This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCTGC -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 168.37 s (32 us/read; 1.90 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 208,819 (3.9%) Reads that were too short: 10,121 (0.2%) Reads written (passing filters): 198,698 (3.7%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 38,998,547 bp (2.4%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 208819 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 120 1302.2 0 120 7 871 1302.2 0 871 8 267 1302.2 0 267 9 6484 1302.2 0 6484 10 21 1302.2 0 21 11 14 1302.2 0 14 12 14 1302.2 0 14 13 10 1302.2 0 10 14 8 1302.2 0 8 15 13 1302.2 0 13 16 15 1302.2 0 15 17 8 1302.2 0 8 18 9 1302.2 0 9 19 9 1302.2 0 9 20 8 1302.2 0 8 21 17 1302.2 0 17 22 17 1302.2 0 17 23 5 1302.2 0 5 24 10 1302.2 0 10 25 22 1302.2 0 22 26 11 1302.2 0 11 27 8 1302.2 0 8 28 10 1302.2 0 10 29 7 1302.2 0 7 30 7 1302.2 0 7 31 18 1302.2 0 18 32 13 1302.2 0 13 33 16 1302.2 0 16 34 20 1302.2 0 20 35 9 1302.2 0 9 36 14 1302.2 0 14 37 46 1302.2 0 46 38 23 1302.2 0 23 39 13 1302.2 0 13 40 47 1302.2 0 47 41 10 1302.2 0 10 42 9 1302.2 0 9 43 8 1302.2 0 8 44 15 1302.2 0 15 45 10 1302.2 0 10 46 42 1302.2 0 42 47 10 1302.2 0 10 48 33 1302.2 0 33 49 38 1302.2 0 38 50 13 1302.2 0 13 51 16 1302.2 0 16 52 17 1302.2 0 17 53 9 1302.2 0 9 54 27 1302.2 0 27 55 61 1302.2 0 61 56 115 1302.2 0 115 57 25 1302.2 0 25 58 812 1302.2 0 812 59 39018 1302.2 0 39018 60 2396 1302.2 0 2396 61 243 1302.2 0 243 62 11 1302.2 0 11 63 15 1302.2 0 15 64 32 1302.2 0 32 65 10 1302.2 0 10 66 13 1302.2 0 13 67 15 1302.2 0 15 68 5 1302.2 0 5 69 9 1302.2 0 9 70 16 1302.2 0 16 71 11 1302.2 0 11 72 9 1302.2 0 9 73 13 1302.2 0 13 74 5 1302.2 0 5 75 19 1302.2 0 19 76 34 1302.2 0 34 77 137 1302.2 0 137 78 35 1302.2 0 35 79 26 1302.2 0 26 80 32 1302.2 0 32 81 24 1302.2 0 24 82 24 1302.2 0 24 83 121 1302.2 0 121 84 69 1302.2 0 69 85 137 1302.2 0 137 86 41 1302.2 0 41 87 169 1302.2 0 169 88 26 1302.2 0 26 89 17 1302.2 0 17 90 23 1302.2 0 23 91 27 1302.2 0 27 92 78 1302.2 0 78 93 86 1302.2 0 86 94 265 1302.2 0 265 95 49 1302.2 0 49 96 168 1302.2 0 168 97 608 1302.2 0 608 98 95 1302.2 0 95 99 168 1302.2 0 168 100 108 1302.2 0 108 101 75 1302.2 0 75 102 211 1302.2 0 211 103 97 1302.2 0 97 104 139 1302.2 0 139 105 112 1302.2 0 112 106 148 1302.2 0 148 107 302 1302.2 0 302 108 508 1302.2 0 508 109 442 1302.2 0 442 110 785 1302.2 0 785 111 812 1302.2 0 812 112 1237 1302.2 0 1237 113 3765 1302.2 0 3765 114 45689 1302.2 0 45689 115 6721 1302.2 0 6721 116 47183 1302.2 0 47183 117 264 1302.2 0 264 118 71 1302.2 0 71 119 46 1302.2 0 46 120 34 1302.2 0 34 121 38 1302.2 0 38 122 54 1302.2 0 54 123 43 1302.2 0 43 124 35 1302.2 0 35 125 34 1302.2 0 34 126 77 1302.2 0 77 127 40 1302.2 0 40 128 573 1302.2 