This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCCTC -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 68.78 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,574,510 Reads with adapters: 207,913 (8.1%) Reads that were too short: 16,046 (0.6%) Reads written (passing filters): 191,867 (7.5%) Total basepairs processed: 774,927,510 bp Total written (filtered): 42,687,520 bp (5.5%) === Adapter 1 === Sequence: AGCCTC; Type: regular 5'; Length: 6; Trimmed: 207913 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 873 628.5 0 873 7 834 628.5 0 834 8 913 628.5 0 913 9 125 628.5 0 125 10 138 628.5 0 138 11 110 628.5 0 110 12 134 628.5 0 134 13 128 628.5 0 128 14 104 628.5 0 104 15 119 628.5 0 119 16 121 628.5 0 121 17 112 628.5 0 112 18 157 628.5 0 157 19 166 628.5 0 166 20 159 628.5 0 159 21 153 628.5 0 153 22 157 628.5 0 157 23 148 628.5 0 148 24 142 628.5 0 142 25 130 628.5 0 130 26 158 628.5 0 158 27 112 628.5 0 112 28 181 628.5 0 181 29 269 628.5 0 269 30 105 628.5 0 105 31 90 628.5 0 90 32 78 628.5 0 78 33 112 628.5 0 112 34 122 628.5 0 122 35 137 628.5 0 137 36 197 628.5 0 197 37 150 628.5 0 150 38 252 628.5 0 252 39 460 628.5 0 460 40 190 628.5 0 190 41 241 628.5 0 241 42 171 628.5 0 171 43 240 628.5 0 240 44 325 628.5 0 325 45 202 628.5 0 202 46 221 628.5 0 221 47 166 628.5 0 166 48 193 628.5 0 193 49 376 628.5 0 376 50 351 628.5 0 351 51 589 628.5 0 589 52 780 628.5 0 780 53 938 628.5 0 938 54 2192 628.5 0 2192 55 3293 628.5 0 3293 56 47985 628.5 0 47985 57 25877 628.5 0 25877 58 55046 628.5 0 55046 59 287 628.5 0 287 60 124 628.5 0 124 61 106 628.5 0 106 62 174 628.5 0 174 63 135 628.5 0 135 64 142 628.5 0 142 65 87 628.5 0 87 66 108 628.5 0 108 67 121 628.5 0 121 68 93 628.5 0 93 69 123 628.5 0 123 70 105 628.5 0 105 71 127 628.5 0 127 72 116 628.5 0 116 73 112 628.5 0 112 74 129 628.5 0 129 75 114 628.5 0 114 76 103 628.5 0 103 77 80 628.5 0 80 78 84 628.5 0 84 79 128 628.5 0 128 80 134 628.5 0 134 81 126 628.5 0 126 82 107 628.5 0 107 83 132 628.5 0 132 84 112 628.5 0 112 85 94 628.5 0 94 86 107 628.5 0 107 87 104 628.5 0 104 88 97 628.5 0 97 89 93 628.5 0 93 90 101 628.5 0 101 91 68 628.5 0 68 92 96 628.5 0 96 93 79 628.5 0 79 94 81 628.5 0 81 95 60 628.5 0 60 96 102 628.5 0 102 97 85 628.5 0 85 98 77 628.5 0 77 99 94 628.5 0 94 100 116 628.5 0 116 101 94 628.5 0 94 102 95 628.5 0 95 103 169 628.5 0 169 104 184 628.5 0 184 105 188 628.5 0 188 106 92 628.5 0 92 107 89 628.5 0 89 108 114 628.5 0 114 109 110 628.5 0 110 110 115 628.5 0 115 111 136 628.5 0 136 112 82 628.5 0 82 113 127 628.5 0 127 114 121 628.5 0 121 115 96 628.5 0 96 116 113 628.5 0 113 117 97 628.5 0 97 118 105 628.5 0 105 119 456 628.5 0 456 120 125 628.5 0 125 121 108 628.5 0 108 122 110 628.5 0 110 123 114 628.5 0 114 124 312 628.5 0 312 125 596 628.5 0 596 126 695 628.5 0 695 127 142 628.5 0 142 128 123 628.5 0 123 129 100 628.5 0 100 130 118 628.5 0 118 131 90 628.5 0 90 132 109 628.5 0 109 133 105 628.5 0 105 134 105 628.5 0 105 135 121 628.5 0 121 136 92 628.5 0 92 137 109 628.5 0 109 138 138 628.5 0 138 139 138 628.5 0 138 140 179 628.5 0 179 141 465 628.5 0 465 142 175 628.5 0 175 143 142 628.5 0 142 144 167 628.5 0 167 145 180 628.5 0 180 146 276 628.5 0 276 147 1598 628.5 0 1598 148 974 628.5 0 974 149 1688 628.5 0 1688 150 828 628.5 0 828 151 236 628.5 0 236 152 842 628.5 0 842 153 115 628.5 0 115 154 120 628.5 0 120 155 106 628.5 0 106 156 185 628.5 0 185 157 119 628.5 0 119 158 108 628.5 0 108 159 151 628.5 0 151 160 488 628.5 0 488 161 256 628.5 0 256 162 252 628.5 0 252 163 198 628.5 0 198 164 147 628.5 0 147 165 318 628.5 0 318 166 425 628.5 0 425 167 5764 628.5 0 5764 168 899 628.5 0 899 169 3962 628.5 0 3962 170 146 628.5 0 146 171 191 628.5 0 191 172 143 628.5 0 143 173 192 628.5 0 192 174 212 628.5 0 212 175 215 628.5 0 215 176 309 628.5 0 309 177 273 628.5 0 273 178 122 628.5 0 122 179 81 628.5 0 81 180 150 628.5 0 150 