This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACTTCA -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 178.48 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 490,339 (13.5%) Reads that were too short: 124,859 (3.4%) Reads written (passing filters): 365,480 (10.1%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 99,289,103 bp (9.1%) === Adapter 1 === Sequence: ACTTCA; Type: regular 5'; Length: 6; Trimmed: 490339 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3871 887.3 0 3871 7 142148 887.3 0 142148 8 3961 887.3 0 3961 9 154675 887.3 0 154675 10 191 887.3 0 191 11 60 887.3 0 60 12 51 887.3 0 51 13 50 887.3 0 50 14 61 887.3 0 61 15 108 887.3 0 108 16 171 887.3 0 171 17 90 887.3 0 90 18 68 887.3 0 68 19 59 887.3 0 59 20 37 887.3 0 37 21 31 887.3 0 31 22 69 887.3 0 69 23 49 887.3 0 49 24 38 887.3 0 38 25 50 887.3 0 50 26 38 887.3 0 38 27 47 887.3 0 47 28 45 887.3 0 45 29 53 887.3 0 53 30 61 887.3 0 61 31 58 887.3 0 58 32 37 887.3 0 37 33 40 887.3 0 40 34 63 887.3 0 63 35 49 887.3 0 49 36 46 887.3 0 46 37 64 887.3 0 64 38 91 887.3 0 91 39 63 887.3 0 63 40 90 887.3 0 90 41 74 887.3 0 74 42 65 887.3 0 65 43 56 887.3 0 56 44 53 887.3 0 53 45 50 887.3 0 50 46 46 887.3 0 46 47 60 887.3 0 60 48 79 887.3 0 79 49 53 887.3 0 53 50 75 887.3 0 75 51 76 887.3 0 76 52 57 887.3 0 57 53 57 887.3 0 57 54 64 887.3 0 64 55 91 887.3 0 91 56 121 887.3 0 121 57 907 887.3 0 907 58 951 887.3 0 951 59 1698 887.3 0 1698 60 56 887.3 0 56 61 47 887.3 0 47 62 60 887.3 0 60 63 50 887.3 0 50 64 53 887.3 0 53 65 72 887.3 0 72 66 48 887.3 0 48 67 48 887.3 0 48 68 65 887.3 0 65 69 68 887.3 0 68 70 65 887.3 0 65 71 49 887.3 0 49 72 53 887.3 0 53 73 51 887.3 0 51 74 81 887.3 0 81 75 84 887.3 0 84 76 78 887.3 0 78 77 65 887.3 0 65 78 56 887.3 0 56 79 71 887.3 0 71 80 72 887.3 0 72 81 67 887.3 0 67 82 80 887.3 0 80 83 86 887.3 0 86 84 65 887.3 0 65 85 55 887.3 0 55 86 72 887.3 0 72 87 76 887.3 0 76 88 86 887.3 0 86 89 94 887.3 0 94 90 87 887.3 0 87 91 140 887.3 0 140 92 76 887.3 0 76 93 65 887.3 0 65 94 61 887.3 0 61 95 58 887.3 0 58 96 62 887.3 0 62 97 46 887.3 0 46 98 52 887.3 0 52 99 98 887.3 0 98 100 88 887.3 0 88 101 90 887.3 0 90 102 63 887.3 0 63 103 67 887.3 0 67 104 122 887.3 0 122 105 175 887.3 0 175 106 170 887.3 0 170 107 351 887.3 0 351 108 312 887.3 0 312 109 175 887.3 0 175 110 80 887.3 0 80 111 51 887.3 0 51 112 52 887.3 0 52 113 80 887.3 0 80 114 94 887.3 0 94 115 83 887.3 0 83 116 105 887.3 0 105 117 152 887.3 0 152 118 81 887.3 0 81 119 125 887.3 0 125 120 162 887.3 0 162 121 192 887.3 0 192 122 1037 887.3 0 1037 123 893 887.3 0 893 124 1168 887.3 0 1168 125 94 887.3 0 94 126 66 887.3 0 66 127 72 887.3 0 72 128 104 887.3 0 104 129 108 887.3 0 108 130 167 887.3 0 167 131 143 887.3 0 143 132 119 887.3 0 119 133 142 887.3 0 142 134 198 887.3 0 198 135 322 887.3 0 322 136 139 887.3 0 139 137 130 887.3 0 130 138 118 887.3 0 118 139 134 887.3 0 134 140 132 887.3 0 132 141 392 887.3 0 392 142 553 887.3 0 553 143 576 887.3 0 576 144 181 887.3 0 181 145 171 887.3 0 171 146 286 887.3 0 286 147 526 887.3 0 526 