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 75.76 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,834,615 Reads with adapters: 177,144 (6.2%) Reads that were too short: 18,529 (0.7%) Reads written (passing filters): 158,615 (5.6%) Total basepairs processed: 853,219,115 bp Total written (filtered): 35,142,463 bp (4.1%) === Adapter 1 === Sequence: AGCCTC; Type: regular 5'; Length: 6; Trimmed: 177144 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 425 692.0 0 425 7 3816 692.0 0 3816 8 3063 692.0 0 3063 9 55 692.0 0 55 10 63 692.0 0 63 11 344 692.0 0 344 12 56 692.0 0 56 13 92 692.0 0 92 14 84 692.0 0 84 15 44 692.0 0 44 16 70 692.0 0 70 17 54 692.0 0 54 18 79 692.0 0 79 19 99 692.0 0 99 20 85 692.0 0 85 21 68 692.0 0 68 22 106 692.0 0 106 23 91 692.0 0 91 24 76 692.0 0 76 25 83 692.0 0 83 26 129 692.0 0 129 27 64 692.0 0 64 28 118 692.0 0 118 29 309 692.0 0 309 30 294 692.0 0 294 31 59 692.0 0 59 32 59 692.0 0 59 33 82 692.0 0 82 34 63 692.0 0 63 35 63 692.0 0 63 36 97 692.0 0 97 37 112 692.0 0 112 38 160 692.0 0 160 39 369 692.0 0 369 40 145 692.0 0 145 41 240 692.0 0 240 42 130 692.0 0 130 43 125 692.0 0 125 44 231 692.0 0 231 45 125 692.0 0 125 46 142 692.0 0 142 47 138 692.0 0 138 48 152 692.0 0 152 49 235 692.0 0 235 50 235 692.0 0 235 51 430 692.0 0 430 52 594 692.0 0 594 53 862 692.0 0 862 54 1803 692.0 0 1803 55 3234 692.0 0 3234 56 45009 692.0 0 45009 57 27938 692.0 0 27938 58 26451 692.0 0 26451 59 180 692.0 0 180 60 84 692.0 0 84 61 111 692.0 0 111 62 352 692.0 0 352 63 161 692.0 0 161 64 252 692.0 0 252 65 52 692.0 0 52 66 81 692.0 0 81 67 80 692.0 0 80 68 67 692.0 0 67 69 65 692.0 0 65 70 60 692.0 0 60 71 90 692.0 0 90 72 91 692.0 0 91 73 75 692.0 0 75 74 99 692.0 0 99 75 65 692.0 0 65 76 69 692.0 0 69 77 47 692.0 0 47 78 63 692.0 0 63 79 51 692.0 0 51 80 92 692.0 0 92 81 78 692.0 0 78 82 91 692.0 0 91 83 203 692.0 0 203 84 95 692.0 0 95 85 104 692.0 0 104 86 123 692.0 0 123 87 166 692.0 0 166 88 259 692.0 0 259 89 149 692.0 0 149 90 95 692.0 0 95 91 73 692.0 0 73 92 61 692.0 0 61 93 74 692.0 0 74 94 75 692.0 0 75 95 52 692.0 0 52 96 62 692.0 0 62 97 70 692.0 0 70 98 47 692.0 0 47 99 119 692.0 0 119 100 91 692.0 0 91 101 62 692.0 0 62 102 52 692.0 0 52 103 206 692.0 0 206 104 112 692.0 0 112 105 197 692.0 0 197 106 62 692.0 0 62 107 281 692.0 0 281 108 69 692.0 0 69 109 68 692.0 0 68 110 60 692.0 0 60 111 89 692.0 0 89 112 86 692.0 0 86 113 169 692.0 0 169 114 75 692.0 0 75 115 59 692.0 0 59 116 50 692.0 0 50 117 56 692.0 0 56 118 59 692.0 0 59 119 73 692.0 0 73 120 71 692.0 0 71 121 85 692.0 0 85 122 41 692.0 0 41 123 96 692.0 0 96 124 196 692.0 0 196 125 195 692.0 0 195 126 403 692.0 0 403 127 105 692.0 0 105 128 213 692.0 0 213 129 148 692.0 0 148 130 73 692.0 0 73 131 167 692.0 0 167 132 89 692.0 0 89 133 87 692.0 0 87 134 86 692.0 0 86 135 85 692.0 0 85 136 132 692.0 0 132 137 56 692.0 0 56 138 69 692.0 0 69 139 264 692.0 0 264 140 111 692.0 0 111 141 103 692.0 0 103 142 120 692.0 0 120 143 130 692.0 0 130 144 93 692.0 0 93 145 174 692.0 0 174 146 225 692.0 0 225 147 1823 692.0 0 1823 148 1657 692.0 0 1657 149 1161 692.0 0 1161 150 629 692.0 0 629 151 296 692.0 0 296 152 333 692.0 0 333 153 102 692.0 0 102 154 120 692.0 0 120 155 61 692.0 0 61 156 98 692.0 0 98 157 75 692.0 0 75 158 84 692.0 0 84 159 93 692.0 0 93 160 389 692.0 0 389 161 154 692.0 0 154 162 161 692.0 0 161 163 80 692.0 0 80 164 83 692.0 0 83 165 124 692.0 0 124 166 183 692.0 0 183 167 1551 692.0 0 1551 168 767 692.0 0 767 169 1062 692.0 0 1062 170 112 692.0 0 112 171 182 692.0 0 182 172 284 692.0 0 284 173 640 692.0 0 640 174 206 692.0 0 206 175 793 692.0 0 793 176 327 692.0 0 327 177 490 692.0 0 490 178 232 692.0 0 232 179 81 692.0 0 81 180 106 692.0 0 106 181 93 692.0 0 93 182 115 692.0 0 115 183 164 692.0 0 164 184 113 692.0 0 113 185 123 692.0 0 123 186 250 692.0 0 250 187 215 692.0 0 215 188 347 692.0 0 347 189 142 692.0 0 142 190 103 692.0 0 103 191 154 692.0 0 154 