This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTGAGT -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 73.82 s (25 us/read; 2.38 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 50,980 (1.7%) Reads that were too short: 26,211 (0.9%) Reads written (passing filters): 24,769 (0.8%) Total basepairs processed: 881,011,047 bp Total written (filtered): 5,736,898 bp (0.7%) === Adapter 1 === Sequence: TTGAGT; Type: regular 5'; Length: 6; Trimmed: 50980 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 93 714.6 0 93 7 224 714.6 0 224 8 8108 714.6 0 8108 9 2408 714.6 0 2408 10 49 714.6 0 49 11 46 714.6 0 46 12 79 714.6 0 79 13 38 714.6 0 38 14 54 714.6 0 54 15 50 714.6 0 50 16 63 714.6 0 63 17 55 714.6 0 55 18 73 714.6 0 73 19 43 714.6 0 43 20 52 714.6 0 52 21 57 714.6 0 57 22 62 714.6 0 62 23 42 714.6 0 42 24 46 714.6 0 46 25 45 714.6 0 45 26 53 714.6 0 53 27 52 714.6 0 52 28 53 714.6 0 53 29 53 714.6 0 53 30 47 714.6 0 47 31 47 714.6 0 47 32 33 714.6 0 33 33 43 714.6 0 43 34 50 714.6 0 50 35 30 714.6 0 30 36 38 714.6 0 38 37 42 714.6 0 42 38 50 714.6 0 50 39 49 714.6 0 49 40 42 714.6 0 42 41 51 714.6 0 51 42 53 714.6 0 53 43 38 714.6 0 38 44 50 714.6 0 50 45 52 714.6 0 52 46 41 714.6 0 41 47 50 714.6 0 50 48 49 714.6 0 49 49 44 714.6 0 44 50 38 714.6 0 38 51 51 714.6 0 51 52 49 714.6 0 49 53 43 714.6 0 43 54 63 714.6 0 63 55 58 714.6 0 58 56 40 714.6 0 40 57 42 714.6 0 42 58 43 714.6 0 43 59 259 714.6 0 259 60 266 714.6 0 266 61 88 714.6 0 88 62 34 714.6 0 34 63 67 714.6 0 67 64 44 714.6 0 44 65 43 714.6 0 43 66 42 714.6 0 42 67 51 714.6 0 51 68 46 714.6 0 46 69 65 714.6 0 65 70 63 714.6 0 63 71 56 714.6 0 56 72 104 714.6 0 104 73 56 714.6 0 56 74 31 714.6 0 31 75 42 714.6 0 42 76 43 714.6 0 43 77 44 714.6 0 44 78 99 714.6 0 99 79 44 714.6 0 44 80 46 714.6 0 46 81 65 714.6 0 65 82 43 714.6 0 43 83 44 714.6 0 44 84 52 714.6 0 52 85 58 714.6 0 58 86 34 714.6 0 34 87 52 714.6 0 52 88 52 714.6 0 52 89 52 714.6 0 52 90 69 714.6 0 69 91 35 714.6 0 35 92 54 714.6 0 54 93 65 714.6 0 65 94 81 714.6 0 81 95 83 714.6 0 83 96 88 714.6 0 88 97 83 714.6 0 83 98 287 714.6 0 287 99 120 714.6 0 120 100 68 714.6 0 68 101 43 714.6 0 43 102 60 714.6 0 60 103 46 714.6 0 46 104 48 714.6 0 48 105 54 714.6 0 54 106 56 714.6 0 56 107 59 714.6 0 59 108 45 714.6 0 45 109 52 714.6 0 52 110 58 714.6 0 58 111 56 714.6 0 56 112 102 714.6 0 102 113 68 714.6 0 68 114 196 714.6 0 196 115 69 714.6 0 69 116 65 714.6 0 65 117 78 714.6 0 78 118 73 714.6 0 73 119 56 714.6 0 56 120 55 714.6 0 55 121 55 714.6 0 55 122 48 714.6 0 48 123 62 714.6 0 62 124 47 714.6 0 47 125 58 714.6 0 58 126 64 714.6 0 64 127 86 714.6 0 86 128 91 714.6 0 91 129 112 714.6 0 112 130 117 714.6 0 117 131 82 714.6 0 82 132 144 714.6 0 144 133 86 714.6 0 86 134 103 714.6 0 103 135 109 714.6 0 109 136 72 714.6 0 72 137 90 714.6 0 90 138 186 714.6 0 186 139 140 714.6 0 140 140 121 714.6 0 121 141 65 714.6 0 65 142 93 714.6 0 93 143 83 714.6 0 83 144 127 714.6 0 127 145 94 714.6 0 94 146 50 714.6 0 50 147 82 714.6 0 82 148 79 714.6 0 79 149 71 714.6 0 71 150 74 714.6 0 74 151 61 714.6 0 61 152 74 714.6 0 74 153 50 714.6 0 50 154 61 714.6 0 61 155 68 714.6 0 68 156 76 714.6 0 76 157 76 714.6 0 76 158 82 714.6 0 82 159 165 714.6 0 165 160 94 714.6 0 94 161 78 714.6 0 78 162 60 714.6 0 60 163 58 714.6 0 58 164 63 714.6 0 63 165 83 714.6 0 83 166 73 714.6 0 73 167 57 714.6 0 57 168 73 714.6 0 73 169 56 714.6 0 56 170 57 714.6 0 57 171 91 714.6 0 91 172 58 714.6 0 58 173 64 714.6 0 64 174 61 714.6 0 61 175 56 714.6 0 56 176 60 714.6 0 60 177 77 714.6 0 77 178 65 714.6 0 65 179 73 714.6 0 73 180 87 714.6 0 87 181 92 714.6 