 617 3 13 247 0.0 1 246 1 14 474 0.0 1 471 3 15 358 0.0 1 354 4 16 305 0.0 1 301 4 17 3 0.0 1 0 3 18 3 0.0 1 0 3 19 2 0.0 1 2 20 5 0.0 1 0 5 21 8 0.0 1 2 6 22 4 0.0 1 0 4 23 2 0.0 1 0 2 24 2 0.0 1 1 1 25 3 0.0 1 2 1 26 1 0.0 1 1 27 3 0.0 1 0 3 28 2 0.0 1 0 2 29 3 0.0 1 0 3 30 1 0.0 1 0 1 31 6 0.0 1 2 4 32 4 0.0 1 1 3 33 2 0.0 1 1 1 34 1 0.0 1 0 1 35 5 0.0 1 2 3 36 2 0.0 1 0 2 37 3 0.0 1 2 1 38 5 0.0 1 3 2 39 2 0.0 1 0 2 40 6 0.0 1 0 6 41 11 0.0 1 3 8 42 7 0.0 1 2 5 43 15 0.0 1 8 7 44 3 0.0 1 0 3 45 1 0.0 1 0 1 46 1 0.0 1 0 1 47 2 0.0 1 0 2 48 1 0.0 1 0 1 49 4 0.0 1 1 3 50 2 0.0 1 0 2 51 6 0.0 1 0 6 52 3 0.0 1 0 3 53 2 0.0 1 0 2 54 3 0.0 1 0 3 55 3 0.0 1 1 2 56 2 0.0 1 0 2 57 1 0.0 1 0 1 58 2 0.0 1 1 1 59 2 0.0 1 1 1 60 5 0.0 1 2 3 61 2 0.0 1 0 2 62 2 0.0 1 0 2 63 4 0.0 1 1 3 65 1 0.0 1 0 1 66 10 0.0 1 3 7 67 2 0.0 1 0 2 68 3 0.0 1 1 2 69 3 0.0 1 0 3 70 3 0.0 1 0 3 71 6 0.0 1 2 4 72 7 0.0 1 4 3 73 11 0.0 1 2 9 74 20 0.0 1 4 16 75 30 0.0 1 11 19 76 53 0.0 1 13 40 77 12 0.0 1 2 10 78 4 0.0 1 1 3 79 6 0.0 1 3 3 80 2 0.0 1 0 2 81 1 0.0 1 0 1 82 5 0.0 1 1 4 84 2 0.0 1 0 2 85 1 0.0 1 0 1 86 1 0.0 1 0 1 87 1 0.0 1 0 1 89 1 0.0 1 0 1 90 1 0.0 1 0 1 92 2 0.0 1 0 2 93 1 0.0 1 0 1 94 1 0.0 1 0 1 95 1 0.0 1 0 1 99 2 0.0 1 0 2 100 3 0.0 1 0 3 101 2 0.0 1 0 2 102 4 0.0 1 0 4 103 4 0.0 1 0 4 104 2 0.0 1 0 2 105 2 0.0 1 0 2 106 1 0.0 1 0 1 107 1 0.0 1 0 1 108 1 0.0 1 0 1 109 1 0.0 1 0 1 112 1 0.0 1 0 1 113 1 0.0 1 0 1 115 1 0.0 1 0 1 117 1 0.0 1 0 1 118 2 0.0 1 0 2 119 2 0.0 1 0 2 122 1 0.0 1 0 1 123 1 0.0 1 0 1 124 2 0.0 1 0 2 127 1 0.0 1 0 1 128 2 0.0 1 0 2 131 1 0.0 1 0 1 132 1 0.0 1 0 1 134 1 0.0 1 0 1 136 1 0.0 1 0 1 137 2 0.0 1 0 2 138 1 0.0 1 0 1 139 1 0.0 1 0 1 141 1 0.0 1 0 1 142 2 0.0 1 0 2 143 1 0.0 1 0 1 145 1 0.0 1 0 1 146 1 0.0 1 0 1 147 2 0.0 1 0 2 148 2 0.0 1 0 2 149 1 0.0 1 0 1 150 1 0.0 1 0 1 151 3 0.0 1 0 3 153 3 0.0 1 0 3 154 3 0.0 1 0 3 157 1 0.0 1 0 1 158 3 0.0 1 0 3 159 3 0.0 1 0 3 160 2 0.0 1 0 2 161 3 0.0 1 0 3 163 3 0.0 1 0 3 164 3 0.0 1 0 3 165 1 0.0 1 0 1 167 2 0.0 1 0 2 168 1 0.0 1 0 1 169 1 0.0 1 0 1 170 1 0.0 1 0 1 171 4 0.0 1 0 4 172 1 0.0 1 0 1 173 1 0.0 1 0 1 175 3 0.0 1 0 3 177 1 0.0 1 0 1 178 2 0.0 1 0 2 181 4 0.0 1 0 4 184 1 0.0 1 0 1 186 1 0.0 1 0 1 187 1 0.0 1 0 1 188 1 0.0 1 0 1 189 2 0.0 1 0 2 191 1 0.0 1 0 1 193 1 0.0 1 0 1 194 2 0.0 1 0 2 195 2 0.0 1 0 2 197 2 0.0 1 0 2 199 2 0.0 1 0 2 200 2 0.0 1 0 2 201 1 0.0 1 0 1 202 2 0.0 1 0 2 206 4 0.0 1 0 4 209 5 0.0 1 0 5 210 1 0.0 1 0 1 211 1 0.0 1 0 1 213 2 0.0 1 0 2 214 1 0.0 1 0 1 215 5 0.0 1 0 5 216 1 0.0 1 0 1 217 2 0.0 1 0 2 219 1 0.0 1 0 1 222 1 0.0 1 0 1 224 1 0.0 1 0 1 226 2 0.0 1 0 2 232 2 0.0 1 0 2 234 2 0.0 1 0 2 235 3 0.0 1 0 3 237 1 0.0 1 0 1 238 4 0.0 1 0 4 239 1 0.0 1 0 1 240 2 0.0 1 0 2 241 2 0.0 1 0 2 242 1 0.0 1 0 1 243 3 0.0 1 0 3 244 2 0.0 1 0 2 246 1 0.0 1 0 1 247 2 0.0 1 0 2 248 3 0.0 1 0 3 RUN STATISTICS FOR INPUT FILE: ERR3678840_1.fastq ============================================= 356967 sequences processed in total