This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAACC -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 56.82 s (25 us/read; 2.36 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 146,125 (6.5%) Reads that were too short: 78,521 (3.5%) Reads written (passing filters): 67,604 (3.0%) Total basepairs processed: 673,916,425 bp Total written (filtered): 17,326,506 bp (2.6%) === Adapter 1 === Sequence: ACAACC; Type: regular 5'; Length: 6; Trimmed: 146125 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 516 546.6 0 516 7 26833 546.6 0 26833 8 19787 546.6 0 19787 9 46 546.6 0 46 10 41 546.6 0 41 11 99 546.6 0 99 12 27 546.6 0 27 13 30 546.6 0 30 14 33 546.6 0 33 15 52 546.6 0 52 16 45 546.6 0 45 17 47 546.6 0 47 18 31 546.6 0 31 19 33 546.6 0 33 20 42 546.6 0 42 21 28 546.6 0 28 22 24 546.6 0 24 23 31 546.6 0 31 24 38 546.6 0 38 25 34 546.6 0 34 26 26 546.6 0 26 27 38 546.6 0 38 28 23 546.6 0 23 29 33 546.6 0 33 30 38 546.6 0 38 31 41 546.6 0 41 32 32 546.6 0 32 33 45 546.6 0 45 34 51 546.6 0 51 35 40 546.6 0 40 36 45 546.6 0 45 37 29 546.6 0 29 38 39 546.6 0 39 39 46 546.6 0 46 40 43 546.6 0 43 41 60 546.6 0 60 42 34 546.6 0 34 43 47 546.6 0 47 44 41 546.6 0 41 45 48 546.6 0 48 46 28 546.6 0 28 47 52 546.6 0 52 48 40 546.6 0 40 49 32 546.6 0 32 50 30 546.6 0 30 51 39 546.6 0 39 52 47 546.6 0 47 53 95 546.6 0 95 54 125 546.6 0 125 55 73 546.6 0 73 56 47 546.6 0 47 57 56 546.6 0 56 58 41 546.6 0 41 59 151 546.6 0 151 60 52 546.6 0 52 61 51 546.6 0 51 62 41 546.6 0 41 63 50 546.6 0 50 64 68 546.6 0 68 65 57 546.6 0 57 66 53 546.6 0 53 67 60 546.6 0 60 68 70 546.6 0 70 69 70 546.6 0 70 70 38 546.6 0 38 71 67 546.6 0 67 72 199 546.6 0 199 73 127 546.6 0 127 74 209 546.6 0 209 75 45 546.6 0 45 76 57 546.6 0 57 77 51 546.6 0 51 78 61 546.6 0 61 79 66 546.6 0 66 80 75 546.6 0 75 81 77 546.6 0 77 82 83 546.6 0 83 83 66 546.6 0 66 84 58 546.6 0 58 85 62 546.6 0 62 86 76 546.6 0 76 87 48 546.6 0 48 88 61 546.6 0 61 89 49 546.6 0 49 90 37 546.6 0 37 91 49 546.6 0 49 92 48 546.6 0 48 93 59 546.6 0 59 94 56 546.6 0 56 95 50 546.6 0 50 96 62 546.6 0 62 97 37 546.6 0 37 98 45 546.6 0 45 99 62 546.6 0 62 100 61 546.6 0 61 101 52 546.6 0 52 102 93 546.6 0 93 103 140 546.6 0 140 104 193 546.6 0 193 105 110 546.6 0 110 106 86 546.6 0 86 107 85 546.6 0 85 108 68 546.6 0 68 109 79 546.6 0 79 110 68 546.6 0 68 111 78 546.6 0 78 112 72 546.6 0 72 113 61 546.6 0 61 114 73 546.6 0 73 115 74 546.6 0 74 116 91 546.6 0 91 117 88 546.6 0 88 118 73 546.6 0 73 119 79 546.6 0 79 120 87 546.6 0 87 121 109 546.6 0 109 122 137 546.6 0 137 123 134 546.6 0 134 124 464 546.6 0 464 125 364 546.6 0 364 126 860 546.6 0 860 127 96 546.6 0 96 128 108 546.6 0 108 129 87 546.6 0 87 130 89 546.6 0 89 131 86 546.6 0 86 132 143 546.6 0 143 133 200 546.6 0 200 134 162 546.6 0 162 135 119 546.6 0 119 136 141 546.6 0 141 137 106 546.6 0 106 138 99 546.6 0 99 139 109 546.6 0 109 140 98 546.6 0 98 141 90 546.6 0 90 142 77 546.6 0 77 143 87 546.6 0 87 144 96 546.6 0 96 145 104 546.6 0 104 146 177 546.6 0 177 147 295 546.6 0 295 148 158 546.6 0 158 149 234 546.6 0 234 150 154 546.6 0 154 151 103 546.6 0 103 152 123 546.6 0 123 153 130 546.6 0 130 154 117 546.6 0 117 155 121 546.6 0 121 156 197 546.6 0 197 157 147 546.6 0 147 158 151 546.6 0 151 159 110 546.6 0 110 160 142 546.6 0 142 161 144 546.6 0 144 162 195 546.6 0 195 163 202 546.6 0 202 164 135 546.6 0 135 165 116 546.6 0 116 166 123 546.6 0 123 167 160 546.6 0 160 168 151 546.6 0 151 169 408 546.6 0 408 170 464 546.6 0 464 171 511 546.6 0 511 172 248 546.6 0 248 173 221 546.6 0 221 174 146 546.6 0 146 175 134 546.6 0 134 176 107 546.6 0 107 177 93 546.6 0 93 178 103 546.6 0 103 179 129 546.6 0 129 180 176 546.6 0 176 181 183 546.6 0 183 182 241 546.6 0 241 183 172 546.6 0 172 184 151 546.6 0 151 185 184 546.6 0 184 186 137 546.6 0 137 187 231 546.6 0 231 188 156 546.6 0 156 189 171 546.6 0 171 190 128 546.6 0 128 191 95 546.6 0 95 192 134 546.6 0 134 193 151 546.6 0 151 194 144 546.6 0 144 195 176 546.6 0 176 196 88 546.6 0 