This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGGCGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 91.28 s (29 us/read; 2.03 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 17,923 (0.6%) Reads that were too short: 4,539 (0.1%) Reads written (passing filters): 13,384 (0.4%) Total basepairs processed: 931,490,553 bp Total written (filtered): 3,383,281 bp (0.4%) === Adapter 1 === Sequence: TGGCGG; Type: regular 5'; Length: 6; Trimmed: 17923 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1021 755.5 0 1021 7 5982 755.5 0 5982 8 39 755.5 0 39 9 432 755.5 0 432 10 28 755.5 0 28 11 25 755.5 0 25 12 25 755.5 0 25 13 16 755.5 0 16 14 11 755.5 0 11 15 13 755.5 0 13 16 13 755.5 0 13 17 28 755.5 0 28 18 19 755.5 0 19 19 48 755.5 0 48 20 16 755.5 0 16 21 21 755.5 0 21 22 15 755.5 0 15 23 9 755.5 0 9 24 20 755.5 0 20 25 9 755.5 0 9 26 7 755.5 0 7 27 19 755.5 0 19 28 16 755.5 0 16 29 20 755.5 0 20 30 24 755.5 0 24 31 10 755.5 0 10 32 27 755.5 0 27 33 21 755.5 0 21 34 24 755.5 0 24 35 11 755.5 0 11 36 17 755.5 0 17 37 17 755.5 0 17 38 12 755.5 0 12 39 18 755.5 0 18 40 17 755.5 0 17 41 20 755.5 0 20 42 13 755.5 0 13 43 22 755.5 0 22 44 16 755.5 0 16 45 21 755.5 0 21 46 25 755.5 0 25 47 123 755.5 0 123 48 113 755.5 0 113 49 111 755.5 0 111 50 11 755.5 0 11 51 273 755.5 0 273 52 74 755.5 0 74 53 23 755.5 0 23 54 18 755.5 0 18 55 13 755.5 0 13 56 26 755.5 0 26 57 15 755.5 0 15 58 15 755.5 0 15 59 23 755.5 0 23 60 45 755.5 0 45 61 365 755.5 0 365 62 18 755.5 0 18 63 57 755.5 0 57 64 17 755.5 0 17 65 11 755.5 0 11 66 14 755.5 0 14 67 10 755.5 0 10 68 10 755.5 0 10 69 26 755.5 0 26 70 22 755.5 0 22 71 12 755.5 0 12 72 20 755.5 0 20 73 14 755.5 0 14 74 18 755.5 0 18 75 10 755.5 0 10 76 15 755.5 0 15 77 9 755.5 0 9 78 21 755.5 0 21 79 33 755.5 0 33 80 13 755.5 0 13 81 13 755.5 0 13 82 17 755.5 0 17 83 14 755.5 0 14 84 38 755.5 0 38 85 61 755.5 0 61 86 227 755.5 0 227 87 15 755.5 0 15 88 14 755.5 0 14 89 15 755.5 0 15 90 11 755.5 0 11 91 17 755.5 0 17 92 8 755.5 0 8 93 11 755.5 0 11 94 12 755.5 0 12 95 15 755.5 0 15 96 6 755.5 0 6 97 8 755.5 0 8 98 9 755.5 0 9 99 12 755.5 0 12 100 12 755.5 0 12 101 14 755.5 0 14 102 13 755.5 0 13 103 7 755.5 0 7 104 8 755.5 0 8 105 13 755.5 0 13 106 11 755.5 0 11 107 11 755.5 0 11 108 14 755.5 0 14 109 9 755.5 0 9 110 5 755.5 0 5 111 13 755.5 0 13 112 46 755.5 0 46 113 207 755.5 0 207 114 148 755.5 0 148 115 8 755.5 0 8 116 15 755.5 0 15 117 9 755.5 0 9 118 14 755.5 0 14 119 11 755.5 0 11 120 8 755.5 0 8 121 8 755.5 0 8 122 10 755.5 0 10 123 10 755.5 0 10 124 9 755.5 0 9 125 20 755.5 0 20 126 12 755.5 0 12 127 30 755.5 0 30 128 22 755.5 0 22 129 38 755.5 0 38 130 14 755.5 0 14 131 25 755.5 0 25 132 70 755.5 0 70 133 50 755.5 0 50 134 230 755.5 0 230 135 139 755.5 0 139 136 66 755.5 0 66 137 30 755.5 0 30 138 10 755.5 0 10 139 17 755.5 0 17 140 18 755.5 0 18 141 142 755.5 0 142 142 77 755.5 0 77 143 516 755.5 0 516 144 18 755.5 0 18 145 10 755.5 0 10 146 16 755.5 0 16 147 10 755.5 0 10 148 14 755.5 0 14 149 15 755.5 0 15 150 9 755.5 0 9 151 10 755.5 0 10 152 26 755.5 0 26 153 48 755.5 0 48 154 277 755.5 0 277 155 28 755.5 0 28 156 7 755.5 0 7 157 8 755.5 0 8 158 6 755.5 0 6 159 13 755.5 0 13 160 6 755.5 0 6 161 12 755.5 0 12 162 8 755.5 0 8 163 8 755.5 0 8 164 5 755.5 0 5 165 6 755.5 0 6 166 14 755.5 0 14 167 10 755.5 0 10 168 10 755.5 0 10 169 14 755.5 0 14 170 8 755.5 0 8 171 8 755.5 0 8 172 7 755.5 0 7 173 4 755.5 0 4 174 