This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GACGGC -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 106.29 s (33 us/read; 1.80 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 473,805 (14.9%) Reads that were too short: 44,795 (1.4%) Reads written (passing filters): 429,010 (13.5%) Total basepairs processed: 958,672,960 bp Total written (filtered): 93,628,818 bp (9.8%) === Adapter 1 === Sequence: GACGGC; Type: regular 5'; Length: 6; Trimmed: 473805 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1364 777.6 0 1364 7 59425 777.6 0 59425 8 123 777.6 0 123 9 2357 777.6 0 2357 10 27 777.6 0 27 11 27 777.6 0 27 12 17 777.6 0 17 13 21 777.6 0 21 14 30 777.6 0 30 15 21 777.6 0 21 16 35 777.6 0 35 17 26 777.6 0 26 18 14 777.6 0 14 19 49 777.6 0 49 20 50 777.6 0 50 21 31 777.6 0 31 22 42 777.6 0 42 23 34 777.6 0 34 24 27 777.6 0 27 25 25 777.6 0 25 26 24 777.6 0 24 27 25 777.6 0 25 28 27 777.6 0 27 29 21 777.6 0 21 30 20 777.6 0 20 31 23 777.6 0 23 32 29 777.6 0 29 33 32 777.6 0 32 34 27 777.6 0 27 35 40 777.6 0 40 36 51 777.6 0 51 37 20 777.6 0 20 38 40 777.6 0 40 39 22 777.6 0 22 40 39 777.6 0 39 41 62 777.6 0 62 42 64 777.6 0 64 43 65 777.6 0 65 44 59 777.6 0 59 45 65 777.6 0 65 46 48 777.6 0 48 47 84 777.6 0 84 48 44 777.6 0 44 49 81 777.6 0 81 50 297 777.6 0 297 51 277 777.6 0 277 52 354 777.6 0 354 53 61 777.6 0 61 54 39 777.6 0 39 55 55 777.6 0 55 56 41 777.6 0 41 57 36 777.6 0 36 58 75 777.6 0 75 59 227 777.6 0 227 60 697 777.6 0 697 61 643 777.6 0 643 62 395 777.6 0 395 63 101 777.6 0 101 64 70 777.6 0 70 65 265 777.6 0 265 66 218 777.6 0 218 67 346 777.6 0 346 68 574 777.6 0 574 69 931 777.6 0 931 70 1049 777.6 0 1049 71 2003 777.6 0 2003 72 4088 777.6 0 4088 73 945 777.6 0 945 74 913 777.6 0 913 75 2098 777.6 0 2098 76 1158 777.6 0 1158 77 873 777.6 0 873 78 1905 777.6 0 1905 79 1295 777.6 0 1295 80 2808 777.6 0 2808 81 1327 777.6 0 1327 82 2491 777.6 0 2491 83 2857 777.6 0 2857 84 4111 777.6 0 4111 85 72611 777.6 0 72611 86 90907 777.6 0 90907 87 117564 777.6 0 117564 88 475 777.6 0 475 89 25 777.6 0 25 90 21 777.6 0 21 91 14 777.6 0 14 92 30 777.6 0 30 93 34 777.6 0 34 94 16 777.6 0 16 95 16 777.6 0 16 96 13 777.6 0 13 97 8 777.6 0 8 98 10 777.6 0 10 99 18 777.6 0 18 100 6 777.6 0 6 101 18 777.6 0 18 102 8 777.6 0 8 103 8 777.6 0 8 104 11 777.6 0 11 105 10 777.6 0 10 106 12 777.6 0 12 107 9 777.6 0 9 108 6 777.6 0 6 109 8 777.6 0 8 110 5 777.6 0 5 111 10 777.6 0 10 112 16 777.6 0 16 113 9 777.6 0 9 114 11 777.6 0 11 115 7 777.6 0 7 116 15 777.6 0 15 117 13 777.6 0 13 118 11 777.6 0 11 119 24 777.6 0 24 120 13 777.6 0 13 121 18 777.6 0 18 122 122 777.6 0 122 123 27 777.6 0 27 124 31 777.6 0 31 125 21 777.6 0 21 126 14 777.6 0 14 127 13 777.6 0 13 128 15 777.6 0 15 129 36 777.6 0 36 130 130 777.6 0 130 131 31 777.6 0 31 132 47 777.6 0 47 133 31 777.6 0 31 134 33 777.6 