This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCACT -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 73.44 s (26 us/read; 2.32 M reads/minute). === Summary === Total reads processed: 2,834,615 Reads with adapters: 223,853 (7.9%) Reads that were too short: 20,509 (0.7%) Reads written (passing filters): 203,344 (7.2%) Total basepairs processed: 853,219,115 bp Total written (filtered): 38,212,275 bp (4.5%) === Adapter 1 === Sequence: AGCACT; Type: regular 5'; Length: 6; Trimmed: 223853 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 116 692.0 0 116 7 4587 692.0 0 4587 8 4198 692.0 0 4198 9 33 692.0 0 33 10 18 692.0 0 18 11 42 692.0 0 42 12 389 692.0 0 389 13 99 692.0 0 99 14 412 692.0 0 412 15 31 692.0 0 31 16 22 692.0 0 22 17 33 692.0 0 33 18 36 692.0 0 36 19 18 692.0 0 18 20 39 692.0 0 39 21 36 692.0 0 36 22 40 692.0 0 40 23 39 692.0 0 39 24 56 692.0 0 56 25 335 692.0 0 335 26 116 692.0 0 116 27 117 692.0 0 117 28 31 692.0 0 31 29 34 692.0 0 34 30 113 692.0 0 113 31 31 692.0 0 31 32 52 692.0 0 52 33 32 692.0 0 32 34 42 692.0 0 42 35 48 692.0 0 48 36 55 692.0 0 55 37 84 692.0 0 84 38 43 692.0 0 43 39 48 692.0 0 48 40 55 692.0 0 55 41 43 692.0 0 43 42 81 692.0 0 81 43 90 692.0 0 90 44 95 692.0 0 95 45 30 692.0 0 30 46 53 692.0 0 53 47 39 692.0 0 39 48 43 692.0 0 43 49 57 692.0 0 57 50 44 692.0 0 44 51 94 692.0 0 94 52 46 692.0 0 46 53 43 692.0 0 43 54 63 692.0 0 63 55 78 692.0 0 78 56 116 692.0 0 116 57 50 692.0 0 50 58 47 692.0 0 47 59 35 692.0 0 35 60 71 692.0 0 71 61 47 692.0 0 47 62 84 692.0 0 84 63 100 692.0 0 100 64 68 692.0 0 68 65 574 692.0 0 574 66 273 692.0 0 273 67 482 692.0 0 482 68 62 692.0 0 62 69 38 692.0 0 38 70 58 692.0 0 58 71 66 692.0 0 66 72 79 692.0 0 79 73 71 692.0 0 71 74 62 692.0 0 62 75 44 692.0 0 44 76 32 692.0 0 32 77 89 692.0 0 89 78 122 692.0 0 122 79 98 692.0 0 98 80 193 692.0 0 193 81 133 692.0 0 133 82 98 692.0 0 98 83 77 692.0 0 77 84 94 692.0 0 94 85 63 692.0 0 63 86 92 692.0 0 92 87 161 692.0 0 161 88 215 692.0 0 215 89 369 692.0 0 369 90 740 692.0 0 740 91 1289 692.0 0 1289 92 345 692.0 0 345 93 367 692.0 0 367 94 786 692.0 0 786 95 340 692.0 0 340 96 333 692.0 0 333 97 494 692.0 0 494 98 589 692.0 0 589 99 545 692.0 0 545 100 622 692.0 0 622 101 904 692.0 0 904 102 1377 692.0 0 1377 103 1858 692.0 0 1858 104 30814 692.0 0 30814 105 29494 692.0 0 29494 106 59802 692.0 0 59802 107 271 692.0 0 271 108 61 692.0 0 61 109 34 692.0 0 34 110 79 692.0 0 79 111 81 692.0 0 81 112 116 692.0 0 116 113 79 692.0 0 79 114 102 692.0 0 102 115 424 692.0 0 424 116 116 692.0 0 116 117 1080 692.0 0 1080 118 81 692.0 0 81 119 190 692.0 0 190 120 75 692.0 0 75 121 167 692.0 0 167 122 71 692.0 0 71 123 121 692.0 0 121 124 1139 692.0 0 1139 125 109 692.0 0 109 126 239 692.0 0 239 127 96 692.0 0 96 128 62 692.0 0 62 129 68 692.0 