This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATGAA -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 167.25 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 345,538 (10.0%) Reads that were too short: 14,640 (0.4%) Reads written (passing filters): 330,898 (9.5%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 92,140,667 bp (8.8%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 345538 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2470 847.3 0 2470 7 4133 847.3 0 4133 8 150802 847.3 0 150802 9 127673 847.3 0 127673 10 205 847.3 0 205 11 77 847.3 0 77 12 45 847.3 0 45 13 43 847.3 0 43 14 45 847.3 0 45 15 66 847.3 0 66 16 52 847.3 0 52 17 42 847.3 0 42 18 41 847.3 0 41 19 37 847.3 0 37 20 41 847.3 0 41 21 55 847.3 0 55 22 40 847.3 0 40 23 53 847.3 0 53 24 44 847.3 0 44 25 40 847.3 0 40 26 49 847.3 0 49 27 62 847.3 0 62 28 52 847.3 0 52 29 47 847.3 0 47 30 38 847.3 0 38 31 53 847.3 0 53 32 73 847.3 0 73 33 32 847.3 0 32 34 36 847.3 0 36 35 56 847.3 0 56 36 50 847.3 0 50 37 57 847.3 0 57 38 59 847.3 0 59 39 62 847.3 0 62 40 34 847.3 0 34 41 55 847.3 0 55 42 91 847.3 0 91 43 59 847.3 0 59 44 51 847.3 0 51 45 138 847.3 0 138 46 105 847.3 0 105 47 76 847.3 0 76 48 41 847.3 0 41 49 46 847.3 0 46 50 53 847.3 0 53 51 51 847.3 0 51 52 25 847.3 0 25 53 45 847.3 0 45 54 50 847.3 0 50 55 55 847.3 0 55 56 44 847.3 0 44 57 82 847.3 0 82 58 59 847.3 0 59 59 92 847.3 0 92 60 54 847.3 0 54 61 56 847.3 0 56 62 85 847.3 0 85 63 55 847.3 0 55 64 77 847.3 0 77 65 138 847.3 0 138 66 197 847.3 0 197 67 81 847.3 0 81 68 118 847.3 0 118 69 137 847.3 0 137 70 99 847.3 0 99 71 154 847.3 0 154 72 924 847.3 0 924 73 536 847.3 0 536 74 310 847.3 0 310 75 409 847.3 0 409 76 270 847.3 0 270 77 299 847.3 0 299 78 526 847.3 0 526 79 7282 847.3 0 7282 80 3611 847.3 0 3611 81 3071 847.3 0 3071 82 291 847.3 0 291 83 287 847.3 0 287 84 247 847.3 0 247 85 98 847.3 0 98 86 74 847.3 0 74 87 61 847.3 0 61 88 97 847.3 0 97 89 64 847.3 0 64 90 59 847.3 0 59 91 58 847.3 0 58 92 84 847.3 0 84 93 76 847.3 0 76 94 60 847.3 0 60 95 114 847.3 0 114 96 98 847.3 0 98 97 88 847.3 0 88 98 405 847.3 0 405 99 310 847.3 0 310 100 137 847.3 0 137 101 115 847.3 0 115 102 149 847.3 0 149 103 141 847.3 0 141 104 123 847.3 0 123 105 122 847.3 0 122 106 127 847.3 0 127 107 158 847.3 0 158 108 166 847.3 0 166 109 155 847.3 0 155 110 197 847.3 0 197 111 198 847.3 0 198 112 179 847.3 0 179 113 197 847.3 0 197 114 183 847.3 0 183 115 213 847.3 0 213 116 230 847.3 0 230 117 239 847.3 0 239 118 207 847.3 0 207 119 225 847.3 0 225 120 195 847.3 0 195 121 226 847.3 0 226 122 170 847.3 0 170 123 205 847.3 0 205 124 329 847.3 0 329 125 649 847.3 0 649 126 388 847.3 0 388 127 325 847.3 0 325 128 297 847.3 0 297 129 247 847.3 0 247 130 241 847.3 0 241 131 181 847.3 0 181 132 151 847.3 0 151 133 125 847.3 0 125 134 162 847.3 0 162 135 170 847.3 0 170 136 197 847.3 0 197 137 190 847.3 0 190 138 592 847.3 0 592 139 407 847.3 0 407 140 317 847.3 0 317 141 606 847.3 0 606 142 475 847.3 0 475 143 175 847.3 0 175 144 193 847.3 0 193 145 146 