148 739 887.3 0 739 149 832 887.3 0 832 150 741 887.3 0 741 151 7433 887.3 0 7433 152 12393 887.3 0 12393 153 9269 887.3 0 9269 154 152 887.3 0 152 155 160 887.3 0 160 156 185 887.3 0 185 157 583 887.3 0 583 158 611 887.3 0 611 159 517 887.3 0 517 160 134 887.3 0 134 161 215 887.3 0 215 162 392 887.3 0 392 163 402 887.3 0 402 164 151 887.3 0 151 165 98 887.3 0 98 166 90 887.3 0 90 167 136 887.3 0 136 168 119 887.3 0 119 169 125 887.3 0 125 170 105 887.3 0 105 171 184 887.3 0 184 172 147 887.3 0 147 173 68 887.3 0 68 174 79 887.3 0 79 175 98 887.3 0 98 176 203 887.3 0 203 177 184 887.3 0 184 178 128 887.3 0 128 179 86 887.3 0 86 180 72 887.3 0 72 181 112 887.3 0 112 182 277 887.3 0 277 183 345 887.3 0 345 184 271 887.3 0 271 185 126 887.3 0 126 186 207 887.3 0 207 187 235 887.3 0 235 188 227 887.3 0 227 189 242 887.3 0 242 190 103 887.3 0 103 191 95 887.3 0 95 192 83 887.3 0 83 193 90 887.3 0 90 194 105 887.3 0 105 195 184 887.3 0 184 196 271 887.3 0 271 197 208 887.3 0 208 198 142 887.3 0 142 199 95 887.3 0 95 200 119 887.3 0 119 201 237 887.3 0 237 202 134 887.3 0 134 203 142 887.3 0 142 204 160 887.3 0 160 205 155 887.3 0 155 206 216 887.3 0 216 207 300 887.3 0 300 208 527 887.3 0 527 209 1130 887.3 0 1130 210 1597 887.3 0 1597 211 1565 887.3 0 1565 212 1638 887.3 0 1638 213 15314 887.3 0 15314 214 18150 887.3 0 18150 215 52893 887.3 0 52893 216 1011 887.3 0 1011 217 200 887.3 0 200 218 197 887.3 0 197 219 229 887.3 0 229 220 393 887.3 0 393 221 1742 887.3 0 1742 222 3796 887.3 0 3796 223 5148 887.3 0 5148 224 943 887.3 0 943 225 112 887.3 0 112 226 102 887.3 0 102 227 115 887.3 0 115 228 111 887.3 0 111 229 101 887.3 0 101 230 104 887.3 0 104 231 199 887.3 0 199 232 268 887.3 0 268 233 177 887.3 0 177 234 117 887.3 0 117 235 160 887.3 0 160 236 128 887.3 0 128 237 89 887.3 0 89 238 136 887.3 0 136 239 147 887.3 0 147 240 127 887.3 0 127 241 137 887.3 0 137 242 151 887.3 0 151 243 189 887.3 0 189 244 338 887.3 0 338 245 375 887.3 0 375 246 178 887.3 0 178 247 76 887.3 0 76 248 95 887.3 0 95 249 90 887.3 0 90 250 124 887.3 0 124 251 120 887.3 0 120 252 128 887.3 0 128 253 107 887.3 0 107 254 147 887.3 0 147 255 186 887.3 0 186 256 189 887.3 0 189 257 515 887.3 0 515 258 745 887.3 0 745 259 778 887.3 0 778 260 317 887.3 0 317 261 211 887.3 0 211 262 220 887.3 0 220 263 417 887.3 0 417 264 621 887.3 0 621 265 415 887.3 0 415 266 176 887.3 0 176 267 117 887.3 0 117 268 156 887.3 0 156 269 319 887.3 0 319 270 393 887.3 0 393 271 256 887.3 0 256 272 260 887.3 0 260 273 343 887.3 0 343 274 386 887.3 0 386 275 169 887.3 0 169 276 176 887.3 0 176 277 243 887.3 0 243 278 178 887.3 0 178 279 132 887.3 0 132 280 125 887.3 0 125 281 348 887.3 0 348 282 531 887.3 0 531 283 362 887.3 0 362 284 263 887.3 0 263 285 286 887.3 0 286 286 273 887.3 0 273 287 146 887.3 0 146 288 119 887.3 0 119 289 207 887.3 0 207 290 301 887.3 0 301 291 220 887.3 0 220 292 136 887.3 0 136 293 93 887.3 0 93 294 187 887.3 0 187 295 279 887.3 0 279 296 262 887.3 0 262 297 215 887.3 0 215 298 165 887.3 0 165 299 131 887.3 0 131 300 161 887.3 0 161 301 103 887.3 0 103 Finished in 28.15 s (77 us/read; 0.78 M reads/minute). === Summary === Total reads processed: 365,480 Reads with adapters: 145,590 (39.8%) Reads that were too short: 68 (0.0%) Reads written (passing filters): 145,522 (39.8%) Total basepairs processed: 99,289,103 bp Total written (filtered): 39,648,021 bp (39.