This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATGAA -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 63.59 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 81,354 (3.3%) Reads that were too short: 25,498 (1.0%) Reads written (passing filters): 55,856 (2.3%) Total basepairs processed: 735,190,694 bp Total written (filtered): 13,316,974 bp (1.8%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 81354 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 246 596.3 0 246 7 371 596.3 0 371 8 14740 596.3 0 14740 9 11857 596.3 0 11857 10 58 596.3 0 58 11 36 596.3 0 36 12 36 596.3 0 36 13 35 596.3 0 35 14 25 596.3 0 25 15 23 596.3 0 23 16 21 596.3 0 21 17 22 596.3 0 22 18 22 596.3 0 22 19 28 596.3 0 28 20 19 596.3 0 19 21 28 596.3 0 28 22 28 596.3 0 28 23 17 596.3 0 17 24 15 596.3 0 15 25 21 596.3 0 21 26 26 596.3 0 26 27 33 596.3 0 33 28 32 596.3 0 32 29 29 596.3 0 29 30 29 596.3 0 29 31 22 596.3 0 22 32 65 596.3 0 65 33 25 596.3 0 25 34 9 596.3 0 9 35 46 596.3 0 46 36 18 596.3 0 18 37 22 596.3 0 22 38 23 596.3 0 23 39 32 596.3 0 32 40 27 596.3 0 27 41 38 596.3 0 38 42 33 596.3 0 33 43 71 596.3 0 71 44 36 596.3 0 36 45 84 596.3 0 84 46 45 596.3 0 45 47 62 596.3 0 62 48 23 596.3 0 23 49 29 596.3 0 29 50 17 596.3 0 17 51 28 596.3 0 28 52 16 596.3 0 16 53 25 596.3 0 25 54 18 596.3 0 18 55 32 596.3 0 32 56 29 596.3 0 29 57 41 596.3 0 41 58 40 596.3 0 40 59 36 596.3 0 36 60 33 596.3 0 33 61 29 596.3 0 29 62 59 596.3 0 59 63 36 596.3 0 36 64 37 596.3 0 37 65 41 596.3 0 41 66 84 596.3 0 84 67 36 596.3 0 36 68 51 596.3 0 51 69 84 596.3 0 84 70 601 596.3 0 601 71 64 596.3 0 64 72 93 596.3 0 93 73 115 596.3 0 115 74 294 596.3 0 294 75 164 596.3 0 164 76 138 596.3 0 138 77 201 596.3 0 201 78 219 596.3 0 219 79 4418 596.3 0 4418 80 1970 596.3 0 1970 81 2262 596.3 0 2262 82 145 596.3 0 145 83 271 596.3 0 271 84 222 596.3 0 222 85 39 596.3 0 39 86 51 596.3 0 51 87 43 596.3 0 43 88 49 596.3 0 49 89 34 596.3 0 34 90 38 596.3 0 38 91 26 596.3 0 26 92 52 596.3 0 52 93 26 596.3 0 26 94 30 596.3 0 30 95 50 596.3 0 50 96 32 596.3 0 32 97 58 596.3 0 58 98 49 596.3 0 49 99 65 596.3 0 65 100 111 596.3 0 111 101 113 596.3 0 113 102 60 596.3 0 60 103 54 596.3 0 54 104 66 596.3 0 66 105 53 596.3 0 53 106 52 596.3 0 52 107 62 596.3 0 62 108 73 596.3 0 73 109 88 596.3 0 88 110 56 596.3 0 56 111 69 596.3 0 69 112 97 596.3 0 97 113 54 596.3 0 54 114 62 596.3 0 62 115 94 596.3 0 94 116 77 596.3 0 77 117 93 596.3 0 93 118 97 596.3 0 97 119 95 596.3 0 95 120 107 596.3 0 107 121 103 596.3 0 103 122 73 596.3 0 73 123 103 596.3 0 103 124 170 596.3 0 170 125 472 596.3 0 472 126 603 596.3 0 603 127 476 596.3 0 476 128 141 596.3 0 141 129 189 596.3 0 189 130 247 596.3 0 247 131 88 596.3 0 88 132 71 596.3 0 71 133 72 596.3 0 72 134 74 596.3 0 74 135 86 596.3 0 86 136 108 596.3 0 108 137 158 596.3 0 158 138 186 596.3 0 186 139 1035 596.3 0 1035 140 447 596.3 0 447 141 171 596.3 0 171 142 135 596.3 0 135 143 133 596.3 0 133 144 100 596.3 0 100 145 56 596.3 0 56 146 72 596.3 0 72 147 65 596.3 0 65 148 52 596.3 0 52 149 60 596.3 0 60 150 78 596.3 0 78 151 105 596.3 0 105 152 104 596.3 0 104 153 57 596.3 0 57 154 57 596.3 0 57 155 57 596.3 0 57 156 59 596.3 0 59 157 89 596.3 0 89 158 205 596.3 0 205 159 379 596.3 0 379 160 635 596.3 0 635 161 50 596.3 0 50 162 65 596.3 0 65 163 103 596.3 0 103 164 151 596.3 0 151 165 263 596.3 0 263 166 72 596.3 0 72 167 82 596.3 0 82 168 62 596.3 0 62 169 60 596.3 0 60 170 54 596.3 0 54 171 54 596.3 0 54 172 63 596.3 0 63 173 40 596.3 0 40 174 53 596.3 0 53 175 54 596.3 0 54 176 65 596.3 0 65 177 89 596.3 0 89 178 91 596.3 0 91 179 61 596.3 0 61 180 79 596.3 0 79 181 125 596.3 0 125 182 1039 596.3 0 1039 183 699 596.3 0 699 184 1183 596.3 0 1183 185 66 596.3 0 66 186 44 596.3 0 44 187 54 596.3 0 54 188 38 596.3 0 38 189 56 596.3 0 56 190 47 596.3 0 47 191 52 596.3 0 52 192 40 596.3 0 40 193 42 