This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTGTC -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 57.14 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 247,564 (11.3%) Reads that were too short: 9,410 (0.4%) Reads written (passing filters): 238,154 (10.9%) Total basepairs processed: 659,880,795 bp Total written (filtered): 64,334,526 bp (9.7%) === Adapter 1 === Sequence: CCTGTC; Type: regular 5'; Length: 6; Trimmed: 247564 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 8752 535.2 0 8752 7 104434 535.2 0 104434 8 4413 535.2 0 4413 9 82160 535.2 0 82160 10 67 535.2 0 67 11 36 535.2 0 36 12 41 535.2 0 41 13 44 535.2 0 44 14 35 535.2 0 35 15 33 535.2 0 33 16 42 535.2 0 42 17 41 535.2 0 41 18 39 535.2 0 39 19 41 535.2 0 41 20 48 535.2 0 48 21 42 535.2 0 42 22 53 535.2 0 53 23 39 535.2 0 39 24 38 535.2 0 38 25 27 535.2 0 27 26 33 535.2 0 33 27 42 535.2 0 42 28 49 535.2 0 49 29 26 535.2 0 26 30 80 535.2 0 80 31 136 535.2 0 136 32 46 535.2 0 46 33 235 535.2 0 235 34 223 535.2 0 223 35 362 535.2 0 362 36 33 535.2 0 33 37 41 535.2 0 41 38 36 535.2 0 36 39 57 535.2 0 57 40 34 535.2 0 34 41 41 535.2 0 41 42 27 535.2 0 27 43 40 535.2 0 40 44 49 535.2 0 49 45 52 535.2 0 52 46 57 535.2 0 57 47 47 535.2 0 47 48 53 535.2 0 53 49 54 535.2 0 54 50 39 535.2 0 39 51 29 535.2 0 29 52 30 535.2 0 30 53 42 535.2 0 42 54 29 535.2 0 29 55 38 535.2 0 38 56 50 535.2 0 50 57 82 535.2 0 82 58 84 535.2 0 84 59 58 535.2 0 58 60 58 535.2 0 58 61 41 535.2 0 41 62 35 535.2 0 35 63 21 535.2 0 21 64 51 535.2 0 51 65 57 535.2 0 57 66 28 535.2 0 28 67 24 535.2 0 24 68 42 535.2 0 42 69 29 535.2 0 29 70 40 535.2 0 40 71 42 535.2 0 42 72 107 535.2 0 107 73 434 535.2 0 434 74 122 535.2 0 122 75 32 535.2 0 32 76 41 535.2 0 41 77 39 535.2 0 39 78 42 535.2 0 42 79 38 535.2 0 38 80 31 535.2 0 31 81 26 535.2 0 26 82 35 535.2 0 35 83 41 535.2 0 41 84 133 535.2 0 133 85 83 535.2 0 83 86 164 535.2 0 164 87 106 535.2 0 106 88 43 535.2 0 43 89 37 535.2 0 37 90 53 535.2 0 53 91 42 535.2 0 42 92 35 535.2 0 35 93 50 535.2 0 50 94 66 535.2 0 66 95 42 535.2 0 42 96 46 535.2 0 46 97 53 535.2 0 53 98 60 535.2 0 60 99 320 535.2 0 320 100 51 535.2 0 51 101 53 535.2 0 53 102 95 535.2 0 95 103 51 535.2 0 51 104 52 535.2 0 52 105 51 535.2 0 51 106 203 535.2 0 203 107 660 535.2 0 660 108 1581 535.2 0 1581 109 692 535.2 0 692 110 41 535.2 0 41 111 42 535.2 0 42 112 35 535.2 0 35 113 59 535.2 0 59 114 48 535.2 0 48 115 37 535.2 0 37 116 36 535.2 0 36 117 45 535.2 0 45 118 32 535.2 0 32 119 37 535.2 0 37 120 51 535.2 0 51 121 44 535.2 0 44 122 44 535.2 0 44 123 60 535.2 0 60 124 57 535.2 0 57 125 52 535.2 0 52 126 37 535.2 0 37 127 505 535.2 0 505 128 792 535.2 0 792 129 534 535.2 0 534 