This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 68.35 s (25 us/read; 2.38 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 281,195 (10.4%) Reads that were too short: 10,808 (0.4%) Reads written (passing filters): 270,387 (10.0%) Total basepairs processed: 815,312,680 bp Total written (filtered): 65,796,086 bp (8.1%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 281195 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 159 661.3 0 159 7 1142 661.3 0 1142 8 181 661.3 0 181 9 249 661.3 0 249 10 323 661.3 0 323 11 194 661.3 0 194 12 181 661.3 0 181 13 385 661.3 0 385 14 552 661.3 0 552 15 532 661.3 0 532 16 346 661.3 0 346 17 471 661.3 0 471 18 518 661.3 0 518 19 668 661.3 0 668 20 9355 661.3 0 9355 21 21018 661.3 0 21018 22 34556 661.3 0 34556 23 246 661.3 0 246 24 138 661.3 0 138 25 129 661.3 0 129 26 75 661.3 0 75 27 85 661.3 0 85 28 71 661.3 0 71 29 110 661.3 0 110 30 85 661.3 0 85 31 161 661.3 0 161 32 274 661.3 0 274 33 348 661.3 0 348 34 331 661.3 0 331 35 722 661.3 0 722 36 1658 661.3 0 1658 37 406 661.3 0 406 38 540 661.3 0 540 39 1083 661.3 0 1083 40 499 661.3 0 499 41 489 661.3 0 489 42 706 661.3 0 706 43 775 661.3 0 775 44 1214 661.3 0 1214 45 870 661.3 0 870 46 1151 661.3 0 1151 47 1315 661.3 0 1315 48 1957 661.3 0 1957 49 30476 661.3 0 30476 50 47721 661.3 0 47721 51 71526 661.3 0 71526 52 462 661.3 0 462 53 49 661.3 0 49 54 48 661.3 0 48 55 36 661.3 0 36 56 80 661.3 0 80 57 45 661.3 0 45 58 62 661.3 0 62 59 36 661.3 0 36 60 47 661.3 0 47 61 31 661.3 0 31 62 58 661.3 0 58 63 175 661.3 0 175 64 260 661.3 0 260 65 602 661.3 0 602 66 29 661.3 0 29 67 48 661.3 0 48 68 42 661.3 0 42 69 31 661.3 0 31 70 25 661.3 0 25 71 27 661.3 0 27 72 34 661.3 0 34 73 33 661.3 0 33 74 26 661.3 0 26 75 26 661.3 0 26 76 32 661.3 0 32 77 30 661.3 0 30 78 37 661.3 0 37 79 28 661.3 0 28 80 101 661.3 0 101 81 26 661.3 0 26 82 32 661.3 0 32 83 35 661.3 0 35 84 64 661.3 0 64 85 50 661.3 0 50 86 55 661.3 0 55 87 45 661.3 0 45 88 50 661.3 0 50 89 27 661.3 0 27 90 47 661.3 0 47 91 32 661.3 0 32 92 48 661.3 0 48 93 41 661.3 0 41 94 39 661.3 0 39 95 32 661.3 0 32 96 34 661.3 0 34 97 32 661.3 0 32 98 39 661.3 0 39 99 22 661.3 0 22 100 13 661.3 0 13 101 29 661.3 0 29 102 37 661.3 0 37 103 20 661.3 0 20 104 32 661.3 0 32 105 22 661.3 0 22 106 37 661.3 0 37 107 34 661.3 0 34 108 27 661.3 0 27 109 26 661.3 0 26 110 34 661.3 0 34 111 29 661.3 0 29 112 39 661.3 0 39 113 29 661.3 0 29 114 26 661.3 0 26 115 29 661.3 0 29 116 36 661.3 0 36 117 115 661.3 0 115 118 89 661.3 0 89 119 117 661.3 0 117 120 100 661.3 0 100 121 34 661.3 0 34 122 26 661.3 0 26 123 39 661.3 0 39 124 73 661.3 0 73 125 47 661.3 0 47 126 36 661.3 0 36 127 32 661.3 0 32 128 25 661.3 0 25 129 32 661.3 0 32 130 35 661.3 0 35 131 78 661.3 0 78 132 32 661.3 0 32 133 29 661.3 0 29 134 34 661.3 0 34 135 33 