596.3 0 42 194 57 596.3 0 57 195 52 596.3 0 52 196 59 596.3 0 59 197 61 596.3 0 61 198 56 596.3 0 56 199 57 596.3 0 57 200 52 596.3 0 52 201 64 596.3 0 64 202 61 596.3 0 61 203 46 596.3 0 46 204 64 596.3 0 64 205 81 596.3 0 81 206 119 596.3 0 119 207 110 596.3 0 110 208 105 596.3 0 105 209 85 596.3 0 85 210 101 596.3 0 101 211 100 596.3 0 100 212 110 596.3 0 110 213 107 596.3 0 107 214 77 596.3 0 77 215 49 596.3 0 49 216 68 596.3 0 68 217 61 596.3 0 61 218 77 596.3 0 77 219 68 596.3 0 68 220 54 596.3 0 54 221 98 596.3 0 98 222 58 596.3 0 58 223 70 596.3 0 70 224 76 596.3 0 76 225 112 596.3 0 112 226 222 596.3 0 222 227 179 596.3 0 179 228 153 596.3 0 153 229 42 596.3 0 42 230 46 596.3 0 46 231 71 596.3 0 71 232 76 596.3 0 76 233 114 596.3 0 114 234 66 596.3 0 66 235 68 596.3 0 68 236 114 596.3 0 114 237 105 596.3 0 105 238 125 596.3 0 125 239 124 596.3 0 124 240 70 596.3 0 70 241 76 596.3 0 76 242 64 596.3 0 64 243 63 596.3 0 63 244 76 596.3 0 76 245 58 596.3 0 58 246 102 596.3 0 102 247 83 596.3 0 83 248 133 596.3 0 133 249 147 596.3 0 147 250 151 596.3 0 151 251 198 596.3 0 198 252 252 596.3 0 252 253 2363 596.3 0 2363 254 2363 596.3 0 2363 255 11013 596.3 0 11013 256 450 596.3 0 450 257 169 596.3 0 169 258 71 596.3 0 71 259 86 596.3 0 86 260 193 596.3 0 193 261 77 596.3 0 77 262 65 596.3 0 65 263 130 596.3 0 130 264 228 596.3 0 228 265 211 596.3 0 211 266 350 596.3 0 350 267 42 596.3 0 42 268 52 596.3 0 52 269 76 596.3 0 76 270 65 596.3 0 65 271 58 596.3 0 58 272 55 596.3 0 55 273 49 596.3 0 49 274 82 596.3 0 82 275 88 596.3 0 88 276 104 596.3 0 104 277 108 596.3 0 108 278 75 596.3 0 75 279 49 596.3 0 49 280 58 596.3 0 58 281 71 596.3 0 71 282 68 596.3 0 68 283 63 596.3 0 63 284 65 596.3 0 65 285 84 596.3 0 84 286 66 596.3 0 66 287 53 596.3 0 53 288 88 596.3 0 88 289 120 596.3 0 120 290 138 596.3 0 138 291 132 596.3 0 132 292 74 596.3 0 74 293 73 596.3 0 73 294 74 596.3 0 74 295 73 596.3 0 73 296 83 596.3 0 83 297 94 596.3 0 94 298 102 596.3 0 102 299 87 596.3 0 87 300 83 596.3 0 83 301 142 596.3 0 142 Finished in 2.76 s (49 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 55,856 Reads with adapters: 12,651 (22.6%) Reads that were too short: 46 (0.1%) Reads written (passing filters): 12,605 (22.6%) Total basepairs processed: 13,316,974 bp Total written (filtered): 3,407,737 bp (25.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12651 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 8 0.0 3 0 0 5 2 1 19 186 0.0 3 0 170 7 7 2 20 12133 0.0 4 11563 461 84 21 4 21 33 0.0 4 6 26 0 1 23 40 0.0 4 1 0 1 28 10 24 3 0.0 4 2 0 0 0 1 29 1 0.0 4 1 30 1 0.0 4 1 31 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 67 13 0.0 4 0 0 0 0 13 70 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 77 5 0.0 4 0 0 0 0 5 78 4 0.0 4 0 0 0 0 4 86 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 172 0.0 4 0 0 0 0 172 128 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 156 1 0.0 4 0 0 0 0 1 162 2 0.0 4 0 0 0 0 2 163 2 0.0 4 0 0 0 1 1 170 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 228 10 0.0 4 0 0 0 0 10 229 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 284 1 0.0 4 0 0 0 0 1 286 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 0.46 s (36 us/read; 1.64 M reads/minute). === Summary === Total reads processed: 12,605 Reads with adapters: 2,721 (21.6%) Reads written (passing filters): 12,605 (100.0%) Total basepairs processed: 3,407,737 bp Total written (filtered): 3,377,906 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2721 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.2% C: 7.7% G: 87.4% T: 2.6% 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 7 197.0 0 7 4 2 49.2 0 2 9 413 0.0 0 44 369 10 1859 0.0 1 125 1734 11 417 0.0 1 17 400 12 4 0.0 1 0 4 13 6 0.0 1 0 6 150 1 0.0 1 0 1 208 3 0.0 1 2 1 223 8 0.0 1 7 1 224 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.