847.3 0 146 146 146 847.3 0 146 147 147 847.3 0 147 148 116 847.3 0 116 149 120 847.3 0 120 150 229 847.3 0 229 151 219 847.3 0 219 152 130 847.3 0 130 153 106 847.3 0 106 154 116 847.3 0 116 155 127 847.3 0 127 156 137 847.3 0 137 157 123 847.3 0 123 158 282 847.3 0 282 159 249 847.3 0 249 160 456 847.3 0 456 161 112 847.3 0 112 162 133 847.3 0 133 163 133 847.3 0 133 164 231 847.3 0 231 165 136 847.3 0 136 166 174 847.3 0 174 167 114 847.3 0 114 168 124 847.3 0 124 169 132 847.3 0 132 170 142 847.3 0 142 171 116 847.3 0 116 172 128 847.3 0 128 173 95 847.3 0 95 174 100 847.3 0 100 175 95 847.3 0 95 176 92 847.3 0 92 177 127 847.3 0 127 178 134 847.3 0 134 179 153 847.3 0 153 180 153 847.3 0 153 181 153 847.3 0 153 182 837 847.3 0 837 183 1214 847.3 0 1214 184 1622 847.3 0 1622 185 150 847.3 0 150 186 94 847.3 0 94 187 99 847.3 0 99 188 125 847.3 0 125 189 122 847.3 0 122 190 106 847.3 0 106 191 93 847.3 0 93 192 90 847.3 0 90 193 103 847.3 0 103 194 122 847.3 0 122 195 87 847.3 0 87 196 99 847.3 0 99 197 116 847.3 0 116 198 108 847.3 0 108 199 109 847.3 0 109 200 117 847.3 0 117 201 143 847.3 0 143 202 107 847.3 0 107 203 111 847.3 0 111 204 138 847.3 0 138 205 129 847.3 0 129 206 166 847.3 0 166 207 167 847.3 0 167 208 215 847.3 0 215 209 181 847.3 0 181 210 167 847.3 0 167 211 177 847.3 0 177 212 188 847.3 0 188 213 171 847.3 0 171 214 129 847.3 0 129 215 112 847.3 0 112 216 119 847.3 0 119 217 97 847.3 0 97 218 111 847.3 0 111 219 110 847.3 0 110 220 104 847.3 0 104 221 107 847.3 0 107 222 150 847.3 0 150 223 115 847.3 0 115 224 107 847.3 0 107 225 137 847.3 0 137 226 186 847.3 0 186 227 207 847.3 0 207 228 174 847.3 0 174 229 103 847.3 0 103 230 100 847.3 0 100 231 174 847.3 0 174 232 128 847.3 0 128 233 124 847.3 0 124 234 105 847.3 0 105 235 131 847.3 0 131 236 97 847.3 0 97 237 204 847.3 0 204 238 157 847.3 0 157 239 118 847.3 0 118 240 105 847.3 0 105 241 124 847.3 0 124 242 107 847.3 0 107 243 111 847.3 0 111 244 87 847.3 0 87 245 108 847.3 0 108 246 108 847.3 0 108 247 147 847.3 0 147 248 113 847.3 0 113 249 123 847.3 0 123 250 135 847.3 0 135 251 118 847.3 0 118 252 116 847.3 0 116 253 267 847.3 0 267 254 361 847.3 0 361 255 763 847.3 0 763 256 596 847.3 0 596 257 126 847.3 0 126 258 111 847.3 0 111 259 111 847.3 0 111 260 158 847.3 0 158 261 138 847.3 0 138 262 145 847.3 0 145 263 155 847.3 0 155 264 431 847.3 0 431 265 178 847.3 0 178 266 152 847.3 0 152 267 50 847.3 0 50 268 107 847.3 0 107 269 117 847.3 0 117 270 107 847.3 0 107 271 81 847.3 0 81 272 117 847.3 0 117 273 103 847.3 0 103 274 109 847.3 0 109 275 137 847.3 0 137 276 170 847.3 0 170 277 127 847.3 0 127 278 102 847.3 0 102 279 104 847.3 0 104 280 101 847.3 0 101 281 110 847.3 0 110 282 104 847.3 0 104 283 90 847.3 0 90 284 136 847.3 0 136 285 141 847.3 0 141 286 117 847.3 0 117 287 106 847.3 0 106 288 105 847.3 0 105 289 151 847.3 0 151 290 136 847.3 0 136 291 114 847.3 0 114 292 124 847.3 0 124 293 87 847.3 0 87 294 94 847.3 0 94 295 106 847.3 0 106 296 117 847.3 0 117 297 128 847.3 0 128 298 113 847.3 0 113 299 128 847.3 0 128 300 144 847.3 0 144 301 240 847.3 0 240 Finished in 25.74 s (78 us/read; 0.77 M reads/minute). === Summary === Total reads processed: 330,898 Reads with adapters: 134,461 (40.6%) Reads that were too short: 94 (0.0%) Reads written (passing filters): 134,367 (40.6%) Total basepairs processed: 92,140,667 bp Total written (filtered): 36,486,072 bp (39.