This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -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 57.33 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 199,459 (9.1%) Reads that were too short: 118,120 (5.4%) Reads written (passing filters): 81,339 (3.7%) Total basepairs processed: 659,880,795 bp Total written (filtered): 20,245,390 bp (3.1%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 199459 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1136 535.2 0 1136 7 21954 535.2 0 21954 8 16920 535.2 0 16920 9 56 535.2 0 56 10 112 535.2 0 112 11 26 535.2 0 26 12 30 535.2 0 30 13 32 535.2 0 32 14 27 535.2 0 27 15 22 535.2 0 22 16 26 535.2 0 26 17 51 535.2 0 51 18 22 535.2 0 22 19 45 535.2 0 45 20 62 535.2 0 62 21 99 535.2 0 99 22 19 535.2 0 19 23 16 535.2 0 16 24 33 535.2 0 33 25 34 535.2 0 34 26 22 535.2 0 22 27 13 535.2 0 13 28 33 535.2 0 33 29 69 535.2 0 69 30 80 535.2 0 80 31 33 535.2 0 33 32 16 535.2 0 16 33 37 535.2 0 37 34 19 535.2 0 19 35 28 535.2 0 28 36 23 535.2 0 23 37 15 535.2 0 15 38 29 535.2 0 29 39 48 535.2 0 48 40 47 535.2 0 47 41 20 535.2 0 20 42 22 535.2 0 22 43 20 535.2 0 20 44 32 535.2 0 32 45 28 535.2 0 28 46 27 535.2 0 27 47 54 535.2 0 54 48 60 535.2 0 60 49 43 535.2 0 43 50 56 535.2 0 56 51 83 535.2 0 83 52 95 535.2 0 95 53 29 535.2 0 29 54 95 535.2 0 95 55 84 535.2 0 84 56 97 535.2 0 97 57 39 535.2 0 39 58 51 535.2 0 51 59 61 535.2 0 61 60 91 535.2 0 91 61 114 535.2 0 114 62 226 535.2 0 226 63 80 535.2 0 80 64 141 535.2 0 141 65 193 535.2 0 193 66 98 535.2 0 98 67 60 535.2 0 60 68 166 535.2 0 166 69 192 535.2 0 192 70 199 535.2 0 199 71 165 535.2 0 165 72 225 535.2 0 225 73 368 535.2 0 368 74 517 535.2 0 517 75 7081 535.2 0 7081 76 10513 535.2 0 10513 77 8426 535.2 0 8426 78 98 535.2 0 98 79 81 535.2 0 81 80 48 535.2 0 48 81 49 535.2 0 49 82 26 535.2 0 26 83 22 535.2 0 22 84 31 535.2 0 31 85 37 535.2 0 37 86 21 535.2 0 21 87 20 535.2 0 20 88 40 535.2 0 40 89 33 535.2 0 33 90 44 535.2 0 44 91 53 535.2 0 53 92 42 535.2 0 42 93 21 535.2 0 21 94 27 535.2 0 27 95 57 535.2 0 57 96 34 535.2 0 34 97 30 535.2 0 30 98 44 535.2 0 44 99 30 535.2 0 30 100 22 535.2 0 22 101 29 535.2 0 29 102 30 535.2 0 30 103 25 535.2 0 25 104 34 535.2 0 34 105 33 535.2 0 33 106 25 535.2 0 25 107 25 535.2 0 25 108 24 535.2 0 24 109 26 535.2 0 26 110 33 535.2 0 33 111 15 535.2 0 15 112 14 535.2 0 14 113 36 535.2 0 36 114 34 535.2 0 34 115 34 535.2 0 34 116 32 535.2 0 32 117 49 535.2 0 49 118 24 535.2 0 24 119 38 535.2 0 38 120 30 535.2 0 30 121 58 535.2 0 58 122 36 535.2 0 36 123 26 535.2 0 26 124 31 535.2 0 31 125 39 535.2 0 39 126 90 535.2 0 90 127 122 535.2 0 122 128 76 535.2 0 76 129 52 535.2 0 52 130 57 535.2 0 57 131 63 535.2 0 63 132 65 535.2 0 65 133 45 535.2 0 45 134 47 535.2 0 47 135 70 535.2 0 70 136 85 535.2 0 85 137 134 535.2 0 134 138 31 535.2 