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 145590 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 3 0.0 3 0 0 0 0 3 18 58 0.0 3 0 0 49 6 3 19 1347 0.0 3 0 1177 110 39 21 20 141517 0.0 4 136141 4497 663 170 46 21 335 0.0 4 59 253 14 5 4 22 43 0.0 4 7 3 26 4 3 23 165 0.0 4 9 1 1 126 28 24 12 0.0 4 1 2 0 0 9 25 4 0.0 4 3 0 0 0 1 27 172 0.0 4 1 0 0 2 169 28 4 0.0 4 1 0 0 0 3 29 1 0.0 4 1 30 1 0.0 4 0 0 0 0 1 31 1 0.0 4 0 0 0 1 32 2 0.0 4 1 0 0 0 1 34 1 0.0 4 1 42 1 0.0 4 1 43 1 0.0 4 1 45 1 0.0 4 1 50 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 1 87 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 117 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 0 0 1 124 4 0.0 4 1 0 0 0 3 125 4 0.0 4 0 0 0 0 4 126 21 0.0 4 0 0 0 0 21 127 1795 0.0 4 0 0 0 0 1795 128 2 0.0 4 0 0 0 0 2 129 2 0.0 4 0 0 0 0 2 130 3 0.0 4 0 0 0 0 3 134 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 5 0.0 4 0 0 0 0 5 137 7 0.0 4 0 0 0 1 6 145 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 202 2 0.0 4 0 0 0 0 2 203 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 214 2 0.0 4 0 0 0 0 2 215 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 227 3 0.0 4 0 0 0 0 3 228 7 0.0 4 0 0 0 0 7 229 8 0.0 4 0 0 0 0 8 230 4 0.0 4 0 0 0 0 4 233 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 254 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 258 2 0.0 4 0 0 0 0 2 263 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 273 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 283 2 0.0 4 0 0 0 0 2 284 1 0.0 4 0 0 0 0 1 285 2 0.0 4 0 0 0 0 2 289 2 0.0 4 0 0 0 0 2 290 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 8.19 s (56 us/read; 1.07 M reads/minute). === Summary === Total reads processed: 145,522 Reads with adapters: 6,431 (4.4%) Reads written (passing filters): 145,522 (100.0%) Total basepairs processed: 39,648,021 bp Total written (filtered): 39,573,461 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6431 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.1% C: 9.6% G: 80.2% T: 2.1% 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 3 656 2273.8 0 656 4 98 568.4 0 98 5 149 142.1 0 149 6 21 35.5 0 21 8 4 2.2 0 4 9 40 0.6 0 3 37 10 118 0.1 1 5 113 11 2804 0.0 1 45 2759 12 2436 0.0 1 44 2392 13 33 0.0 1 0 33 14 3 0.0 1 0 3 15 12 0.0 1 0 12 16 2 0.0 1 0 2 20 1 0.0 1 0 1 21 2 0.0 1 2 24 1 0.0 1 0 1 25 1 0.0 1 1 27 1 0.0 1 1 29 2 0.0 1 1 1 34 1 0.0 1 1 42 3 0.0 1 3 122 1 0.0 1 1 143 3 0.0 1 3 152 7 0.0 1 4 3 153 2 0.0 1 1 1 154 1 0.0 1 0 1 157 1 0.0 1 1 160 1 0.0 1 0 1 192 1 0.0 1 0 1 208 1 0.0 1 1 209 1 0.0 1 1 210 7 0.0 1 7 225 5 0.0 1 5 226 1 0.0 1 1 252 3 0.0 1 3 257 4 0.0 1 4 259 4 0.0 1 3 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.