This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTGAGT -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 173.22 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 253,067 (7.0%) Reads that were too short: 63,918 (1.8%) Reads written (passing filters): 189,149 (5.2%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 53,024,106 bp (4.8%) === Adapter 1 === Sequence: TTGAGT; Type: regular 5'; Length: 6; Trimmed: 253067 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 636 887.3 0 636 7 1544 887.3 0 1544 8 80198 887.3 0 80198 9 83967 887.3 0 83967 10 169 887.3 0 169 11 91 887.3 0 91 12 110 887.3 0 110 13 78 887.3 0 78 14 95 887.3 0 95 15 97 887.3 0 97 16 96 887.3 0 96 17 104 887.3 0 104 18 118 887.3 0 118 19 105 887.3 0 105 20 83 887.3 0 83 21 109 887.3 0 109 22 99 887.3 0 99 23 99 887.3 0 99 24 102 887.3 0 102 25 123 887.3 0 123 26 61 887.3 0 61 27 94 887.3 0 94 28 66 887.3 0 66 29 79 887.3 0 79 30 112 887.3 0 112 31 80 887.3 0 80 32 68 887.3 0 68 33 91 887.3 0 91 34 95 887.3 0 95 35 87 887.3 0 87 36 84 887.3 0 84 37 87 887.3 0 87 38 79 887.3 0 79 39 75 887.3 0 75 40 93 887.3 0 93 41 81 887.3 0 81 42 94 887.3 0 94 43 97 887.3 0 97 44 108 887.3 0 108 45 124 887.3 0 124 46 99 887.3 0 99 47 93 887.3 0 93 48 88 887.3 0 88 49 102 887.3 0 102 50 100 887.3 0 100 51 99 887.3 0 99 52 93 887.3 0 93 53 92 887.3 0 92 54 103 887.3 0 103 55 106 887.3 0 106 56 96 887.3 0 96 57 83 887.3 0 83 58 97 887.3 0 97 59 259 887.3 0 259 60 321 887.3 0 321 61 385 887.3 0 385 62 74 887.3 0 74 63 108 887.3 0 108 64 82 887.3 0 82 65 72 887.3 0 72 66 80 887.3 0 80 67 92 887.3 0 92 68 103 887.3 0 103 69 98 887.3 0 98 70 160 887.3 0 160 71 126 887.3 0 126 72 204 887.3 0 204 73 108 887.3 0 108 74 104 887.3 0 104 75 101 887.3 0 101 76 111 887.3 0 111 77 156 887.3 0 156 78 210 887.3 0 210 79 104 887.3 0 104 80 112 887.3 0 112 81 141 887.3 0 141 82 104 887.3 0 104 83 91 887.3 0 91 84 95 887.3 0 95 85 120 887.3 0 120 86 87 887.3 0 87 87 95 887.3 0 95 88 85 887.3 0 85 89 100 887.3 0 100 90 113 887.3 0 113 91 114 887.3 0 114 92 126 887.3 0 126 93 125 887.3 0 125 94 122 887.3 0 122 95 115 887.3 0 115 96 86 887.3 0 86 97 91 887.3 0 91 98 106 887.3 0 106 99 110 887.3 0 110 100 118 887.3 0 118 101 111 887.3 0 111 102 96 887.3 0 96 103 106 887.3 0 106 104 84 887.3 0 84 105 96 887.3 0 96 106 110 887.3 0 110 107 83 887.3 0 83 108 101 887.3 0 101 109 115 887.3 0 115 110 123 887.3 0 123 111 176 887.3 0 176 112 159 887.3 0 159 113 121 887.3 0 121 114 119 887.3 0 119 115 91 887.3 0 91 116 114 887.3 0 114 117 134 887.3 0 134 118 598 887.3 0 598 119 127 887.3 0 127 120 97 887.3 0 97 121 93 887.3 0 93 122 101 887.3 0 101 123 112 887.3 0 112 124 110 887.3 0 110 125 86 887.3 0 86 126 108 887.3 0 108 127 96 887.3 0 96 128 119 887.3 0 119 129 104 887.3 0 104 130 162 