0 68 130 71 692.0 0 71 131 50 692.0 0 50 132 155 692.0 0 155 133 53 692.0 0 53 134 68 692.0 0 68 135 62 692.0 0 62 136 60 692.0 0 60 137 39 692.0 0 39 138 177 692.0 0 177 139 118 692.0 0 118 140 127 692.0 0 127 141 83 692.0 0 83 142 165 692.0 0 165 143 64 692.0 0 64 144 141 692.0 0 141 145 116 692.0 0 116 146 154 692.0 0 154 147 121 692.0 0 121 148 117 692.0 0 117 149 105 692.0 0 105 150 65 692.0 0 65 151 194 692.0 0 194 152 169 692.0 0 169 153 314 692.0 0 314 154 263 692.0 0 263 155 244 692.0 0 244 156 334 692.0 0 334 157 710 692.0 0 710 158 1197 692.0 0 1197 159 20606 692.0 0 20606 160 9874 692.0 0 9874 161 9098 692.0 0 9098 162 106 692.0 0 106 163 67 692.0 0 67 164 63 692.0 0 63 165 60 692.0 0 60 166 72 692.0 0 72 167 384 692.0 0 384 168 156 692.0 0 156 169 269 692.0 0 269 170 53 692.0 0 53 171 98 692.0 0 98 172 229 692.0 0 229 173 259 692.0 0 259 174 133 692.0 0 133 175 82 692.0 0 82 176 51 692.0 0 51 177 68 692.0 0 68 178 69 692.0 0 69 179 94 692.0 0 94 180 73 692.0 0 73 181 77 692.0 0 77 182 156 692.0 0 156 183 99 692.0 0 99 184 280 692.0 0 280 185 166 692.0 0 166 186 168 692.0 0 168 187 120 692.0 0 120 188 117 692.0 0 117 189 143 692.0 0 143 190 62 692.0 0 62 191 96 692.0 0 96 192 70 692.0 0 70 193 62 692.0 0 62 194 97 692.0 0 97 195 70 692.0 0 70 196 116 692.0 0 116 197 98 692.0 0 98 198 192 692.0 0 192 199 211 692.0 0 211 200 860 692.0 0 860 201 382 692.0 0 382 202 286 692.0 0 286 203 69 692.0 0 69 204 59 692.0 0 59 205 123 692.0 0 123 206 135 692.0 0 135 207 142 692.0 0 142 208 89 692.0 0 89 209 171 692.0 0 171 210 65 692.0 0 65 211 66 692.0 0 66 212 77 692.0 0 77 213 97 692.0 0 97 214 183 692.0 0 183 215 92 692.0 0 92 216 82 692.0 0 82 217 101 692.0 0 101 218 189 692.0 0 189 219 452 692.0 0 452 220 239 692.0 0 239 221 282 692.0 0 282 222 70 692.0 0 70 223 90 692.0 0 90 224 155 692.0 0 155 225 70 692.0 0 70 226 175 692.0 0 175 227 101 692.0 0 101 228 276 692.0 0 276 229 145 692.0 0 145 230 236 692.0 0 236 231 106 692.0 0 106 232 93 692.0 0 93 233 108 692.0 0 108 234 113 692.0 0 113 235 72 692.0 0 72 236 115 692.0 0 115 237 108 692.0 0 108 238 227 692.0 0 227 239 221 692.0 0 221 240 1677 692.0 0 1677 241 1297 692.0 0 1297 242 1272 692.0 0 1272 243 279 692.0 0 279 244 95 692.0 0 95 245 71 692.0 0 71 246 106 692.0 0 106 247 109 692.0 0 109 248 135 692.0 0 135 249 84 692.0 0 84 250 98 692.0 0 98 251 90 692.0 0 90 252 109 692.0 0 109 253 123 692.0 0 123 254 306 692.0 0 306 255 312 692.0 0 312 256 265 692.0 0 265 257 182 692.0 0 182 258 131 692.0 0 131 259 117 692.0 0 117 260 91 692.0 0 91 261 97 692.0 0 97 262 66 692.0 0 66 263 89 692.0 0 89 264 85 692.0 0 85 265 104 692.0 0 104 266 116 692.0 0 116 267 222 692.0 0 222 268 194 692.0 0 194 269 182 692.0 0 182 270 156 692.0 0 156 271 102 692.0 0 102 272 100 692.0 0 100 273 116 692.0 0 116 274 203 692.0 