0 573 129 140 1302.2 0 140 130 125 1302.2 0 125 131 75 1302.2 0 75 132 27 1302.2 0 27 133 85 1302.2 0 85 134 44 1302.2 0 44 135 103 1302.2 0 103 136 213 1302.2 0 213 137 180 1302.2 0 180 138 193 1302.2 0 193 139 84 1302.2 0 84 140 211 1302.2 0 211 141 527 1302.2 0 527 142 499 1302.2 0 499 143 302 1302.2 0 302 144 174 1302.2 0 174 145 294 1302.2 0 294 146 415 1302.2 0 415 147 7298 1302.2 0 7298 148 1042 1302.2 0 1042 149 4874 1302.2 0 4874 150 174 1302.2 0 174 151 244 1302.2 0 244 152 533 1302.2 0 533 153 7150 1302.2 0 7150 154 1280 1302.2 0 1280 155 3939 1302.2 0 3939 156 510 1302.2 0 510 157 640 1302.2 0 640 158 199 1302.2 0 199 159 39 1302.2 0 39 160 62 1302.2 0 62 161 79 1302.2 0 79 162 105 1302.2 0 105 163 89 1302.2 0 89 164 87 1302.2 0 87 165 114 1302.2 0 114 166 75 1302.2 0 75 167 121 1302.2 0 121 168 565 1302.2 0 565 169 313 1302.2 0 313 170 251 1302.2 0 251 171 104 1302.2 0 104 172 33 1302.2 0 33 173 15 1302.2 0 15 174 21 1302.2 0 21 175 50 1302.2 0 50 176 82 1302.2 0 82 177 27 1302.2 0 27 178 39 1302.2 0 39 179 27 1302.2 0 27 180 48 1302.2 0 48 181 143 1302.2 0 143 182 123 1302.2 0 123 183 181 1302.2 0 181 184 102 1302.2 0 102 185 155 1302.2 0 155 186 101 1302.2 0 101 187 100 1302.2 0 100 188 24 1302.2 0 24 189 30 1302.2 0 30 190 20 1302.2 0 20 191 30 1302.2 0 30 192 43 1302.2 0 43 193 37 1302.2 0 37 194 41 1302.2 0 41 195 23 1302.2 0 23 196 22 1302.2 0 22 197 45 1302.2 0 45 198 32 1302.2 0 32 199 25 1302.2 0 25 200 24 1302.2 0 24 201 61 1302.2 0 61 202 471 1302.2 0 471 203 137 1302.2 0 137 204 317 1302.2 0 317 205 86 1302.2 0 86 206 44 1302.2 0 44 207 28 1302.2 0 28 208 15 1302.2 0 15 209 29 1302.2 0 29 210 30 1302.2 0 30 211 45 1302.2 0 45 212 58 1302.2 0 58 213 72 1302.2 0 72 214 61 1302.2 0 61 215 80 1302.2 0 80 216 213 1302.2 0 213 217 149 1302.2 0 149 218 156 1302.2 0 156 219 54 1302.2 0 54 220 27 1302.2 0 27 221 34 1302.2 0 34 222 55 1302.2 0 55 223 40 1302.2 0 40 224 53 1302.2 0 53 225 111 1302.2 0 111 226 244 1302.2 0 244 227 227 1302.2 0 227 228 266 1302.2 0 266 229 106 1302.2 0 106 230 47 1302.2 0 47 231 29 1302.2 0 29 232 24 1302.2 0 24 233 54 1302.2 0 54 234 41 1302.2 0 41 235 124 1302.2 0 124 236 108 1302.2 0 108 237 111 1302.2 0 111 238 63 1302.2 0 63 239 21 1302.2 0 21 240 39 1302.2 0 39 241 26 1302.2 0 26 242 24 1302.2 0 24 243 14 1302.2 0 14 244 49 1302.2 0 49 245 64 1302.2 0 64 246 80 1302.2 0 80 247 28 1302.2 0 28 248 23 1302.2 0 23 249 27 1302.2 0 27 250 17 1302.2 0 17 251 38 1302.2 0 38 252 46 1302.2 0 46 253 101 1302.2 0 101 254 184 1302.2 0 184 255 290 1302.2 0 290 256 132 1302.2 0 132 257 56 1302.2 0 56 258 40 1302.2 0 40 259 26 1302.2 0 26 260 18 1302.2 0 18 261 26 1302.2 0 26 262 51 1302.2 0 51 263 51 1302.2 0 51 264 100 1302.2 0 100 265 117 1302.2 0 117 266 101 1302.2 0 101 267 74 1302.2 0 