0 33 135 79 777.6 0 79 136 58 777.6 0 58 137 48 777.6 0 48 138 33 777.6 0 33 139 49 777.6 0 49 140 45 777.6 0 45 141 33 777.6 0 33 142 22 777.6 0 22 143 41 777.6 0 41 144 48 777.6 0 48 145 35 777.6 0 35 146 52 777.6 0 52 147 46 777.6 0 46 148 84 777.6 0 84 149 682 777.6 0 682 150 680 777.6 0 680 151 387 777.6 0 387 152 637 777.6 0 637 153 616 777.6 0 616 154 652 777.6 0 652 155 552 777.6 0 552 156 119 777.6 0 119 157 78 777.6 0 78 158 94 777.6 0 94 159 106 777.6 0 106 160 147 777.6 0 147 161 250 777.6 0 250 162 463 777.6 0 463 163 125 777.6 0 125 164 159 777.6 0 159 165 310 777.6 0 310 166 177 777.6 0 177 167 342 777.6 0 342 168 334 777.6 0 334 169 237 777.6 0 237 170 457 777.6 0 457 171 242 777.6 0 242 172 388 777.6 0 388 173 879 777.6 0 879 174 1082 777.6 0 1082 175 12366 777.6 0 12366 176 8109 777.6 0 8109 177 13891 777.6 0 13891 178 67 777.6 0 67 179 23 777.6 0 23 180 23 777.6 0 23 181 80 777.6 0 80 182 36 777.6 0 36 183 55 777.6 0 55 184 27 777.6 0 27 185 19 777.6 0 19 186 56 777.6 0 56 187 18 777.6 0 18 188 9 777.6 0 9 189 23 777.6 0 23 190 45 777.6 0 45 191 41 777.6 0 41 192 21 777.6 0 21 193 31 777.6 0 31 194 16 777.6 0 16 195 21 777.6 0 21 196 55 777.6 0 55 197 33 777.6 0 33 198 31 777.6 0 31 199 23 777.6 0 23 200 34 777.6 0 34 201 48 777.6 0 48 202 35 777.6 0 35 203 61 777.6 0 61 204 90 777.6 0 90 205 95 777.6 0 95 206 1156 777.6 0 1156 207 55 777.6 0 55 208 89 777.6 0 89 209 97 777.6 0 97 210 220 777.6 0 220 211 504 777.6 0 504 212 698 777.6 0 698 213 18485 777.6 0 18485 214 4237 777.6 0 4237 215 10144 777.6 0 10144 216 63 777.6 0 63 217 56 777.6 0 56 218 38 777.6 0 38 219 20 777.6 0 20 220 29 777.6 0 29 221 23 777.6 0 23 222 30 777.6 0 30 223 48 777.6 0 48 224 26 777.6 0 26 225 22 777.6 0 22 226 29 777.6 0 29 227 24 777.6 0 24 228 49 777.6 0 49 229 35 777.6 0 35 230 58 777.6 0 58 231 322 777.6 0 322 232 211 777.6 0 211 233 423 777.6 0 423 234 99 777.6 0 99 235 86 777.6 0 86 236 19 777.6 0 19 237 28 777.6 0 28 238 33 777.6 0 33 239 19 777.6 0 19 240 24 777.6 0 24 241 54 777.6 0 54 242 55 777.6 0 55 243 103 777.6 0 103 244 56 777.6 0 56 245 30 777.6 0 30 246 23 777.6 0 23 247 13 777.6 0 13 248 23 777.6 0 23 249 49 777.6 0 49 250 111 777.6 0 111 251 211 777.6 0 211 252 203 777.6 0 203 253 937 777.6 0 937 254 540 777.6 0 540 255 664 777.6 0 664 256 376 777.6 0 376 257 118 777.6 0 118 258 392 777.6 0 392 259 67 777.6 0 67 260 17 777.6 0 17 261 21 777.6 0 21 262 14 777.6 0 14 263 29 777.6 0 29 264 11 777.6 0 11 265 18 777.6 0 18 266 20 777.6 0 20 267 10 777.6 0 10 268 12 777.6 0 12 269 10 777.6 0 10 270 31 777.6 0 31 271 30 777.6 0 30 272 19 777.6 0 19 273 10 777.6 0 10 274 10 777.6 0 10 275 12 777.6 0 12 276 31 777.6 0 31 277 38 777.6 0 38 278 342 777.6 0 342 279 53 777.6 0 53 280 18 777.6 0 18 281 19 777.6 0 19 282 55 777.6 0 55 283 54 777.6 0 54 284 24 777.6 0 24 285 89 777.6 0 89 286 