192 196 692.0 0 196 193 300 692.0 0 300 194 461 692.0 0 461 195 1020 692.0 0 1020 196 741 692.0 0 741 197 1604 692.0 0 1604 198 380 692.0 0 380 199 640 692.0 0 640 200 5513 692.0 0 5513 201 2476 692.0 0 2476 202 2967 692.0 0 2967 203 106 692.0 0 106 204 56 692.0 0 56 205 67 692.0 0 67 206 62 692.0 0 62 207 86 692.0 0 86 208 80 692.0 0 80 209 50 692.0 0 50 210 46 692.0 0 46 211 44 692.0 0 44 212 43 692.0 0 43 213 63 692.0 0 63 214 65 692.0 0 65 215 106 692.0 0 106 216 74 692.0 0 74 217 58 692.0 0 58 218 107 692.0 0 107 219 285 692.0 0 285 220 162 692.0 0 162 221 260 692.0 0 260 222 73 692.0 0 73 223 64 692.0 0 64 224 65 692.0 0 65 225 67 692.0 0 67 226 59 692.0 0 59 227 88 692.0 0 88 228 104 692.0 0 104 229 213 692.0 0 213 230 284 692.0 0 284 231 377 692.0 0 377 232 909 692.0 0 909 233 324 692.0 0 324 234 481 692.0 0 481 235 59 692.0 0 59 236 52 692.0 0 52 237 80 692.0 0 80 238 74 692.0 0 74 239 93 692.0 0 93 240 99 692.0 0 99 241 113 692.0 0 113 242 80 692.0 0 80 243 71 692.0 0 71 244 63 692.0 0 63 245 46 692.0 0 46 246 92 692.0 0 92 247 68 692.0 0 68 248 127 692.0 0 127 249 105 692.0 0 105 250 89 692.0 0 89 251 67 692.0 0 67 252 69 692.0 0 69 253 52 692.0 0 52 254 63 692.0 0 63 255 68 692.0 0 68 256 65 692.0 0 65 257 106 692.0 0 106 258 74 692.0 0 74 259 82 692.0 0 82 260 93 692.0 0 93 261 108 692.0 0 108 262 102 692.0 0 102 263 85 692.0 0 85 264 101 692.0 0 101 265 83 692.0 0 83 266 104 692.0 0 104 267 133 692.0 0 133 268 377 692.0 0 377 269 313 692.0 0 313 270 412 692.0 0 412 271 157 692.0 0 157 272 94 692.0 0 94 273 157 692.0 0 157 274 128 692.0 0 128 275 132 692.0 0 132 276 206 692.0 0 206 277 156 692.0 0 156 278 249 692.0 0 249 279 159 692.0 0 159 280 485 692.0 0 485 281 473 692.0 0 473 282 311 692.0 0 311 283 748 692.0 0 748 284 115 692.0 0 115 285 57 692.0 0 57 286 45 692.0 0 45 287 177 692.0 0 177 288 185 692.0 0 185 289 493 692.0 0 493 290 149 692.0 0 149 291 113 692.0 0 113 292 213 692.0 0 213 293 315 692.0 0 315 294 270 692.0 0 270 295 210 692.0 0 210 296 104 692.0 0 104 297 100 692.0 0 100 298 63 692.0 0 63 299 83 692.0 0 83 300 328 692.0 0 328 301 291 692.0 0 291 Finished in 6.78 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 158,615 Reads with adapters: 3,308 (2.1%) Reads that were too short: 41 (0.0%) Reads written (passing filters): 3,267 (2.1%) Total basepairs processed: 35,142,463 bp Total written (filtered): 887,340 bp (2.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3308 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 57 0.0 3 0 40 8 7 2 20 3030 0.0 4 2822 160 33 10 5 21 17 0.0 4 2 13 1 1 22 5 0.0 4 1 2 1 0 1 23 114 0.0 4 100 3 1 7 3 24 1 0.0 4 0 0 1 25 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 1 53 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 56 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 1 70 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 1 77 1 0.0 4 0 0 0 0 1 79 5 0.0 4 0 1 0 0 4 95 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 119 1 0.0 4 1 122 3 0.0 4 0 0 0 0 3 123 4 0.0 4 0 0 0 0 4 127 21 0.0 4 0 0 0 0 21 130 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 1 194 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 202 15 0.0 4 0 0 0 1 14 222 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 280 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 0.11 s (34 us/read; 1.78 M reads/minute). === Summary === Total reads processed: 3,267 Reads with adapters: 601 (18.4%) Reads written (passing filters): 3,267 (100.0%) Total basepairs processed: 887,340 bp Total written (filtered): 879,567 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 601 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.2% C: 8.7% G: 84.5% T: 2.7% 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 9 51.0 0 9 4 2 12.8 0 2 9 7 0.0 0 1 6 10 110 0.0 1 12 98 11 457 0.0 1 21 436 12 5 0.0 1 0 5 14 2 0.0 1 0 2 90 3 0.0 1 3 177 2 0.0 1 2 209 4 0.0 1 2 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.