130 190 535.2 0 190 131 40 535.2 0 40 132 47 535.2 0 47 133 36 535.2 0 36 134 53 535.2 0 53 135 43 535.2 0 43 136 85 535.2 0 85 137 72 535.2 0 72 138 78 535.2 0 78 139 40 535.2 0 40 140 47 535.2 0 47 141 79 535.2 0 79 142 130 535.2 0 130 143 446 535.2 0 446 144 536 535.2 0 536 145 334 535.2 0 334 146 53 535.2 0 53 147 112 535.2 0 112 148 72 535.2 0 72 149 82 535.2 0 82 150 58 535.2 0 58 151 75 535.2 0 75 152 92 535.2 0 92 153 219 535.2 0 219 154 193 535.2 0 193 155 292 535.2 0 292 156 91 535.2 0 91 157 69 535.2 0 69 158 310 535.2 0 310 159 429 535.2 0 429 160 63 535.2 0 63 161 74 535.2 0 74 162 74 535.2 0 74 163 75 535.2 0 75 164 68 535.2 0 68 165 45 535.2 0 45 166 51 535.2 0 51 167 49 535.2 0 49 168 82 535.2 0 82 169 153 535.2 0 153 170 54 535.2 0 54 171 90 535.2 0 90 172 62 535.2 0 62 173 70 535.2 0 70 174 103 535.2 0 103 175 167 535.2 0 167 176 140 535.2 0 140 177 64 535.2 0 64 178 74 535.2 0 74 179 72 535.2 0 72 180 92 535.2 0 92 181 130 535.2 0 130 182 135 535.2 0 135 183 215 535.2 0 215 184 419 535.2 0 419 185 344 535.2 0 344 186 4655 535.2 0 4655 187 9084 535.2 0 9084 188 4536 535.2 0 4536 189 49 535.2 0 49 190 45 535.2 0 45 191 37 535.2 0 37 192 39 535.2 0 39 193 35 535.2 0 35 194 352 535.2 0 352 195 36 535.2 0 36 196 73 535.2 0 73 197 46 535.2 0 46 198 39 535.2 0 39 199 43 535.2 0 43 200 46 535.2 0 46 201 46 535.2 0 46 202 38 535.2 0 38 203 59 535.2 0 59 204 92 535.2 0 92 205 37 535.2 0 37 206 51 535.2 0 51 207 50 535.2 0 50 208 55 535.2 0 55 209 63 535.2 0 63 210 75 535.2 0 75 211 52 535.2 0 52 212 48 535.2 0 48 213 52 535.2 0 52 214 51 535.2 0 51 215 49 535.2 0 49 216 70 535.2 0 70 217 250 535.2 0 250 218 301 535.2 0 301 219 508 535.2 0 508 220 30 535.2 0 30 221 47 535.2 0 47 222 59 535.2 0 59 223 43 535.2 0 43 224 41 535.2 0 41 225 30 535.2 0 30 226 53 535.2 0 53 227 50 535.2 0 50 228 62 535.2 0 62 229 38 535.2 0 38 230 32 535.2 0 32 231 37 535.2 0 37 232 50 535.2 0 50 233 58 535.2 0 58 234 43 535.2 0 43 235 43 535.2 0 43 236 55 535.2 0 55 237 99 535.2 0 99 238 43 535.2 0 43 239 34 535.2 0 34 240 53 535.2 0 53 241 82 535.2 0 82 242 81 535.2 0 81 243 187 535.2 0 187 244 50 535.2 0 50 245 54 535.2 0 54 246 58 535.2 0 58 247 69 535.2 0 69 248 47 535.2 0 47 249 45 535.2 0 45 250 259 535.2 0 259 251 484 535.2 0 484 252 388 535.2 0 388 253 69 535.2 0 69 254 75 535.2 0 75 255 67 535.2 0 67 256 45 535.2 0 45 257 76 535.2 0 76 258 48 535.2 0 48 259 48 535.2 0 48 260 59 535.2 0 59 261 59 535.2 0 59 262 85 535.2 0 85 263 88 535.2 0 88 264 94 535.2 0 94 265 45 535.2 0 45 266 48 535.2 0 48 267 67 535.2 0 67 268 42 535.2 0 42 269 52 535.2 0 52 270 78 535.2 0 78 271 192 535.2 0 192 272 103 535.2 0 103 273 79 535.2 0 79 274 58 535.2 0 58 275 98 535.2 0 98 