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 66.44 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 89,977 (3.5%) Reads that were too short: 14,864 (0.6%) Reads written (passing filters): 75,113 (3.0%) Total basepairs processed: 766,381,518 bp Total written (filtered): 18,862,245 bp (2.5%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 89977 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 464 621.6 0 464 7 705 621.6 0 705 8 24287 621.6 0 24287 9 20138 621.6 0 20138 10 70 621.6 0 70 11 67 621.6 0 67 12 71 621.6 0 71 13 86 621.6 0 86 14 61 621.6 0 61 15 53 621.6 0 53 16 61 621.6 0 61 17 65 621.6 0 65 18 44 621.6 0 44 19 44 621.6 0 44 20 50 621.6 0 50 21 52 621.6 0 52 22 79 621.6 0 79 23 59 621.6 0 59 24 60 621.6 0 60 25 58 621.6 0 58 26 52 621.6 0 52 27 74 621.6 0 74 28 71 621.6 0 71 29 51 621.6 0 51 30 55 621.6 0 55 31 64 621.6 0 64 32 83 621.6 0 83 33 55 621.6 0 55 34 58 621.6 0 58 35 71 621.6 0 71 36 48 621.6 0 48 37 56 621.6 0 56 38 76 621.6 0 76 39 55 621.6 0 55 40 54 621.6 0 54 41 53 621.6 0 53 42 67 621.6 0 67 43 62 621.6 0 62 44 61 621.6 0 61 45 103 621.6 0 103 46 69 621.6 0 69 47 124 621.6 0 124 48 45 621.6 0 45 49 79 621.6 0 79 50 63 621.6 0 63 51 43 621.6 0 43 52 51 621.6 0 51 53 56 621.6 0 56 54 35 621.6 0 35 55 56 621.6 0 56 56 66 621.6 0 66 57 61 621.6 0 61 58 49 621.6 0 49 59 60 621.6 0 60 60 72 621.6 0 72 61 66 621.6 0 66 62 72 621.6 0 72 63 70 621.6 0 70 64 64 621.6 0 64 65 78 621.6 0 78 66 116 621.6 0 116 67 59 621.6 0 59 68 93 621.6 0 93 69 112 621.6 0 112 70 97 621.6 0 97 71 104 621.6 0 104 72 121 621.6 0 121 73 116 621.6 0 116 74 370 621.6 0 370 75 202 621.6 0 202 76 184 621.6 0 184 77 183 621.6 0 183 78 193 621.6 0 193 79 1168 621.6 0 1168 80 1355 621.6 0 1355 81 3778 621.6 0 3778 82 164 621.6 0 164 83 181 621.6 0 181 84 203 621.6 0 203 85 68 621.6 0 68 86 57 621.6 0 57 87 69 621.6 0 69 88 74 621.6 0 74 89 67 621.6 0 67 90 57 621.6 0 57 91 62 621.6 0 62 92 65 621.6 0 65 93 71 621.6 0 71 94 65 621.6 0 65 95 85 621.6 0 85 96 74 621.6 0 74 97 89 621.6 0 89 98 72 621.6 0 72 99 71 621.6 0 71 100 200 621.6 0 200 101 187 621.6 0 187 102 98 621.6 0 98 103 94 621.6 0 94 104 124 621.6 0 124 105 93 621.6 0 93 106 104 621.6 0 104 107 121 621.6 0 121 108 138 621.6 0 138 109 100 621.6 0 100 110 93 621.6 0 93 111 109 621.6 0 109 112 129 621.6 0 129 113 134 621.6 0 134 114 105 621.6 0 105 115 125 621.6 0 125 116 148 621.6 0 148 117 128 621.6 0 128 118 110 621.6 0 110 119 116 621.6 0 116 120 131 621.6 0 131 121 136 621.6 0 136 122 121 621.6 0 121 123 115 621.6 0 115 124 217 621.6 0 217 125 516 621.6 0 516 126 369 621.6 0 369 127 497 621.6 0 497 128 245 621.6 0 245 129 204 621.6 0 204 130 212 621.6 0 212 131 115 621.6 0 115 132 108 621.6 0 108 133 100 621.6 0 100 134 106 621.6 0 106 135 108 621.6 0 108 136 136 621.6 0 136 137 175 621.6 0 175 138 170 621.6 0 170 139 289 621.6 0 289 140 154 621.6 0 154 141 153 621.6 0 153 142 131 621.6 0 131 143 229 621.6 0 229 144 122 621.6 0 122 145 92 621.6 0 92 146 124 621.6 0 124 147 96 621.6 0 96 148 102 621.6 0 102 149 98 621.6 0 98 150 356 621.6 0 356 151 203 621.6 0 203 152 240 621.6 0 240 153 73 621.6 0 73 154 91 621.6 0 91 155 71 621.6 0 71 156 95 621.6 0 95 157 95 621.6 0 95 158 162 621.6 0 162 159 157 621.6 0 157 160 197 621.6 0 197 161 115 621.6 0 115 162 102 621.6 0 102 163 122 621.6 0 122 164 211 621.6 0 211 165 157 621.6 0 157 166 116 621.6 0 116 167 100 621.6 0 100 168 84 621.6 0 84 169 96 621.6 0 96 170 89 621.6 0 89 171 81 621.6 0 81 172 71 621.6 0 71 173 78 621.6 0 78 174 79 621.6 0 79 175 75 621.6 0 75 176 82 621.6 0 82 177 124 621.6 0 124 178 88 621.6 0 88 179 90 621.6 0 90 180 139 621.6 0 139 181 159 621.6 0 159 182 955 621.6 0 955 183 576 621.6 0 576 184 1456 621.6 0 1456 185 100 621.6 0 100 186 66 621.6 0 66 187 74 621.6 0 74 188 72 621.6 0 72 189 88 621.6 0 88 190 71 621.6 0 71 191 76 621.6 0 76 192 62 621.6 0 62 193 67 621.6 0 67 194 66 621.6 0 66 195 75 