This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTTGGT -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 159.80 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 78,655 (2.3%) Reads that were too short: 14,009 (0.4%) Reads written (passing filters): 64,646 (1.9%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 13,581,909 bp (1.3%) === Adapter 1 === Sequence: CTTGGT; Type: regular 5'; Length: 6; Trimmed: 78655 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 767 847.3 0 767 7 11580 847.3 0 11580 8 9499 847.3 0 9499 9 135 847.3 0 135 10 106 847.3 0 106 11 55 847.3 0 55 12 78 847.3 0 78 13 65 847.3 0 65 14 78 847.3 0 78 15 73 847.3 0 73 16 85 847.3 0 85 17 106 847.3 0 106 18 101 847.3 0 101 19 138 847.3 0 138 20 161 847.3 0 161 21 294 847.3 0 294 22 125 847.3 0 125 23 91 847.3 0 91 24 57 847.3 0 57 25 59 847.3 0 59 26 122 847.3 0 122 27 84 847.3 0 84 28 66 847.3 0 66 29 87 847.3 0 87 30 103 847.3 0 103 31 66 847.3 0 66 32 67 847.3 0 67 33 76 847.3 0 76 34 115 847.3 0 115 35 90 847.3 0 90 36 75 847.3 0 75 37 90 847.3 0 90 38 112 847.3 0 112 39 168 847.3 0 168 40 151 847.3 0 151 41 305 847.3 0 305 42 86 847.3 0 86 43 63 847.3 0 63 44 86 847.3 0 86 45 94 847.3 0 94 46 75 847.3 0 75 47 91 847.3 0 91 48 109 847.3 0 109 49 103 847.3 0 103 50 93 847.3 0 93 51 83 847.3 0 83 52 75 847.3 0 75 53 100 847.3 0 100 54 67 847.3 0 67 55 78 847.3 0 78 56 98 847.3 0 98 57 104 847.3 0 104 58 105 847.3 0 105 59 59 847.3 0 59 60 79 847.3 0 79 61 73 847.3 0 73 62 70 847.3 0 70 63 62 847.3 0 62 64 94 847.3 0 94 65 90 847.3 0 90 66 69 847.3 0 69 67 86 847.3 0 86 68 76 847.3 0 76 69 79 847.3 0 79 70 94 847.3 0 94 71 85 847.3 0 85 72 81 847.3 0 81 73 97 847.3 0 97 74 80 847.3 0 80 75 91 847.3 0 91 76 153 847.3 0 153 77 139 847.3 0 139 78 291 847.3 0 291 79 229 847.3 0 229 80 126 847.3 0 126 81 202 847.3 0 202 82 86 847.3 0 86 83 73 847.3 0 73 84 104 847.3 0 104 85 103 847.3 0 103 86 76 847.3 0 76 87 80 847.3 0 80 88 96 847.3 0 96 89 170 847.3 0 170 90 125 847.3 0 125 91 148 847.3 0 148 92 165 847.3 0 165 93 680 847.3 0 680 94 503 847.3 0 503 95 247 847.3 0 247 96 269 847.3 0 269 97 237 847.3 0 237 98 276 847.3 0 276 99 88 847.3 0 88 100 81 847.3 0 81 101 79 847.3 0 79 102 72 847.3 0 72 103 49 847.3 0 49 104 76 847.3 0 76 105 86 847.3 0 86 106 114 847.3 0 114 107 117 847.3 0 117 108 107 847.3 0 107 109 71 847.3 0 71 110 100 847.3 0 100 111 76 847.3 0 76 112 72 847.3 0 72 113 221 847.3 0 221 114 123 847.3 0 123 115 134 847.3 0 134 116 157 847.3 0 157 117 183 847.3 0 183 118 71 847.3 0 71 119 59 847.3 0 59 120 86 847.3 0 86 121 74 847.3 0 74 122 92 847.3 0 92 123 118 847.3 0 118 124 58 847.3 0 58 125 118 847.3 0 118 126 106 847.3 0 106 127 138 847.3 0 138 128 181 847.3 0 181 129 232 847.3 0 232 130 1970 847.3 0 1970 131 824 847.3 0 824 132 810 847.3 0 810 133 69 847.3 0 69 134 66 847.3 0 66 135 89 847.3 0 89 136 75 847.3 0 75 137 95 847.3 0 95 138 115 847.3 0 115 139 108 847.3 0 108 140 93 847.3 0 93 141 71 847.3 0 71 142 114 847.3 0 114 143 173 847.3 0 173 144 123 847.3 0 123 145 136 847.3 0 136 146 95 847.3 0 95 147 107 847.3 0 107 148 68 847.3 0 68 149 79 847.3 0 79 150 75 847.3 0 75 151 89 847.3 0 89 152 125 847.3 0 125 153 75 847.3 0 75 154 103 847.3 0 103 155 85 847.3 0 85 156 118 847.3 0 118 157 187 847.3 0 187 158 136 847.3 0 136 159 158 847.3 0 158 160 89 847.3 0 89 161 97 847.3 0 97 162 152 847.3 0 152 163 126 847.3 0 126 164 132 847.3 0 132 165 199 847.3 0 199 166 199 847.3 0 199 167 330 847.3 0 330 168 425 847.3 0 425 169 4052 847.3 0 4052 170 3792 847.3 0 3792 171 9971 847.3 0 9971 172 128 847.3 0 128 173 70 847.3 0 70 174 161 847.3 0 161 175 80 847.3 0 80 176 115 847.3 0 115 177 61 847.3 0 61 178 103 847.3 0 103 179 86 847.3 0 86 180 96 847.3 0 96 181 83 847.3 0 83 182 63 847.3 0 63 183 62 847.3 0 62 184 71 847.3 0 71 185 76 847.3 0 76 186 58 847.3 0 58 187 60 847.3 0 60 188 63 847.3 0 63 189 70 847.3 0 70 190 64 847.3 0 64 191 67 847.3 0 67 192 98 