45 777.6 0 45 287 50 777.6 0 50 288 19 777.6 0 19 289 30 777.6 0 30 290 34 777.6 0 34 291 62 777.6 0 62 292 61 777.6 0 61 293 74 777.6 0 74 294 45 777.6 0 45 295 44 777.6 0 44 296 94 777.6 0 94 297 405 777.6 0 405 298 644 777.6 0 644 299 341 777.6 0 341 300 32 777.6 0 32 301 13 777.6 0 13 Finished in 22.22 s (52 us/read; 1.16 M reads/minute). === Summary === Total reads processed: 429,010 Reads with adapters: 60,503 (14.1%) Reads that were too short: 135 (0.0%) Reads written (passing filters): 60,368 (14.1%) Total basepairs processed: 93,628,818 bp Total written (filtered): 16,535,222 bp (17.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 60503 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 17 0.0 3 0 0 8 6 3 19 283 0.0 3 0 248 16 11 8 20 59805 0.0 4 58421 1217 114 22 31 21 120 0.0 4 14 99 6 0 1 22 36 0.0 4 25 1 8 0 2 23 43 0.0 4 0 0 0 38 5 26 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 49 47 0.0 4 0 0 0 0 47 56 2 0.0 4 0 0 0 0 2 67 3 0.0 4 0 0 0 1 2 75 2 0.0 4 0 0 0 0 2 76 1 0.0 4 0 0 0 0 1 77 6 0.0 4 0 0 0 0 6 84 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 127 7 0.0 4 0 0 0 0 7 128 1 0.0 4 0 0 0 0 1 135 2 0.0 4 0 0 0 0 2 136 5 0.0 4 0 0 0 1 4 139 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 150 8 0.0 4 0 0 0 0 8 151 2 0.0 4 0 0 0 0 2 153 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 179 2 0.0 4 0 0 0 0 2 180 3 0.0 4 0 0 0 1 2 181 13 0.0 4 0 0 0 1 12 182 11 0.0 4 0 0 0 0 11 183 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 185 1 0.0 4 0 0 0 0 1 186 3 0.0 4 0 0 0 1 2 191 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 205 6 0.0 4 0 0 0 1 5 206 5 0.0 4 0 0 0 0 5 207 3 0.0 4 0 0 0 0 3 209 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 213 3 0.0 4 0 0 0 0 3 214 5 0.0 4 0 0 0 0 5 215 9 0.0 4 0 0 0 0 9 216 6 0.0 4 0 0 0 0 6 217 1 0.0 4 0 0 0 0 1 218 5 0.0 4 0 0 0 0 5 224 5 0.0 4 0 0 0 0 5 225 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 1 234 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 254 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 2.59 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 60,368 Reads with adapters: 2,893 (4.8%) Reads written (passing filters): 60,368 (100.0%) Total basepairs processed: 16,535,222 bp Total written (filtered): 16,471,571 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2893 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.4% C: 3.2% G: 88.1% T: 1.2% 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 31 943.2 0 31 4 11 235.8 0 11 6 1 14.7 0 1 9 4 0.2 0 0 4 10 9 0.1 1 0 9 11 2571 0.0 1 7 2564 12 121 0.0 1 2 119 13 2 0.0 1 0 2 14 1 0.0 1 0 1 15 3 0.0 1 0 3 152 8 0.0 1 6 2 153 1 0.0 1 1 191 1 0.0 1 0 1 192 1 0.0 1 1 210 31 0.0 1 27 4 211 1 0.0 1 1 261 90 0.0 1 78 12 262 3 0.0 1 3 269 1 0.0 1 1 273 2 0.0 1 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.