621.6 0 75 196 74 621.6 0 74 197 74 621.6 0 74 198 85 621.6 0 85 199 91 621.6 0 91 200 95 621.6 0 95 201 98 621.6 0 98 202 67 621.6 0 67 203 99 621.6 0 99 204 105 621.6 0 105 205 147 621.6 0 147 206 147 621.6 0 147 207 132 621.6 0 132 208 171 621.6 0 171 209 180 621.6 0 180 210 145 621.6 0 145 211 128 621.6 0 128 212 154 621.6 0 154 213 141 621.6 0 141 214 89 621.6 0 89 215 115 621.6 0 115 216 104 621.6 0 104 217 98 621.6 0 98 218 147 621.6 0 147 219 109 621.6 0 109 220 169 621.6 0 169 221 120 621.6 0 120 222 131 621.6 0 131 223 130 621.6 0 130 224 156 621.6 0 156 225 266 621.6 0 266 226 520 621.6 0 520 227 597 621.6 0 597 228 329 621.6 0 329 229 88 621.6 0 88 230 98 621.6 0 98 231 241 621.6 0 241 232 621 621.6 0 621 233 179 621.6 0 179 234 91 621.6 0 91 235 100 621.6 0 100 236 93 621.6 0 93 237 89 621.6 0 89 238 110 621.6 0 110 239 106 621.6 0 106 240 107 621.6 0 107 241 113 621.6 0 113 242 84 621.6 0 84 243 80 621.6 0 80 244 85 621.6 0 85 245 67 621.6 0 67 246 92 621.6 0 92 247 109 621.6 0 109 248 110 621.6 0 110 249 113 621.6 0 113 250 108 621.6 0 108 251 117 621.6 0 117 252 104 621.6 0 104 253 217 621.6 0 217 254 388 621.6 0 388 255 616 621.6 0 616 256 234 621.6 0 234 257 95 621.6 0 95 258 84 621.6 0 84 259 92 621.6 0 92 260 113 621.6 0 113 261 167 621.6 0 167 262 114 621.6 0 114 263 216 621.6 0 216 264 568 621.6 0 568 265 309 621.6 0 309 266 358 621.6 0 358 267 83 621.6 0 83 268 89 621.6 0 89 269 112 621.6 0 112 270 114 621.6 0 114 271 87 621.6 0 87 272 85 621.6 0 85 273 103 621.6 0 103 274 101 621.6 0 101 275 139 621.6 0 139 276 92 621.6 0 92 277 122 621.6 0 122 278 86 621.6 0 86 279 100 621.6 0 100 280 104 621.6 0 104 281 83 621.6 0 83 282 96 621.6 0 96 283 76 621.6 0 76 284 102 621.6 0 102 285 105 621.6 0 105 286 82 621.6 0 82 287 82 621.6 0 82 288 121 621.6 0 121 289 134 621.6 0 134 290 122 621.6 0 122 291 102 621.6 0 102 292 88 621.6 0 88 293 107 621.6 0 107 294 78 621.6 0 78 295 75 621.6 0 75 296 89 621.6 0 89 297 89 621.6 0 89 298 106 621.6 0 106 299 115 621.6 0 115 300 76 621.6 0 76 301 147 621.6 0 147 Finished in 3.70 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 75,113 Reads with adapters: 21,249 (28.3%) Reads that were too short: 30 (0.0%) Reads written (passing filters): 21,219 (28.2%) Total basepairs processed: 18,862,245 bp Total written (filtered): 5,771,692 bp (30.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 21249 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 4 18 16 0.0 3 0 0 8 5 3 19 303 0.0 3 0 260 20 15 8 20 20722 0.0 4 19393 1049 211 55 14 21 90 0.0 4 31 44 9 5 1 22 4 0.0 4 1 1 2 23 66 0.0 4 1 1 0 40 24 30 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 58 1 0.0 4 0 0 0 1 67 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 91 2 0.0 4 0 0 0 0 2 94 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 1 127 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 1 190 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 1 225 1 0.0 4 0 0 0 1 233 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 0 0 1 274 1 0.0 4 0 0 0 0 1 282 5 0.0 4 0 0 0 0 5 288 2 0.0 4 0 0 0 0 2 291 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 0.79 s (37 us/read; 1.61 M reads/minute). === Summary === Total reads processed: 21,219 Reads with adapters: 7,665 (36.1%) Reads written (passing filters): 21,219 (100.0%) Total basepairs processed: 5,771,692 bp Total written (filtered): 5,696,591 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7665 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 6.2% G: 91.1% T: 1.6% 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 6 331.5 0 6 4 1 82.9 0 1 5 1 20.7 0 1 6 1 5.2 0 1 7 1 1.3 0 1 8 1 0.3 0 1 9 5156 0.1 0 392 4764 10 2119 0.0 1 157 1962 11 315 0.0 1 8 307 12 33 0.0 1 0 33 13 9 0.0 1 0 9 14 1 0.0 1 0 1 150 15 0.0 1 6 9 151 1 0.0 1 1 153 1 0.0 1 0 1 169 1 0.0 1 1 220 1 0.0 1 0 1 257 1 0.0 1 1 267 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.