181 131 628.5 0 131 182 110 628.5 0 110 183 149 628.5 0 149 184 95 628.5 0 95 185 130 628.5 0 130 186 158 628.5 0 158 187 228 628.5 0 228 188 137 628.5 0 137 189 125 628.5 0 125 190 141 628.5 0 141 191 115 628.5 0 115 192 149 628.5 0 149 193 157 628.5 0 157 194 129 628.5 0 129 195 356 628.5 0 356 196 378 628.5 0 378 197 360 628.5 0 360 198 374 628.5 0 374 199 522 628.5 0 522 200 4803 628.5 0 4803 201 2205 628.5 0 2205 202 3193 628.5 0 3193 203 187 628.5 0 187 204 80 628.5 0 80 205 105 628.5 0 105 206 96 628.5 0 96 207 107 628.5 0 107 208 123 628.5 0 123 209 108 628.5 0 108 210 67 628.5 0 67 211 83 628.5 0 83 212 108 628.5 0 108 213 117 628.5 0 117 214 80 628.5 0 80 215 90 628.5 0 90 216 118 628.5 0 118 217 99 628.5 0 99 218 75 628.5 0 75 219 137 628.5 0 137 220 129 628.5 0 129 221 132 628.5 0 132 222 104 628.5 0 104 223 98 628.5 0 98 224 76 628.5 0 76 225 88 628.5 0 88 226 108 628.5 0 108 227 121 628.5 0 121 228 129 628.5 0 129 229 199 628.5 0 199 230 178 628.5 0 178 231 220 628.5 0 220 232 268 628.5 0 268 233 162 628.5 0 162 234 236 628.5 0 236 235 99 628.5 0 99 236 94 628.5 0 94 237 96 628.5 0 96 238 98 628.5 0 98 239 97 628.5 0 97 240 116 628.5 0 116 241 123 628.5 0 123 242 126 628.5 0 126 243 140 628.5 0 140 244 107 628.5 0 107 245 86 628.5 0 86 246 100 628.5 0 100 247 108 628.5 0 108 248 112 628.5 0 112 249 125 628.5 0 125 250 107 628.5 0 107 251 91 628.5 0 91 252 134 628.5 0 134 253 104 628.5 0 104 254 93 628.5 0 93 255 94 628.5 0 94 256 111 628.5 0 111 257 91 628.5 0 91 258 110 628.5 0 110 259 109 628.5 0 109 260 115 628.5 0 115 261 94 628.5 0 94 262 111 628.5 0 111 263 78 628.5 0 78 264 76 628.5 0 76 265 114 628.5 0 114 266 106 628.5 0 106 267 89 628.5 0 89 268 165 628.5 0 165 269 164 628.5 0 164 270 143 628.5 0 143 271 124 628.5 0 124 272 109 628.5 0 109 273 232 628.5 0 232 274 120 628.5 0 120 275 160 628.5 0 160 276 183 628.5 0 183 277 161 628.5 0 161 278 222 628.5 0 222 279 212 628.5 0 212 280 156 628.5 0 156 281 222 628.5 0 222 282 279 628.5 0 279 283 282 628.5 0 282 284 101 628.5 0 101 285 118 628.5 0 118 286 103 628.5 0 103 287 101 628.5 0 101 288 157 628.5 0 157 289 198 628.5 0 198 290 143 628.5 0 143 291 154 628.5 0 154 292 97 628.5 0 97 293 135 628.5 0 135 294 154 628.5 0 154 295 131 628.5 0 131 296 119 628.5 0 119 297 102 628.5 0 102 298 106 628.5 0 106 299 131 628.5 0 131 300 163 628.5 0 163 301 224 628.5 0 224 Finished in 8.25 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 191,867 Reads with adapters: 1,609 (0.8%) Reads that were too short: 30 (0.0%) Reads written (passing filters): 1,579 (0.8%) Total basepairs processed: 42,687,520 bp Total written (filtered): 425,769 bp (1.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 1609 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 1 0.0 3 0 0 1 19 8 0.0 3 0 8 20 806 0.0 4 799 6 1 22 9 0.0 4 2 7 23 710 0.0 4 693 17 24 4 0.0 4 3 1 26 2 0.0 4 0 0 0 0 2 30 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 1 71 1 0.0 4 1 79 2 0.0 4 0 0 0 0 2 103 1 0.0 4 1 122 10 0.0 4 0 0 0 0 10 126 1 0.0 4 0 0 0 0 1 127 22 0.0 4 0 0 0 0 22 129 1 0.0 4 0 0 0 0 1 147 2 0.0 4 1 1 149 1 0.0 4 0 1 165 1 0.0 4 1 171 2 0.0 4 1 0 0 1 180 1 0.0 4 0 0 0 0 1 202 16 0.0 4 0 0 0 0 16 221 2 0.0 4 0 0 0 0 2 222 1 0.0 4 0 0 0 0 1 243 1 0.0 4 1 247 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 0.05 s (32 us/read; 1.89 M reads/minute). === Summary === Total reads processed: 1,579 Reads with adapters: 239 (15.1%) Reads written (passing filters): 1,579 (100.0%) Total basepairs processed: 425,769 bp Total written (filtered): 421,945 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 239 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.8% C: 6.3% G: 90.8% T: 2.1% 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 4 2 6.2 0 2 5 1 1.5 0 1 9 48 0.0 0 2 46 10 61 0.0 1 2 59 11 115 0.0 1 0 115 90 8 0.0 1 8 177 2 0.0 1 1 1 215 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.