887.3 0 162 131 134 887.3 0 134 132 156 887.3 0 156 133 183 887.3 0 183 134 187 887.3 0 187 135 114 887.3 0 114 136 93 887.3 0 93 137 97 887.3 0 97 138 177 887.3 0 177 139 325 887.3 0 325 140 184 887.3 0 184 141 105 887.3 0 105 142 135 887.3 0 135 143 150 887.3 0 150 144 297 887.3 0 297 145 133 887.3 0 133 146 118 887.3 0 118 147 119 887.3 0 119 148 119 887.3 0 119 149 117 887.3 0 117 150 72 887.3 0 72 151 95 887.3 0 95 152 163 887.3 0 163 153 153 887.3 0 153 154 102 887.3 0 102 155 101 887.3 0 101 156 124 887.3 0 124 157 125 887.3 0 125 158 126 887.3 0 126 159 105 887.3 0 105 160 73 887.3 0 73 161 89 887.3 0 89 162 87 887.3 0 87 163 93 887.3 0 93 164 85 887.3 0 85 165 104 887.3 0 104 166 82 887.3 0 82 167 75 887.3 0 75 168 113 887.3 0 113 169 90 887.3 0 90 170 93 887.3 0 93 171 102 887.3 0 102 172 74 887.3 0 74 173 104 887.3 0 104 174 88 887.3 0 88 175 82 887.3 0 82 176 93 887.3 0 93 177 96 887.3 0 96 178 98 887.3 0 98 179 98 887.3 0 98 180 120 887.3 0 120 181 104 887.3 0 104 182 79 887.3 0 79 183 101 887.3 0 101 184 72 887.3 0 72 185 74 887.3 0 74 186 90 887.3 0 90 187 90 887.3 0 90 188 93 887.3 0 93 189 115 887.3 0 115 190 89 887.3 0 89 191 122 887.3 0 122 192 159 887.3 0 159 193 194 887.3 0 194 194 84 887.3 0 84 195 90 887.3 0 90 196 123 887.3 0 123 197 295 887.3 0 295 198 436 887.3 0 436 199 317 887.3 0 317 200 86 887.3 0 86 201 93 887.3 0 93 202 79 887.3 0 79 203 75 887.3 0 75 204 269 887.3 0 269 205 324 887.3 0 324 206 194 887.3 0 194 207 98 887.3 0 98 208 83 887.3 0 83 209 81 887.3 0 81 210 79 887.3 0 79 211 68 887.3 0 68 212 82 887.3 0 82 213 99 887.3 0 99 214 73 887.3 0 73 215 88 887.3 0 88 216 89 887.3 0 89 217 76 887.3 0 76 218 95 887.3 0 95 219 92 887.3 0 92 220 85 887.3 0 85 221 100 887.3 0 100 222 112 887.3 0 112 223 312 887.3 0 312 224 367 887.3 0 367 225 155 887.3 0 155 226 110 887.3 0 110 227 111 887.3 0 111 228 91 887.3 0 91 229 86 887.3 0 86 230 99 887.3 0 99 231 122 887.3 0 122 232 135 887.3 0 135 233 127 887.3 0 127 234 152 887.3 0 152 235 121 887.3 0 121 236 128 887.3 0 128 237 150 887.3 0 150 238 138 887.3 0 138 239 113 887.3 0 113 240 144 887.3 0 144 241 115 887.3 0 115 242 113 887.3 0 113 243 132 887.3 0 132 244 119 887.3 0 119 245 184 887.3 0 184 246 189 887.3 0 189 247 175 887.3 0 175 248 118 887.3 0 118 249 113 887.3 0 113 250 86 887.3 0 86 251 83 887.3 0 83 252 101 887.3 0 101 253 105 887.3 0 105 254 129 887.3 0 129 255 199 887.3 0 199 256 186 887.3 0 186 257 166 887.3 0 166 258 175 887.3 0 175 259 148 887.3 0 148 260 133 887.3 0 133 261 168 887.3 0 168 262 138 887.3 0 138 263 154 887.3 0 154 264 116 887.3 0 116 265 382 887.3 0 382 266 628 887.3 0 628 267 379 887.3 0 379 268 238 887.3 0 238 269 78 887.3 0 78 270 102 887.3 0 102 271 125 887.3 0 125 272 147 887.3 0 147 273 164 887.3 0 164 274 217 887.3 