0 31 139 35 535.2 0 35 140 29 535.2 0 29 141 49 535.2 0 49 142 76 535.2 0 76 143 57 535.2 0 57 144 50 535.2 0 50 145 30 535.2 0 30 146 17 535.2 0 17 147 19 535.2 0 19 148 36 535.2 0 36 149 29 535.2 0 29 150 42 535.2 0 42 151 28 535.2 0 28 152 21 535.2 0 21 153 27 535.2 0 27 154 31 535.2 0 31 155 40 535.2 0 40 156 76 535.2 0 76 157 44 535.2 0 44 158 48 535.2 0 48 159 32 535.2 0 32 160 32 535.2 0 32 161 88 535.2 0 88 162 114 535.2 0 114 163 189 535.2 0 189 164 60 535.2 0 60 165 57 535.2 0 57 166 122 535.2 0 122 167 214 535.2 0 214 168 269 535.2 0 269 169 95 535.2 0 95 170 48 535.2 0 48 171 44 535.2 0 44 172 28 535.2 0 28 173 38 535.2 0 38 174 26 535.2 0 26 175 39 535.2 0 39 176 39 535.2 0 39 177 46 535.2 0 46 178 42 535.2 0 42 179 68 535.2 0 68 180 83 535.2 0 83 181 79 535.2 0 79 182 107 535.2 0 107 183 77 535.2 0 77 184 82 535.2 0 82 185 55 535.2 0 55 186 191 535.2 0 191 187 254 535.2 0 254 188 312 535.2 0 312 189 146 535.2 0 146 190 98 535.2 0 98 191 80 535.2 0 80 192 114 535.2 0 114 193 357 535.2 0 357 194 489 535.2 0 489 195 520 535.2 0 520 196 223 535.2 0 223 197 407 535.2 0 407 198 637 535.2 0 637 199 576 535.2 0 576 200 154 535.2 0 154 201 112 535.2 0 112 202 70 535.2 0 70 203 221 535.2 0 221 204 208 535.2 0 208 205 337 535.2 0 337 206 85 535.2 0 85 207 55 535.2 0 55 208 57 535.2 0 57 209 85 535.2 0 85 210 98 535.2 0 98 211 140 535.2 0 140 212 124 535.2 0 124 213 193 535.2 0 193 214 382 535.2 0 382 215 372 535.2 0 372 216 161 535.2 0 161 217 350 535.2 0 350 218 603 535.2 0 603 219 569 535.2 0 569 220 193 535.2 0 193 221 124 535.2 0 124 222 112 535.2 0 112 223 381 535.2 0 381 224 348 535.2 0 348 225 390 535.2 0 390 226 137 535.2 0 137 227 158 535.2 0 158 228 179 535.2 0 179 229 161 535.2 0 161 230 125 535.2 0 125 231 149 535.2 0 149 232 196 535.2 0 196 233 281 535.2 0 281 234 475 535.2 0 475 235 659 535.2 0 659 236 788 535.2 0 788 237 1090 535.2 0 1090 238 12033 535.2 0 12033 239 6383 535.2 0 6383 240 12205 535.2 0 12205 241 362 535.2 0 362 242 312 535.2 0 312 243 393 535.2 0 393 244 501 535.2 0 501 245 603 535.2 0 603 246 653 535.2 0 653 247 949 535.2 0 949 248 10803 535.2 0 10803 249 24863 535.2 0 24863 250 20446 535.2 0 20446 251 4892 535.2 0 4892 252 195 535.2 0 195 253 189 535.2 0 189 254 120 535.2 0 120 255 159 535.2 0 159 256 160 535.2 0 160 257 128 535.2 0 128 258 78 535.2 0 78 259 62 535.2 0 62 260 105 535.2 0 105 261 108 535.2 0 108 262 150 535.2 0 150 263 203 535.2 0 203 264 65 535.2 0 65 265 87 535.2 0 87 266 85 535.2 0 85 267 61 535.2 0 61 268 85 535.2 0 85 269 102 535.2 0 102 270 112 535.2 0 112 271 135 535.2 0 135 272 119 535.2 0 119 273 105 535.2 0 105 274 84 535.2 0 84 275 84 535.2 0 84 276 100 535.2 0 100 277 96 535.2 0 96 278 105 535.2 0 105 279 198 535.2 0 198 280 329 535.2 0 329 281 273 535.2 0 273 282 539 535.2 0 539 283 1069 535.2 0 1069 284 