276 34 535.2 0 34 277 51 535.2 0 51 278 104 535.2 0 104 279 93 535.2 0 93 280 231 535.2 0 231 281 234 535.2 0 234 282 300 535.2 0 300 283 128 535.2 0 128 284 51 535.2 0 51 285 80 535.2 0 80 286 91 535.2 0 91 287 63 535.2 0 63 288 69 535.2 0 69 289 74 535.2 0 74 290 87 535.2 0 87 291 86 535.2 0 86 292 64 535.2 0 64 293 53 535.2 0 53 294 111 535.2 0 111 295 95 535.2 0 95 296 137 535.2 0 137 297 273 535.2 0 273 298 173 535.2 0 173 299 151 535.2 0 151 300 134 535.2 0 134 301 63 535.2 0 63 Finished in 11.02 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 238,154 Reads with adapters: 112,893 (47.4%) Reads that were too short: 40 (0.0%) Reads written (passing filters): 112,853 (47.4%) Total basepairs processed: 64,334,526 bp Total written (filtered): 30,805,464 bp (47.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 112893 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 18 39 0.0 3 0 0 39 19 1010 0.0 3 0 997 11 1 1 20 110325 0.0 4 108600 1645 58 15 7 21 269 0.0 4 37 226 6 22 12 0.0 4 0 0 11 0 1 23 58 0.0 4 3 1 1 48 5 24 2 0.0 4 0 0 0 0 2 25 1 0.0 4 0 0 0 0 1 26 1 0.0 4 1 28 2 0.0 4 0 0 0 0 2 30 1 0.0 4 1 31 1 0.0 4 1 32 3 0.0 4 2 0 1 35 1 0.0 4 1 67 1 0.0 4 0 0 1 107 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 17 0.0 4 0 0 0 0 17 127 1101 0.0 4 0 0 0 0 1101 129 2 0.0 4 0 0 0 0 2 130 2 0.0 4 0 0 0 0 2 136 3 0.0 4 0 0 0 0 3 170 1 0.0 4 1 184 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 221 1 0.0 4 1 228 6 0.0 4 0 0 0 2 4 229 4 0.0 4 0 0 0 0 4 231 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 1 235 1 0.0 4 0 0 0 0 1 238 6 0.0 4 0 0 0 0 6 239 1 0.0 4 1 243 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 285 1 0.0 4 0 0 0 0 1 288 2 0.0 4 0 0 0 0 2 290 1 0.0 4 0 0 0 0 1 291 1 0.0 4 0 0 0 0 1 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 3.94 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 112,853 Reads with adapters: 7,562 (6.7%) Reads written (passing filters): 112,853 (100.0%) Total basepairs processed: 30,805,464 bp Total written (filtered): 30,722,006 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7562 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.9% C: 2.5% G: 93.3% T: 1.4% 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 3 204 1763.3 0 204 4 149 440.8 0 149 5 515 110.2 0 515 6 72 27.6 0 72 7 8 6.9 0 8 8 1 1.7 0 1 9 14 0.4 0 2 12 10 28 0.1 1 0 28 11 6328 0.0 1 34 6294 12 198 0.0 1 0 198 13 2 0.0 1 0 2 15 3 0.0 1 0 3 41 2 0.0 1 1 1 77 1 0.0 1 0 1 149 1 0.0 1 1 152 15 0.0 1 0 15 162 2 0.0 1 2 164 1 0.0 1 1 171 3 0.0 1 3 172 1 0.0 1 1 179 1 0.0 1 1 192 2 0.0 1 2 197 1 0.0 1 1 210 6 0.0 1 3 3 222 1 0.0 1 0 1 228 2 0.0 1 2 259 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.