This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CATTAG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 94.07 s (27 us/read; 2.21 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 627,096 (18.1%) Reads that were too short: 21,704 (0.6%) Reads written (passing filters): 605,392 (17.5%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 169,167,380 bp (16.2%) === Adapter 1 === Sequence: CATTAG; Type: regular 5'; Length: 6; Trimmed: 627096 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 5079 846.0 0 5079 7 515448 846.0 0 515448 8 2446 846.0 0 2446 9 49 846.0 0 49 10 52 846.0 0 52 11 28 846.0 0 28 12 45 846.0 0 45 13 40 846.0 0 40 14 50 846.0 0 50 15 38 846.0 0 38 16 38 846.0 0 38 17 104 846.0 0 104 18 66 846.0 0 66 19 41 846.0 0 41 20 78 846.0 0 78 21 102 846.0 0 102 22 135 846.0 0 135 23 109 846.0 0 109 24 99 846.0 0 99 25 102 846.0 0 102 26 115 846.0 0 115 27 130 846.0 0 130 28 190 846.0 0 190 29 209 846.0 0 209 30 228 846.0 0 228 31 266 846.0 0 266 32 4485 846.0 0 4485 33 255 846.0 0 255 34 195 846.0 0 195 35 83 846.0 0 83 36 57 846.0 0 57 37 73 846.0 0 73 38 66 846.0 0 66 39 59 846.0 0 59 40 52 846.0 0 52 41 76 846.0 0 76 42 79 846.0 0 79 43 119 846.0 0 119 44 487 846.0 0 487 45 634 846.0 0 634 46 96 846.0 0 96 47 48 846.0 0 48 48 46 846.0 0 46 49 42 846.0 0 42 50 50 846.0 0 50 51 43 846.0 0 43 52 63 846.0 0 63 53 51 846.0 0 51 54 63 846.0 0 63 55 67 846.0 0 67 56 66 846.0 0 66 57 61 846.0 0 61 58 198 846.0 0 198 59 262 846.0 0 262 60 90 846.0 0 90 61 41 846.0 0 41 62 61 846.0 0 61 63 56 846.0 0 56 64 44 846.0 0 44 65 42 846.0 0 42 66 67 846.0 0 67 67 103 846.0 0 103 68 115 846.0 0 115 69 150 846.0 0 150 70 185 846.0 0 185 71 273 846.0 0 273 72 6914 846.0 0 6914 73 3639 846.0 0 3639 74 4752 846.0 0 4752 75 69 846.0 0 69 76 52 846.0 0 52 77 57 846.0 0 57 78 50 846.0 0 50 79 55 846.0 0 55 80 45 846.0 0 45 81 79 846.0 0 79 82 61 846.0 0 61 83 77 846.0 0 77 84 72 846.0 0 72 85 63 846.0 0 63 86 59 846.0 0 59 87 54 846.0 0 54 88 437 846.0 0 437 89 1182 846.0 0 1182 90 463 846.0 0 463 91 477 846.0 0 477 92 651 846.0 0 651 93 126 846.0 0 126 94 113 846.0 0 113 95 207 846.0 0 207 96 351 846.0 0 351 97 289 846.0 0 289 98 71 846.0 0 71 99 94 846.0 0 94 100 108 846.0 0 108 101 91 846.0 0 91 102 76 846.0 0 76 103 45 846.0 0 45 104 61 846.0 0 61 105 57 846.0 0 57 106 53 846.0 0 53 107 96 846.0 0 96 108 228 846.0 0 228 109 182 846.0 0 182 110 187 846.0 0 187 111 77 846.0 0 77 112 155 846.0 0 155 113 206 846.0 0 206 114 211 846.0 0 211 115 122 846.0 0 122 116 106 846.0 0 106 117 95 846.0 0 95 118 94 846.0 0 94 119 249 846.0 0 249 120 137 846.0 0 137 121 192 846.0 0 192 122 159 846.0 0 159 123 172 846.0 0 172 124 128 846.0 0 128 125 147 846.0 0 147 126 213 846.0 0 213 127 280 846.0 0 280 128 624 846.0 0 624 129 1177 846.0 