4 755.5 0 4 175 13 755.5 0 13 176 7 755.5 0 7 177 7 755.5 0 7 178 9 755.5 0 9 179 4 755.5 0 4 180 6 755.5 0 6 181 3 755.5 0 3 182 16 755.5 0 16 183 71 755.5 0 71 184 10 755.5 0 10 185 35 755.5 0 35 186 7 755.5 0 7 187 7 755.5 0 7 188 4 755.5 0 4 189 3 755.5 0 3 190 10 755.5 0 10 191 14 755.5 0 14 192 3 755.5 0 3 193 5 755.5 0 5 194 6 755.5 0 6 195 7 755.5 0 7 196 15 755.5 0 15 197 5 755.5 0 5 198 8 755.5 0 8 199 11 755.5 0 11 200 6 755.5 0 6 201 6 755.5 0 6 202 5 755.5 0 5 203 10 755.5 0 10 204 9 755.5 0 9 205 7 755.5 0 7 206 8 755.5 0 8 207 6 755.5 0 6 208 5 755.5 0 5 209 6 755.5 0 6 210 7 755.5 0 7 211 31 755.5 0 31 212 37 755.5 0 37 213 31 755.5 0 31 214 31 755.5 0 31 215 9 755.5 0 9 216 6 755.5 0 6 217 1 755.5 0 1 218 6 755.5 0 6 219 12 755.5 0 12 220 22 755.5 0 22 221 13 755.5 0 13 222 9 755.5 0 9 223 8 755.5 0 8 224 8 755.5 0 8 225 12 755.5 0 12 226 14 755.5 0 14 227 24 755.5 0 24 228 240 755.5 0 240 229 111 755.5 0 111 230 75 755.5 0 75 231 35 755.5 0 35 232 19 755.5 0 19 233 5 755.5 0 5 234 6 755.5 0 6 235 2 755.5 0 2 236 8 755.5 0 8 237 62 755.5 0 62 238 12 755.5 0 12 239 9 755.5 0 9 240 8 755.5 0 8 241 6 755.5 0 6 242 4 755.5 0 4 243 5 755.5 0 5 244 11 755.5 0 11 245 10 755.5 0 10 246 7 755.5 0 7 247 6 755.5 0 6 248 11 755.5 0 11 249 6 755.5 0 6 250 6 755.5 0 6 251 5 755.5 0 5 252 7 755.5 0 7 253 10 755.5 0 10 254 21 755.5 0 21 255 23 755.5 0 23 256 32 755.5 0 32 257 84 755.5 0 84 258 17 755.5 0 17 259 10 755.5 0 10 260 10 755.5 0 10 261 27 755.5 0 27 262 329 755.5 0 329 263 10 755.5 0 10 264 5 755.5 0 5 265 7 755.5 0 7 266 16 755.5 0 16 267 7 755.5 0 7 268 2 755.5 0 2 269 4 755.5 0 4 270 4 755.5 0 4 271 3 755.5 0 3 272 9 755.5 0 9 273 43 755.5 0 43 274 18 755.5 0 18 275 135 755.5 0 135 276 9 755.5 0 9 277 4 755.5 0 4 278 6 755.5 0 6 279 11 755.5 0 11 280 5 755.5 0 5 281 16 755.5 0 16 282 12 755.5 0 12 283 9 755.5 0 9 284 11 755.5 0 11 285 42 755.5 0 42 286 9 755.5 0 9 287 10 755.5 0 10 288 7 755.5 0 7 289 8 755.5 0 8 290 6 755.5 0 6 291 10 755.5 0 10 292 22 755.5 0 22 293 4 755.5 0 4 294 7 755.5 0 7 295 19 755.5 0 19 296 14 755.5 0 14 297 6 755.5 0 6 298 19 755.5 0 19 299 115 755.5 0 115 300 2298 755.5 0 2298 301 21 755.5 0 21 Finished in 0.69 s (52 us/read; 1.16 M reads/minute). === Summary === Total reads processed: 13,384 Reads with adapters: 6,368 (47.6%) Reads that were too short: 0 (0.0%) Reads written (passing filters): 6,368 (47.6%) Total basepairs processed: 3,383,281 bp Total written (filtered): 1,745,063 bp (51.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6368 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 16 1 0.0 3 0 0 0 0 1 17 1 0.0 3 0 0 0 1 18 7 0.0 3 0 0 5 2 19 102 0.0 3 0 98 3 1 20 6236 0.0 4 6113 119 4 21 11 0.0 4 3 7 0 1 22 2 0.0 4 0 0 1 0 1 23 5 0.0 4 0 0 0 5 99 1 0.0 4 0 0 0 0 1 129 2 0.0 4 0 0 0 0 2 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.26 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 6,368 Reads with adapters: 52 (0.8%) Reads written (passing filters): 6,368 (100.0%) Total basepairs processed: 1,745,063 bp Total written (filtered): 1,742,984 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 52 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.7% C: 1.9% G: 82.7% T: 7.7% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 3 99.5 0 3 11 40 0.0 1 0 40 12 3 0.0 1 2 1 260 1 0.0 1 1 261 1 0.0 1 0 1 265 1 0.0 1 0 1 269 2 0.0 1 1 1 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.