1492 535.2 0 1492 285 693 535.2 0 693 286 242 535.2 0 242 287 316 535.2 0 316 288 286 535.2 0 286 289 139 535.2 0 139 290 106 535.2 0 106 291 189 535.2 0 189 292 222 535.2 0 222 293 187 535.2 0 187 294 243 535.2 0 243 295 421 535.2 0 421 296 535 535.2 0 535 297 662 535.2 0 662 298 355 535.2 0 355 299 396 535.2 0 396 300 346 535.2 0 346 301 346 535.2 0 346 Finished in 4.11 s (51 us/read; 1.19 M reads/minute). === Summary === Total reads processed: 81,339 Reads with adapters: 18,875 (23.2%) Reads that were too short: 67 (0.1%) Reads written (passing filters): 18,808 (23.1%) Total basepairs processed: 20,245,390 bp Total written (filtered): 5,120,443 bp (25.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 18875 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 2 0.0 3 0 0 0 2 18 13 0.0 3 0 0 7 5 1 19 316 0.0 3 0 242 28 30 16 20 17716 0.0 4 15940 1337 311 104 24 21 65 0.0 4 20 35 5 5 22 456 0.0 4 407 33 13 2 1 23 85 0.0 4 1 0 0 60 24 24 7 0.0 4 1 0 0 1 5 25 4 0.0 4 0 0 0 2 2 27 1 0.0 4 0 0 1 52 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 59 37 0.0 4 0 0 0 0 37 60 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 1 72 2 0.0 4 0 0 0 0 2 76 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 82 1 0.0 4 1 83 1 0.0 4 0 0 0 0 1 84 2 0.0 4 0 0 0 0 2 85 3 0.0 4 0 0 0 0 3 86 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 88 0.0 4 0 0 0 0 88 135 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 1 144 1 0.0 4 0 0 0 0 1 146 2 0.0 4 0 0 0 0 2 159 1 0.0 4 0 0 0 0 1 160 3 0.0 4 0 0 0 0 3 161 2 0.0 4 0 0 0 1 1 164 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 167 2 0.0 4 0 0 0 0 2 168 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 192 1 0.0 4 0 0 0 0 1 194 2 0.0 4 0 0 0 0 2 202 1 0.0 4 0 0 0 0 1 208 2 0.0 4 0 0 0 0 2 213 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 228 12 0.0 4 0 0 0 0 12 229 5 0.0 4 0 0 0 2 3 230 2 0.0 4 0 0 0 0 2 231 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 288 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 0.69 s (37 us/read; 1.64 M reads/minute). === Summary === Total reads processed: 18,808 Reads with adapters: 3,592 (19.1%) Reads written (passing filters): 18,808 (100.0%) Total basepairs processed: 5,120,443 bp Total written (filtered): 5,072,404 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3592 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.3% C: 9.3% G: 84.4% T: 2.0% 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 46 293.9 0 46 4 22 73.5 0 22 5 1 18.4 0 1 6 2 4.6 0 2 7 1 1.1 0 1 8 1 0.3 0 1 9 28 0.1 0 2 26 10 488 0.0 1 37 451 11 2887 0.0 1 118 2769 12 52 0.0 1 4 48 13 2 0.0 1 0 2 14 1 0.0 1 0 1 48 1 0.0 1 1 148 1 0.0 1 1 151 13 0.0 1 8 5 152 2 0.0 1 2 173 35 0.0 1 29 6 174 3 0.0 1 2 1 175 2 0.0 1 2 209 3 0.0 1 3 211 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.