0 1177 130 1016 846.0 0 1016 131 251 846.0 0 251 132 272 846.0 0 272 133 458 846.0 0 458 134 1164 846.0 0 1164 135 744 846.0 0 744 136 581 846.0 0 581 137 603 846.0 0 603 138 392 846.0 0 392 139 572 846.0 0 572 140 812 846.0 0 812 141 1070 846.0 0 1070 142 1039 846.0 0 1039 143 3971 846.0 0 3971 144 6534 846.0 0 6534 145 13964 846.0 0 13964 146 243 846.0 0 243 147 157 846.0 0 157 148 179 846.0 0 179 149 203 846.0 0 203 150 142 846.0 0 142 151 96 846.0 0 96 152 123 846.0 0 123 153 99 846.0 0 99 154 147 846.0 0 147 155 320 846.0 0 320 156 375 846.0 0 375 157 592 846.0 0 592 158 384 846.0 0 384 159 131 846.0 0 131 160 119 846.0 0 119 161 144 846.0 0 144 162 187 846.0 0 187 163 375 846.0 0 375 164 429 846.0 0 429 165 999 846.0 0 999 166 170 846.0 0 170 167 214 846.0 0 214 168 163 846.0 0 163 169 153 846.0 0 153 170 134 846.0 0 134 171 108 846.0 0 108 172 195 846.0 0 195 173 110 846.0 0 110 174 180 846.0 0 180 175 201 846.0 0 201 176 189 846.0 0 189 177 128 846.0 0 128 178 90 846.0 0 90 179 114 846.0 0 114 180 142 846.0 0 142 181 143 846.0 0 143 182 189 846.0 0 189 183 155 846.0 0 155 184 183 846.0 0 183 185 164 846.0 0 164 186 157 846.0 0 157 187 173 846.0 0 173 188 166 846.0 0 166 189 162 846.0 0 162 190 136 846.0 0 136 191 161 846.0 0 161 192 175 846.0 0 175 193 146 846.0 0 146 194 260 846.0 0 260 195 215 846.0 0 215 196 251 846.0 0 251 197 199 846.0 0 199 198 120 846.0 0 120 199 122 846.0 0 122 200 137 846.0 0 137 201 123 846.0 0 123 202 397 846.0 0 397 203 341 846.0 0 341 204 271 846.0 0 271 205 218 846.0 0 218 206 168 846.0 0 168 207 185 846.0 0 185 208 225 846.0 0 225 209 341 846.0 0 341 210 241 846.0 0 241 211 196 846.0 0 196 212 175 846.0 0 175 213 217 846.0 0 217 214 179 846.0 0 179 215 546 846.0 0 546 216 572 846.0 0 572 217 571 846.0 0 571 218 157 846.0 0 157 219 88 846.0 0 88 220 162 846.0 0 162 221 234 846.0 0 234 222 202 846.0 0 202 223 254 846.0 0 254 224 164 846.0 0 164 225 160 846.0 0 160 226 283 846.0 0 283 227 244 846.0 0 244 228 175 846.0 0 175 229 177 846.0 0 177 230 211 846.0 0 211 231 262 846.0 0 262 232 198 846.0 0 198 233 241 846.0 0 241 234 229 846.0 0 229 235 299 846.0 0 299 236 345 846.0 0 345 237 223 846.0 0 223 238 170 846.0 0 170 239 270 846.0 0 270 240 135 846.0 0 135 241 141 846.0 0 141 242 155 846.0 0 155 243 203 846.0 0 203 244 243 846.0 0 243 245 333 846.0 0 333 246 182 846.0 0 182 247 124 846.0 0 124 248 138 846.0 0 138 249 135 846.0 0 135 250 85 846.0 0 85 251 124 846.0 0 124 252 186 846.0 0 186 253 169 846.0 0 169 254 191 846.0 0 191 255 246 846.0 0 246 256 250 846.0 0 250 257 168 846.0 0 168 258 154 846.0 0 154 259 232 846.0 0 232 260 250 846.0 0 250 261 449 846.0 0 449 262 356 846.0 0 356 263 338 846.0 0 338 264 199 846.0 0 199 265 186 846.0 0 186 266 146 846.0 0 146 267 192 846.0 0 192 268 155 