0 217 275 164 887.3 0 164 276 110 887.3 0 110 277 155 887.3 0 155 278 175 887.3 0 175 279 183 887.3 0 183 280 236 887.3 0 236 281 224 887.3 0 224 282 244 887.3 0 244 283 165 887.3 0 165 284 210 887.3 0 210 285 226 887.3 0 226 286 262 887.3 0 262 287 207 887.3 0 207 288 252 887.3 0 252 289 256 887.3 0 256 290 283 887.3 0 283 291 464 887.3 0 464 292 446 887.3 0 446 293 441 887.3 0 441 294 545 887.3 0 545 295 546 887.3 0 546 296 623 887.3 0 623 297 1948 887.3 0 1948 298 10893 887.3 0 10893 299 13526 887.3 0 13526 300 13290 887.3 0 13290 301 7037 887.3 0 7037 Finished in 15.09 s (80 us/read; 0.75 M reads/minute). === Summary === Total reads processed: 189,149 Reads with adapters: 90,450 (47.8%) Reads that were too short: 27 (0.0%) Reads written (passing filters): 90,423 (47.8%) Total basepairs processed: 53,024,106 bp Total written (filtered): 24,448,683 bp (46.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 90450 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 2 0.0 3 0 0 0 2 18 49 0.0 3 0 0 45 3 1 19 1281 0.0 3 0 1257 21 2 1 20 87337 0.0 4 85726 1552 54 4 1 21 236 0.0 4 42 178 16 22 19 0.0 4 3 1 15 23 50 0.0 4 1 1 0 43 5 24 2 0.0 4 0 0 0 0 2 25 1 0.0 4 0 0 0 1 26 1 0.0 4 0 1 27 1 0.0 4 0 0 0 0 1 28 1 0.0 4 1 30 1 0.0 4 1 35 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 125 4 0.0 4 0 0 0 0 4 126 7 0.0 4 0 0 0 0 7 127 1420 0.0 4 0 0 0 3 1417 128 6 0.0 4 0 0 0 0 6 130 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 1 150 1 0.0 4 0 0 0 1 152 4 0.0 4 0 0 0 0 4 153 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 178 1 0.0 4 1 186 1 0.0 4 1 226 3 0.0 4 2 1 227 1 0.0 4 1 228 4 0.0 4 0 0 0 0 4 229 2 0.0 4 0 0 0 0 2 232 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 283 2 0.0 4 0 0 0 0 2 291 1 0.0 4 0 0 0 0 1 292 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 5.38 s (59 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 90,423 Reads with adapters: 13,415 (14.8%) Reads written (passing filters): 90,423 (100.0%) Total basepairs processed: 24,448,683 bp Total written (filtered): 24,314,251 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 13415 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.7% C: 2.1% G: 95.7% T: 1.5% 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 30 1412.9 0 30 4 13 353.2 0 13 5 4 88.3 0 4 6 6 22.1 0 6 7 2 5.5 0 2 9 8103 0.3 0 164 7939 10 4394 0.1 1 129 4265 11 759 0.0 1 2 757 12 13 0.0 1 0 13 13 7 0.0 1 0 7 18 1 0.0 1 1 19 11 0.0 1 9 2 20 1 0.0 1 1 22 2 0.0 1 2 23 1 0.0 1 1 42 1 0.0 1 1 80 1 0.0 1 1 102 1 0.0 1 1 103 6 0.0 1 4 2 104 10 0.0 1 6 4 105 19 0.0 1 14 5 106 11 0.0 1 5 6 107 4 0.0 1 4 108 2 0.0 1 2 153 1 0.0 1 1 156 1 0.0 1 1 177 1 0.0 1 1 210 1 0.0 1 1 223 6 0.0 1 6 224 1 0.0 1 1 229 1 0.0 1 1 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.