847.3 0 98 193 100 847.3 0 100 194 88 847.3 0 88 195 52 847.3 0 52 196 81 847.3 0 81 197 63 847.3 0 63 198 99 847.3 0 99 199 69 847.3 0 69 200 65 847.3 0 65 201 77 847.3 0 77 202 101 847.3 0 101 203 136 847.3 0 136 204 200 847.3 0 200 205 188 847.3 0 188 206 129 847.3 0 129 207 48 847.3 0 48 208 76 847.3 0 76 209 113 847.3 0 113 210 134 847.3 0 134 211 136 847.3 0 136 212 76 847.3 0 76 213 80 847.3 0 80 214 74 847.3 0 74 215 119 847.3 0 119 216 101 847.3 0 101 217 108 847.3 0 108 218 101 847.3 0 101 219 96 847.3 0 96 220 92 847.3 0 92 221 97 847.3 0 97 222 440 847.3 0 440 223 353 847.3 0 353 224 203 847.3 0 203 225 63 847.3 0 63 226 76 847.3 0 76 227 62 847.3 0 62 228 73 847.3 0 73 229 70 847.3 0 70 230 123 847.3 0 123 231 124 847.3 0 124 232 169 847.3 0 169 233 112 847.3 0 112 234 146 847.3 0 146 235 195 847.3 0 195 236 366 847.3 0 366 237 355 847.3 0 355 238 143 847.3 0 143 239 79 847.3 0 79 240 92 847.3 0 92 241 108 847.3 0 108 242 125 847.3 0 125 243 111 847.3 0 111 244 71 847.3 0 71 245 88 847.3 0 88 246 88 847.3 0 88 247 82 847.3 0 82 248 66 847.3 0 66 249 72 847.3 0 72 250 90 847.3 0 90 251 95 847.3 0 95 252 91 847.3 0 91 253 124 847.3 0 124 254 141 847.3 0 141 255 157 847.3 0 157 256 147 847.3 0 147 257 91 847.3 0 91 258 115 847.3 0 115 259 75 847.3 0 75 260 70 847.3 0 70 261 183 847.3 0 183 262 215 847.3 0 215 263 136 847.3 0 136 264 91 847.3 0 91 265 78 847.3 0 78 266 90 847.3 0 90 267 82 847.3 0 82 268 74 847.3 0 74 269 78 847.3 0 78 270 106 847.3 0 106 271 282 847.3 0 282 272 288 847.3 0 288 273 303 847.3 0 303 274 121 847.3 0 121 275 73 847.3 0 73 276 112 847.3 0 112 277 140 847.3 0 140 278 178 847.3 0 178 279 123 847.3 0 123 280 91 847.3 0 91 281 116 847.3 0 116 282 108 847.3 0 108 283 118 847.3 0 118 284 81 847.3 0 81 285 93 847.3 0 93 286 86 847.3 0 86 287 72 847.3 0 72 288 92 847.3 0 92 289 105 847.3 0 105 290 132 847.3 0 132 291 90 847.3 0 90 292 275 847.3 0 275 293 283 847.3 0 283 294 239 847.3 0 239 295 167 847.3 0 167 296 642 847.3 0 642 297 403 847.3 0 403 298 251 847.3 0 251 299 169 847.3 0 169 300 113 847.3 0 113 301 74 847.3 0 74 Finished in 4.23 s (65 us/read; 0.92 M reads/minute). === Summary === Total reads processed: 64,646 Reads with adapters: 10,214 (15.8%) Reads that were too short: 19 (0.0%) Reads written (passing filters): 10,195 (15.8%) Total basepairs processed: 13,581,909 bp Total written (filtered): 2,762,847 bp (20.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10214 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 6 0.0 3 0 0 5 0 1 19 160 0.0 3 0 132 13 8 7 20 9764 0.0 4 9290 386 70 14 4 21 28 0.0 4 3 25 22 4 0.0 4 2 0 1 0 1 23 31 0.0 4 2 0 0 17 12 24 1 0.0 4 0 0 0 0 1 27 4 0.0 4 0 0 0 1 3 28 1 0.0 4 1 41 53 0.0 4 0 0 0 0 53 42 7 0.0 4 0 0 0 0 7 82 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 1 126 2 0.0 4 0 0 0 0 2 127 127 0.0 4 0 0 0 0 127 130 3 0.0 4 0 0 0 0 3 147 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 184 5 0.0 4 0 0 0 0 5 191 1 0.0 4 1 197 1 0.0 4 0 0 0 1 210 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 227 3 0.0 4 0 0 0 0 3 228 1 0.0 4 0 0 0 0 1 248 1 0.0 4 0 0 0 0 1 282 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 0.58 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 10,195 Reads with adapters: 2,409 (23.6%) Reads written (passing filters): 10,195 (100.0%) Total basepairs processed: 2,762,847 bp Total written (filtered): 2,727,402 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2409 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.3% C: 4.0% G: 91.9% T: 2.8% 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 12 159.3 0 12 4 4 39.8 0 4 5 1 10.0 0 1 8 1 0.2 0 1 9 4 0.0 0 0 4 10 95 0.0 1 3 92 11 2235 0.0 1 44 2191 12 9 0.0 1 0 9 13 1 0.0 1 0 1 20 1 0.0 1 1 81 4 0.0 1 2 2 135 1 0.0 1 1 160 1 0.0 1 0 1 170 1 0.0 1 1 224 29 0.0 1 26 3 225 4 0.0 1 3 1 226 2 0.0 1 2 244 2 0.0 1 2 271 1 0.0 1 1 272 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.