74 268 25 1302.2 0 25 269 35 1302.2 0 35 270 61 1302.2 0 61 271 69 1302.2 0 69 272 95 1302.2 0 95 273 142 1302.2 0 142 274 241 1302.2 0 241 275 442 1302.2 0 442 276 131 1302.2 0 131 277 77 1302.2 0 77 278 88 1302.2 0 88 279 122 1302.2 0 122 280 156 1302.2 0 156 281 264 1302.2 0 264 282 278 1302.2 0 278 283 293 1302.2 0 293 284 86 1302.2 0 86 285 158 1302.2 0 158 286 72 1302.2 0 72 287 65 1302.2 0 65 288 39 1302.2 0 39 289 91 1302.2 0 91 290 287 1302.2 0 287 291 330 1302.2 0 330 292 358 1302.2 0 358 293 158 1302.2 0 158 294 85 1302.2 0 85 295 60 1302.2 0 60 296 21 1302.2 0 21 297 18 1302.2 0 18 298 31 1302.2 0 31 299 26 1302.2 0 26 300 21 1302.2 0 21 301 24 1302.2 0 24 Finished in 9.45 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 198,698 Reads with adapters: 6,724 (3.4%) Reads that were too short: 17 (0.0%) Reads written (passing filters): 6,707 (3.4%) Total basepairs processed: 38,998,547 bp Total written (filtered): 1,820,713 bp (4.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6724 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 1 0.0 3 0 0 0 0 1 17 4 0.0 3 0 0 0 0 4 18 10 0.0 3 0 0 9 0 1 19 104 0.0 3 0 86 2 2 14 20 6467 0.0 4 6338 96 7 10 16 21 51 0.0 4 13 11 0 22 5 22 32 0.0 4 0 0 2 2 28 23 3 0.0 4 0 0 0 1 2 24 1 0.0 4 0 0 0 0 1 29 1 0.0 4 0 0 0 0 1 31 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 43 2 0.0 4 0 0 0 0 2 67 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 77 5 0.0 4 0 0 0 0 5 80 2 0.0 4 0 0 0 0 2 92 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 102 5 0.0 4 0 0 0 0 5 103 3 0.0 4 0 0 0 0 3 107 3 0.0 4 0 0 0 2 1 119 1 0.0 4 1 121 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 137 2 0.0 4 0 0 0 0 2 158 3 0.0 4 0 0 0 0 3 160 1 0.0 4 0 0 0 0 1 164 2 0.0 4 0 0 0 0 2 175 1 0.0 4 0 0 1 177 1 0.0 4 0 0 0 0 1 194 2 0.0 4 0 0 0 0 2 195 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 213 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 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 0.26 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 6,707 Reads with adapters: 1,313 (19.6%) Reads written (passing filters): 6,707 (100.0%) Total basepairs processed: 1,820,713 bp Total written (filtered): 1,488,384 bp (81.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1313 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 0.2% G: 5.0% T: 93.8% none/other: 0.0% WARNING: The adapter is preceded by "T" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "T" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 104.8 0 1 4 1 26.2 0 1 9 5 0.0 0 0 5 10 43 0.0 1 3 40 11 19 0.0 1 0 19 83 3 0.0 1 3 257 8 0.0 1 7 1 265 1 0.0 1 1 266 1 0.0 1 1 267 1141 0.0 1 1097 44 268 65 0.0 1 62 3 269 16 0.0 1 14 2 270 8 0.0 1 8 271 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.