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 134461 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 16 2 0.0 3 0 0 0 0 2 17 17 0.0 3 0 0 0 12 5 18 92 0.0 3 0 0 67 22 3 19 1935 0.0 3 0 1697 115 86 37 20 130875 0.0 4 124277 5308 930 269 91 21 290 0.0 4 74 185 19 7 5 22 36 0.0 4 2 2 16 4 12 23 446 0.0 4 0 4 0 327 115 24 12 0.0 4 1 0 0 0 11 25 1 0.0 4 0 0 0 0 1 26 1 0.0 4 0 0 0 0 1 27 1 0.0 4 0 0 0 0 1 29 1 0.0 4 0 0 0 0 1 34 1 0.0 4 1 38 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 43 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 0 1 53 1 0.0 4 0 0 0 0 1 55 2 0.0 4 0 0 0 1 1 58 1 0.0 4 0 0 0 1 59 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 67 21 0.0 4 0 0 0 1 20 77 2 0.0 4 0 0 0 0 2 78 2 0.0 4 0 0 0 1 1 79 1 0.0 4 0 0 0 0 1 82 7 0.0 4 0 0 0 0 7 85 1 0.0 4 0 0 0 0 1 91 2 0.0 4 0 0 0 0 2 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 1 120 2 0.0 4 0 0 0 0 2 123 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 6 0.0 4 0 0 0 0 6 127 586 0.0 4 0 0 0 0 586 128 4 0.0 4 0 0 0 0 4 129 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 152 3 0.0 4 0 0 0 0 3 153 11 0.0 4 0 0 0 0 11 154 1 0.0 4 0 0 0 0 1 162 2 0.0 4 0 0 0 1 1 163 2 0.0 4 0 0 0 0 2 172 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 216 2 0.0 4 0 0 0 0 2 218 1 0.0 4 0 0 0 0 1 220 2 0.0 4 0 0 0 0 2 221 2 0.0 4 0 0 0 0 2 223 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 12 0.0 4 0 0 0 0 12 229 6 0.0 4 0 0 0 0 6 233 4 0.0 4 0 0 0 0 4 234 1 0.0 4 0 0 0 0 1 235 5 0.0 4 0 0 0 0 5 237 4 0.0 4 0 0 0 0 4 261 1 0.0 4 0 0 0 0 1 262 2 0.0 4 0 0 0 0 2 264 6 0.0 4 0 0 0 0 6 265 6 0.0 4 0 0 0 0 6 266 1 0.0 4 0 0 0 0 1 281 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 287 1 0.0 4 0 0 0 0 1 289 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 7.67 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 134,367 Reads with adapters: 35,448 (26.4%) Reads written (passing filters): 134,367 (100.0%) Total basepairs processed: 36,486,072 bp Total written (filtered): 36,102,214 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 35448 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 5.3% G: 91.3% T: 1.6% 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 42 2099.5 0 42 4 25 524.9 0 25 5 3 131.2 0 3 6 6 32.8 0 6 7 7 8.2 0 7 8 17 2.1 0 17 9 16950 0.5 0 1217 15733 10 14744 0.1 1 880 13864 11 3313 0.0 1 79 3234 12 77 0.0 1 1 76 13 35 0.0 1 0 35 14 1 0.0 1 0 1 91 1 0.0 1 1 147 1 0.0 1 1 150 29 0.0 1 21 8 151 1 0.0 1 1 153 1 0.0 1 1 160 5 0.0 1 4 1 189 3 0.0 1 0 3 207 1 0.0 1 1 208 143 0.0 1 122 21 209 12 0.0 1 9 3 210 4 0.0 1 3 1 211 1 0.0 1 1 223 25 0.0 1 24 1 226 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.