88 197 119 546.6 0 119 198 116 546.6 0 116 199 139 546.6 0 139 200 146 546.6 0 146 201 117 546.6 0 117 202 138 546.6 0 138 203 256 546.6 0 256 204 189 546.6 0 189 205 288 546.6 0 288 206 117 546.6 0 117 207 89 546.6 0 89 208 88 546.6 0 88 209 122 546.6 0 122 210 111 546.6 0 111 211 136 546.6 0 136 212 130 546.6 0 130 213 307 546.6 0 307 214 1100 546.6 0 1100 215 2872 546.6 0 2872 216 1625 546.6 0 1625 217 565 546.6 0 565 218 266 546.6 0 266 219 308 546.6 0 308 220 147 546.6 0 147 221 162 546.6 0 162 222 164 546.6 0 164 223 263 546.6 0 263 224 288 546.6 0 288 225 779 546.6 0 779 226 3510 546.6 0 3510 227 12016 546.6 0 12016 228 5423 546.6 0 5423 229 4295 546.6 0 4295 230 1087 546.6 0 1087 231 1978 546.6 0 1978 232 995 546.6 0 995 233 430 546.6 0 430 234 116 546.6 0 116 235 114 546.6 0 114 236 142 546.6 0 142 237 405 546.6 0 405 238 303 546.6 0 303 239 336 546.6 0 336 240 160 546.6 0 160 241 125 546.6 0 125 242 105 546.6 0 105 243 92 546.6 0 92 244 133 546.6 0 133 245 151 546.6 0 151 246 148 546.6 0 148 247 147 546.6 0 147 248 224 546.6 0 224 249 207 546.6 0 207 250 171 546.6 0 171 251 96 546.6 0 96 252 107 546.6 0 107 253 109 546.6 0 109 254 148 546.6 0 148 255 184 546.6 0 184 256 242 546.6 0 242 257 379 546.6 0 379 258 269 546.6 0 269 259 292 546.6 0 292 260 246 546.6 0 246 261 483 546.6 0 483 262 296 546.6 0 296 263 488 546.6 0 488 264 2376 546.6 0 2376 265 3093 546.6 0 3093 266 4111 546.6 0 4111 267 2557 546.6 0 2557 268 1692 546.6 0 1692 269 752 546.6 0 752 270 1071 546.6 0 1071 271 268 546.6 0 268 272 266 546.6 0 266 273 483 546.6 0 483 274 637 546.6 0 637 275 521 546.6 0 521 276 411 546.6 0 411 277 179 546.6 0 179 278 285 546.6 0 285 279 357 546.6 0 357 280 463 546.6 0 463 281 491 546.6 0 491 282 245 546.6 0 245 283 159 546.6 0 159 284 219 546.6 0 219 285 236 546.6 0 236 286 311 546.6 0 311 287 363 546.6 0 363 288 297 546.6 0 297 289 243 546.6 0 243 290 297 546.6 0 297 291 2212 546.6 0 2212 292 1731 546.6 0 1731 293 3831 546.6 0 3831 294 444 546.6 0 444 295 143 546.6 0 143 296 141 546.6 0 141 297 189 546.6 0 189 298 144 546.6 0 144 299 169 546.6 0 169 300 159 546.6 0 159 301 313 546.6 0 313 Finished in 3.31 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 67,604 Reads with adapters: 20,703 (30.6%) Reads that were too short: 29 (0.0%) Reads written (passing filters): 20,674 (30.6%) Total basepairs processed: 17,326,506 bp Total written (filtered): 5,600,837 bp (32.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 20703 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 3 0.0 3 0 0 0 1 2 18 8 0.0 3 0 0 5 1 2 19 318 0.0 3 0 254 25 28 11 20 19818 0.0 4 18491 1063 202 50 12 21 39 0.0 4 7 29 2 1 22 5 0.0 4 0 0 2 1 2 23 72 0.0 4 2 1 0 49 20 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 0 0 0 0 1 26 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 36 3 0.0 4 0 0 0 0 3 43 2 0.0 4 1 0 0 0 1 46 1 0.0 4 1 48 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 120 2 0.0 4 0 0 1 1 126 6 0.0 4 0 0 0 0 6 127 385 0.0 4 0 0 0 0 385 130 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 153 9 0.0 4 0 0 0 0 9 155 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 229 1 0.0 4 0 0 0 0 1 234 3 0.0 4 0 0 0 0 3 235 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 262 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 0.72 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 20,674 Reads with adapters: 3,703 (17.9%) Reads written (passing filters): 20,674 (100.0%) Total basepairs processed: 5,600,837 bp Total written (filtered): 5,551,804 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3703 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.9% C: 9.9% G: 83.7% T: 2.5% 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 44 323.0 0 44 4 7 80.8 0 7 5 1 20.2 0 1 9 7 0.1 0 0 7 10 231 0.0 1 32 199 11 3325 0.0 1 170 3155 12 28 0.0 1 0 28 13 4 0.0 1 0 4 14 4 0.0 1 0 4 15 1 0.0 1 0 1 19 5 0.0 1 2 3 151 4 0.0 1 2 2 192 1 0.0 1 0 1 208 1 0.0 1 1 209 38 0.0 1 21 17 210 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.