0 203 275 173 692.0 0 173 276 264 692.0 0 264 277 151 692.0 0 151 278 253 692.0 0 253 279 302 692.0 0 302 280 408 692.0 0 408 281 402 692.0 0 402 282 431 692.0 0 431 283 1116 692.0 0 1116 284 157 692.0 0 157 285 80 692.0 0 80 286 96 692.0 0 96 287 102 692.0 0 102 288 180 692.0 0 180 289 125 692.0 0 125 290 126 692.0 0 126 291 105 692.0 0 105 292 143 692.0 0 143 293 168 692.0 0 168 294 226 692.0 0 226 295 170 692.0 0 170 296 154 692.0 0 154 297 78 692.0 0 78 298 84 692.0 0 84 299 147 692.0 0 147 300 423 692.0 0 423 301 184 692.0 0 184 Finished in 8.36 s (41 us/read; 1.46 M reads/minute). === Summary === Total reads processed: 203,344 Reads with adapters: 8,597 (4.2%) Reads that were too short: 86 (0.0%) Reads written (passing filters): 8,511 (4.2%) Total basepairs processed: 38,212,275 bp Total written (filtered): 1,876,461 bp (4.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8597 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 4 0.0 3 0 0 4 19 81 0.0 3 0 65 6 6 4 20 4183 0.0 4 3898 228 41 14 2 21 10 0.0 4 0 10 22 4 0.0 4 2 1 1 23 23 0.0 4 1 0 0 18 4 24 1 0.0 4 0 0 0 1 30 4143 0.0 4 0 0 0 0 4143 32 5 0.0 4 0 0 0 1 4 33 16 0.0 4 0 0 1 0 15 34 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 61 3 0.0 4 0 0 0 0 3 67 1 0.0 4 0 0 0 0 1 69 2 0.0 4 0 0 0 0 2 75 1 0.0 4 0 1 80 1 0.0 4 0 1 109 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 118 3 0.0 4 0 0 0 0 3 127 18 0.0 4 0 0 0 0 18 128 5 0.0 4 0 0 0 0 5 129 3 0.0 4 0 0 0 0 3 132 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 137 4 0.0 4 0 0 0 0 4 138 6 0.0 4 0 0 0 0 6 139 2 0.0 4 0 0 0 0 2 140 6 0.0 4 0 0 0 0 6 141 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 143 3 0.0 4 1 0 1 0 1 144 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 155 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 185 10 0.0 4 0 0 0 0 10 186 3 0.0 4 0 0 0 0 3 187 5 0.0 4 0 0 0 0 5 188 5 0.0 4 0 0 0 0 5 189 1 0.0 4 0 0 0 0 1 191 3 0.0 4 0 0 0 0 3 192 1 0.0 4 0 0 0 0 1 193 4 0.0 4 0 0 0 0 4 194 1 0.0 4 0 0 0 0 1 197 3 0.0 4 0 0 0 0 3 199 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 247 1 0.0 4 0 0 0 1 282 1 0.0 4 0 0 0 0 1 285 2 0.0 4 0 0 0 1 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 0.28 s (33 us/read; 1.82 M reads/minute). === Summary === Total reads processed: 8,511 Reads with adapters: 972 (11.4%) Reads written (passing filters): 8,511 (100.0%) Total basepairs processed: 1,876,461 bp Total written (filtered): 1,866,161 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 972 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.6% C: 9.0% G: 82.0% 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 26 133.0 0 26 4 26 33.2 0 26 5 1 8.3 0 1 9 1 0.0 0 0 1 10 10 0.0 1 2 8 11 896 0.0 1 42 854 12 10 0.0 1 0 10 14 2 0.0 1 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.