846.0 0 155 269 162 846.0 0 162 270 251 846.0 0 251 271 187 846.0 0 187 272 151 846.0 0 151 273 154 846.0 0 154 274 181 846.0 0 181 275 186 846.0 0 186 276 167 846.0 0 167 277 173 846.0 0 173 278 162 846.0 0 162 279 166 846.0 0 166 280 235 846.0 0 235 281 232 846.0 0 232 282 209 846.0 0 209 283 242 846.0 0 242 284 191 846.0 0 191 285 214 846.0 0 214 286 229 846.0 0 229 287 274 846.0 0 274 288 245 846.0 0 245 289 144 846.0 0 144 290 150 846.0 0 150 291 234 846.0 0 234 292 157 846.0 0 157 293 185 846.0 0 185 294 162 846.0 0 162 295 205 846.0 0 205 296 251 846.0 0 251 297 227 846.0 0 227 298 191 846.0 0 191 299 185 846.0 0 185 300 128 846.0 0 128 301 18 846.0 0 18 Finished in 24.27 s (40 us/read; 1.50 M reads/minute). === Summary === Total reads processed: 605,392 Reads with adapters: 519,746 (85.9%) Reads that were too short: 55 (0.0%) Reads written (passing filters): 519,691 (85.8%) Total basepairs processed: 169,167,380 bp Total written (filtered): 143,954,577 bp (85.1%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 519746 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 9 0.0 2 0 0 0 9 15 102 0.0 3 0 0 98 4 16 2928 0.0 3 0 2862 60 6 17 514981 0.0 3 509271 5618 84 8 18 1177 0.0 3 100 1044 18 15 19 348 0.0 3 3 1 320 24 20 97 0.0 3 1 0 2 94 21 2 0.0 3 0 2 23 1 0.0 3 1 24 3 0.0 3 2 0 1 25 2 0.0 3 2 26 1 0.0 3 1 28 1 0.0 3 0 0 0 1 31 2 0.0 3 2 32 1 0.0 3 1 33 2 0.0 3 2 36 3 0.0 3 3 37 1 0.0 3 1 39 1 0.0 3 1 48 6 0.0 3 0 0 0 6 49 2 0.0 3 0 0 0 2 51 1 0.0 3 0 0 0 1 59 1 0.0 3 0 0 0 1 60 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 0 1 71 1 0.0 3 1 76 1 0.0 3 0 0 0 1 79 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 84 2 0.0 3 0 0 0 2 85 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 104 1 0.0 3 0 0 0 1 106 16 0.0 3 0 0 1 15 111 1 0.0 3 0 0 0 1 112 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 131 1 0.0 3 0 0 0 1 135 3 0.0 3 0 0 0 3 142 1 0.0 3 0 0 0 1 147 1 0.0 3 0 0 0 1 150 28 0.0 3 0 0 0 28 173 1 0.0 3 0 0 0 1 181 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 183 2 0.0 3 0 0 0 2 254 1 0.0 3 0 0 0 1 256 1 0.0 3 0 0 0 1 257 1 0.0 3 0 0 0 1 282 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 19.11 s (37 us/read; 1.63 M reads/minute). === Summary === Total reads processed: 519,691 Reads with adapters: 74,293 (14.3%) Reads written (passing filters): 519,691 (100.0%) Total basepairs processed: 143,954,577 bp Total written (filtered): 143,731,535 bp (99.8%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 74293 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 4.6% C: 89.4% G: 5.6% T: 0.4% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 74177 8120.2 0 74177 4 90 2030.0 0 90 5 18 507.5 0 18 7 5 31.7 0 5 8 2 7.9 0 2 10 1 0.5 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.