0 92 182 74 714.6 0 74 183 89 714.6 0 89 184 65 714.6 0 65 185 74 714.6 0 74 186 74 714.6 0 74 187 59 714.6 0 59 188 74 714.6 0 74 189 76 714.6 0 76 190 58 714.6 0 58 191 91 714.6 0 91 192 147 714.6 0 147 193 103 714.6 0 103 194 71 714.6 0 71 195 77 714.6 0 77 196 80 714.6 0 80 197 205 714.6 0 205 198 391 714.6 0 391 199 203 714.6 0 203 200 69 714.6 0 69 201 68 714.6 0 68 202 47 714.6 0 47 203 42 714.6 0 42 204 78 714.6 0 78 205 148 714.6 0 148 206 112 714.6 0 112 207 109 714.6 0 109 208 63 714.6 0 63 209 87 714.6 0 87 210 73 714.6 0 73 211 109 714.6 0 109 212 95 714.6 0 95 213 127 714.6 0 127 214 70 714.6 0 70 215 99 714.6 0 99 216 81 714.6 0 81 217 72 714.6 0 72 218 125 714.6 0 125 219 113 714.6 0 113 220 115 714.6 0 115 221 94 714.6 0 94 222 104 714.6 0 104 223 170 714.6 0 170 224 281 714.6 0 281 225 146 714.6 0 146 226 88 714.6 0 88 227 89 714.6 0 89 228 73 714.6 0 73 229 86 714.6 0 86 230 66 714.6 0 66 231 124 714.6 0 124 232 141 714.6 0 141 233 173 714.6 0 173 234 98 714.6 0 98 235 93 714.6 0 93 236 109 714.6 0 109 237 134 714.6 0 134 238 161 714.6 0 161 239 152 714.6 0 152 240 161 714.6 0 161 241 108 714.6 0 108 242 95 714.6 0 95 243 71 714.6 0 71 244 89 714.6 0 89 245 158 714.6 0 158 246 116 714.6 0 116 247 85 714.6 0 85 248 62 714.6 0 62 249 83 714.6 0 83 250 52 714.6 0 52 251 36 714.6 0 36 252 33 714.6 0 33 253 76 714.6 0 76 254 110 714.6 0 110 255 109 714.6 0 109 256 138 714.6 0 138 257 94 714.6 0 94 258 66 714.6 0 66 259 89 714.6 0 89 260 81 714.6 0 81 261 71 714.6 0 71 262 88 714.6 0 88 263 86 714.6 0 86 264 102 714.6 0 102 265 148 714.6 0 148 266 117 714.6 0 117 267 129 714.6 0 129 268 284 714.6 0 284 269 69 714.6 0 69 270 76 714.6 0 76 271 56 714.6 0 56 272 105 714.6 0 105 273 110 714.6 0 110 274 101 714.6 0 101 275 82 714.6 0 82 276 92 714.6 0 92 277 92 714.6 0 92 278 92 714.6 0 92 279 87 714.6 0 87 280 81 714.6 0 81 281 142 714.6 0 142 282 98 714.6 0 98 283 112 714.6 0 112 284 168 714.6 0 168 285 214 714.6 0 214 286 252 714.6 0 252 287 148 714.6 0 148 288 361 714.6 0 361 289 268 714.6 0 268 290 264 714.6 0 264 291 363 714.6 0 363 292 393 714.6 0 393 293 348 714.6 0 348 294 356 714.6 0 356 295 411 714.6 0 411 296 361 714.6 0 361 297 419 714.6 0 419 298 1270 714.6 0 1270 299 4149 714.6 0 4149 300 5895 714.6 0 5895 301 2092 714.6 0 2092 Finished in 1.17 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 24,769 Reads with adapters: 2,454 (9.9%) Reads that were too short: 5 (0.0%) Reads written (passing filters): 2,449 (9.9%) Total basepairs processed: 5,736,898 bp Total written (filtered): 664,979 bp (11.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 2454 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 17 4 0.0 3 0 0 0 0 4 18 2 0.0 3 0 0 2 19 32 0.0 3 0 31 0 0 1 20 2383 0.0 4 2357 24 2 21 13 0.0 4 6 6 0 0 1 23 3 0.0 4 0 0 0 3 86 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 1 127 4 0.0 4 0 0 0 0 4 135 6 0.0 4 0 0 0 0 6 199 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 252 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 0.10 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 2,449 Reads with adapters: 521 (21.3%) Reads written (passing filters): 2,449 (100.0%) Total basepairs processed: 664,979 bp Total written (filtered): 548,558 bp (82.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 521 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.0% C: 87.9% G: 11.9% T: 0.2% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 6 38.3 0 6 9 3 0.0 0 1 2 10 31 0.0 1 1 30 11 29 0.0 1 0 29 255 2 0.0 1 2 256 422 0.0 1 408 14 257 22 0.0 1 18 4 258 3 0.0 1 3 259 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.