661.3 0 33 136 30 661.3 0 30 137 32 661.3 0 32 138 26 661.3 0 26 139 34 661.3 0 34 140 42 661.3 0 42 141 46 661.3 0 46 142 34 661.3 0 34 143 23 661.3 0 23 144 53 661.3 0 53 145 42 661.3 0 42 146 58 661.3 0 58 147 34 661.3 0 34 148 40 661.3 0 40 149 30 661.3 0 30 150 32 661.3 0 32 151 21 661.3 0 21 152 37 661.3 0 37 153 51 661.3 0 51 154 27 661.3 0 27 155 34 661.3 0 34 156 37 661.3 0 37 157 73 661.3 0 73 158 44 661.3 0 44 159 64 661.3 0 64 160 42 661.3 0 42 161 45 661.3 0 45 162 36 661.3 0 36 163 29 661.3 0 29 164 41 661.3 0 41 165 45 661.3 0 45 166 39 661.3 0 39 167 51 661.3 0 51 168 48 661.3 0 48 169 45 661.3 0 45 170 93 661.3 0 93 171 47 661.3 0 47 172 33 661.3 0 33 173 64 661.3 0 64 174 49 661.3 0 49 175 41 661.3 0 41 176 70 661.3 0 70 177 91 661.3 0 91 178 95 661.3 0 95 179 173 661.3 0 173 180 262 661.3 0 262 181 592 661.3 0 592 182 8568 661.3 0 8568 183 644 661.3 0 644 184 1496 661.3 0 1496 185 130 661.3 0 130 186 74 661.3 0 74 187 73 661.3 0 73 188 130 661.3 0 130 189 120 661.3 0 120 190 130 661.3 0 130 191 129 661.3 0 129 192 151 661.3 0 151 193 509 661.3 0 509 194 882 661.3 0 882 195 2627 661.3 0 2627 196 2545 661.3 0 2545 197 8147 661.3 0 8147 198 134 661.3 0 134 199 57 661.3 0 57 200 43 661.3 0 43 201 37 661.3 0 37 202 27 661.3 0 27 203 31 661.3 0 31 204 37 661.3 0 37 205 30 661.3 0 30 206 43 661.3 0 43 207 33 661.3 0 33 208 37 661.3 0 37 209 56 661.3 0 56 210 27 661.3 0 27 211 42 661.3 0 42 212 28 661.3 0 28 213 80 661.3 0 80 214 101 661.3 0 101 215 220 661.3 0 220 216 144 661.3 0 144 217 71 661.3 0 71 218 94 661.3 0 94 219 98 661.3 0 98 220 144 661.3 0 144 221 161 661.3 0 161 222 194 661.3 0 194 223 61 661.3 0 61 224 36 661.3 0 36 225 44 661.3 0 44 226 59 661.3 0 59 227 49 661.3 0 49 228 48 661.3 0 48 229 44 661.3 0 44 230 41 661.3 0 41 231 54 661.3 0 54 232 46 661.3 0 46 233 48 661.3 0 48 234 74 661.3 0 74 235 63 661.3 0 63 236 74 661.3 0 74 237 60 661.3 0 60 238 66 661.3 0 66 239 95 661.3 0 95 240 251 661.3 0 251 241 356 661.3 0 356 242 109 661.3 0 109 243 19 661.3 0 19 244 34 661.3 0 34 245 51 661.3 0 51 246 100 661.3 0 100 247 79 661.3 0 79 248 69 661.3 0 69 249 52 661.3 0 52 250 123 661.3 0 123 251 133 661.3 0 133 252 229 661.3 0 229 253 114 661.3 0 114 254 58 661.3 0 58 255 59 661.3 0 59 256 84 661.3 0 84 257 99 661.3 0 99 258 96 661.3 0 96 259 77 661.3 0 77 260 88 661.3 0 88 261 98 661.3 0 98 262 84 661.3 0 84 263 159 661.3 0 159 264 370 661.3 0 370 265 401 661.3 0 401 266 211 661.3 0 211 267 203 661.3 0 203 268 89 661.3 0 89 269 57 661.3 0 57 270 81 661.3 0 81 271 28 661.3 0 28 272 63 661.3 0 63 273 44 661.3 0 44 274 48 661.3 0 48 275 57 661.3 0 57 276 38 661.3 0 38 277 36 661.3 0 36 278 56 661.3 0 56 279 55 661.3 0 55 280 50 661.3 0 50 281 43 661.3 0 43 282 56 661.3 0 56 283 73 661.3 0 73 284 92 661.3 0 92 285 184 661.3 0 184 286 95 661.3 0 95 287 98 661.3 0 98 288 306 661.3 0 306 289 790 661.3 0 790 290 1081 661.3 0 1081 291 131 661.3 0 131 292 72 661.3 0 72 293 189 661.3 0 189 294 99 661.3 0 99 295 89 661.3 0 89 296 36 661.3 0 36 297 23 661.3 0 23 298 31 661.3 0 31 299 45 661.3 0 45 300 66 661.3 0 66 301 41 661.3 0 41 Finished in 12.42 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 270,387 Reads with adapters: 4,053 (1.5%) Reads that were too short: 129 (0.0%) Reads written (passing filters): 3,924 (1.5%) Total basepairs processed: 65,796,086 bp Total written (filtered): 655,113 bp (1.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4053 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 19 1 0.0 3 0 1 20 25 0.0 4 23 1 1 22 5 0.0 4 2 0 2 0 1 23 1 0.0 4 1 49 2 0.0 4 0 0 0 0 2 52 2 0.0 4 0 0 0 0 2 72 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 83 4 0.0 4 0 0 0 0 4 84 1 0.0 4 0 0 0 0 1 85 3234 0.0 4 0 0 0 0 3234 88 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 97 2 0.0 4 1 0 0 0 1 98 4 0.0 4 0 0 0 0 4 104 1 0.0 4 0 0 0 0 1 111 2 0.0 4 0 0 0 0 2 112 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 114 619 0.0 4 0 0 0 0 619 116 2 0.0 4 0 0 0 0 2 118 1 0.0 4 0 0 0 0 1 122 4 0.0 4 0 0 0 0 4 139 1 0.0 4 0 1 140 4 0.0 4 0 0 0 0 4 148 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 160 4 0.0 4 0 0 0 0 4 166 1 0.0 4 0 0 0 0 1 170 2 0.0 4 0 0 0 0 2 171 1 0.0 4 0 0 0 0 1 174 2 0.0 4 0 0 0 0 2 177 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 183 3 0.0 4 0 0 0 0 3 185 1 0.0 4 0 0 0 0 1 186 51 0.0 4 0 0 0 2 49 187 4 0.0 4 0 0 0 0 4 188 2 0.0 4 0 0 0 0 2 192 2 0.0 4 0 0 0 0 2 193 2 0.0 4 0 0 0 0 2 196 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 209 2 0.0 4 0 0 0 0 2 214 2 0.0 4 0 0 0 0 2 215 4 0.0 4 0 0 0 0 4 216 2 0.0 4 0 0 0 0 2 218 1 0.0 4 0 0 0 0 1 219 2 0.0 4 0 0 0 1 1 221 3 0.0 4 0 0 0 0 3 222 1 0.0 4 0 0 0 0 1 223 2 0.0 4 0 0 0 0 2 225 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 240 4 0.0 4 0 0 0 0 4 243 3 0.0 4 0 0 0 0 3 245 1 0.0 4 0 0 0 0 1 246 3 0.0 4 0 0 0 0 3 247 5 0.0 4 0 0 0 0 5 248 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 0 0 0 1 250 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 253 1 0.0 4 0 0 0 0 1 270 1 0.0 4 0 0 0 0 1 272 1 0.0 4 0 0 0 0 1 279 1 0.0 4 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 0.11 s (28 us/read; 2.14 M reads/minute). === Summary === Total reads processed: 3,924 Reads with adapters: 20 (0.5%) Reads written (passing filters): 3,924 (100.0%) Total basepairs processed: 655,113 bp Total written (filtered): 655,034 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 20 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 95.0% C: 5.0% G: 0.0% T: 0.0% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 61.3 0 1 4 19 15.3 0 19 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.