This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTGCAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 104.32 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 61,303 (1.9%) Reads that were too short: 21,603 (0.7%) Reads written (passing filters): 39,700 (1.2%) Total basepairs processed: 958,672,960 bp Total written (filtered): 10,493,143 bp (1.1%) === Adapter 1 === Sequence: TTGCAA; Type: regular 5'; Length: 6; Trimmed: 61303 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 713 777.6 0 713 7 28492 777.6 0 28492 8 98 777.6 0 98 9 16 777.6 0 16 10 17 777.6 0 17 11 17 777.6 0 17 12 8 777.6 0 8 13 10 777.6 0 10 14 13 777.6 0 13 15 8 777.6 0 8 16 9 777.6 0 9 17 6 777.6 0 6 18 7 777.6 0 7 19 13 777.6 0 13 20 9 777.6 0 9 21 27 777.6 0 27 22 15 777.6 0 15 23 72 777.6 0 72 24 11 777.6 0 11 25 4 777.6 0 4 26 6 777.6 0 6 27 6 777.6 0 6 28 11 777.6 0 11 29 24 777.6 0 24 30 6 777.6 0 6 31 51 777.6 0 51 32 17 777.6 0 17 33 15 777.6 0 15 34 11 777.6 0 11 35 18 777.6 0 18 36 17 777.6 0 17 37 11 777.6 0 11 38 365 777.6 0 365 39 103 777.6 0 103 40 42 777.6 0 42 41 34 777.6 0 34 42 63 777.6 0 63 43 9 777.6 0 9 44 5 777.6 0 5 45 14 777.6 0 14 46 11 777.6 0 11 47 10 777.6 0 10 48 5 777.6 0 5 49 10 777.6 0 10 50 16 777.6 0 16 51 11 777.6 0 11 52 18 777.6 0 18 53 7 777.6 0 7 54 13 777.6 0 13 55 6 777.6 0 6 56 5 777.6 0 5 57 7 777.6 0 7 58 14 777.6 0 14 59 4 777.6 0 4 60 16 777.6 0 16 61 15 777.6 0 15 62 11 777.6 0 11 63 17 777.6 0 17 64 22 777.6 0 22 65 117 777.6 0 117 66 107 777.6 0 107 67 1413 777.6 0 1413 68 61 777.6 0 61 69 9 777.6 0 9 70 20 777.6 0 20 71 20 777.6 0 20 72 26 777.6 0 26 73 17 777.6 0 17 74 11 777.6 0 11 75 7 777.6 0 7 76 10 777.6 0 10 77 12 777.6 0 12 78 7 777.6 0 7 79 6 777.6 0 6 80 9 777.6 0 9 81 10 777.6 0 10 82 25 777.6 0 25 83 18 777.6 0 18 84 11 777.6 0 11 85 39 777.6 0 39 86 45 777.6 0 45 87 11 777.6 0 11 88 15 777.6 0 15 89 12 777.6 0 12 90 16 777.6 0 16 91 35 777.6 0 35 92 10 777.6 0 10 93 23 777.6 0 23 94 10 777.6 0 10 95 27 777.6 0 27 96 52 777.6 0 52 97 24 777.6 0 24 98 124 777.6 0 124 99 160 777.6 0 160 100 195 777.6 0 195 101 43 777.6 0 43 102 103 777.6 0 103 103 128 777.6 0 128 104 34 777.6 0 34 105 17 777.6 0 17 106 60 777.6 0 60 107 25 777.6 0 25 108 15 777.6 0 15 109 11 777.6 0 11 110 17 777.6 0 17 111 43 777.6 0 43 112 41 777.6 0 41 113 61 777.6 0 61 114 17 777.6 0 17 115 21 777.6 0 21 116 15 777.6 0 15 117 16 777.6 0 16 118 25 777.6 0 25 119 37 777.6 0 37 120 31 777.6 0 31 121 33 777.6 0 33 122 23 777.6 0 23 123 59 777.6 0 59 124 59 777.6 0 59 125 72 777.6 0 72 126 60 777.6 0 60 127 29 777.6 0 29 128 30 777.6 0 30 129 26 777.6 0 26 130 20 777.6 0 20 131 23 777.6 0 23 132 49 777.6 0 49 133 169 777.6 0 169 134 41 777.6 0 41 135 37 777.6 0 37 136 46 777.6 0 46 137 78 777.6 0 78 138 104 777.6 0 104 139 97 777.6 0 97 140 104 777.6 0 104 141 83 777.6 0 83 142 49 777.6 0 49 143 153 777.6 0 153 144 193 777.6 0 193 145 207 777.6 0 207 146 42 777.6 0 42 147 63 777.6 0 63 148 81 777.6 0 81 149 42 777.6 0 42 150 35 777.6 0 35 151 17 777.6 0 17 152 30 777.6 0 30 153 23 777.6 0 23 154 17 777.6 0 17 155 23 777.6 0 23 156 18 777.6 0 18 157 30 777.6 0 30 158 105 777.6 0 105 159 66 777.6 0 66 160 123 777.6 0 123 161 43 777.6 0 43 162 44 777.6 0 44 163 37 777.6 0 37 164 36 777.6 0 36 165 29 777.6 0 29 166 38 777.6 0 38 167 51 777.6 0 51 168 69 777.6 0 69 169 141 777.6 0 141 170 337 777.6 0 337 171 118 777.6 0 118 172 57 777.6 0 57 173 101 777.6 0 101 174 30 777.6 0 30 175 27 777.6 0 27 176 25 777.6 0 25 177 48 777.6 0 48 178 32 777.6 0 32 179 41 777.6 0 41 180 40 777.6 0 40 181 45 777.6 0 45 182 42 777.6 0 42 183 145 777.6 0 145 184 125 777.6 0 125 185 142 777.6 0 142 186 63 777.6 0 63 187 260 777.6 0 260 188 149 777.6 0 149 189 94 777.6 0 94 190 20 777.6 0 20 191 24 777.6 0 24 192 35 777.6 0 35 193 52 777.6 0 52 194 77 777.6 0 77 195 50 777.6 0 50 196 34 777.6 0 34 197 48 777.6 0 48 198 49 777.6 0 49 199 190 777.6 0 190 200 54 777.6 0 54 201 14 777.6 0 14 202 8 777.6 0 8 203 20 777.6 0 20 204 42 777.6 0 42 205 75 777.6 0 75 206 109 777.6 0 109 207 73 777.6 0 73 208 29 777.6 0 29 209 27 777.6 0 27 210 66 777.6 0 66 211 116 777.6 0 116 212 96 777.6 0 96 213 99 777.6 0 99 214 414 777.6 0 414 215 463 777.6 0 463 216 721 777.6 0 721 217 67 777.6 0 67 218 64 777.6 0 64 219 130 777.6 0 130 220 68 777.6 0 68 221 46 777.6 0 46 222 79 777.6 0 79 223 1029 777.6 0 1029 224 406 777.6 0 406 225 591 777.6 0 591 226 170 777.6 0 170 227 56 777.6 0 56 228 68 777.6 0 68 229 156 777.6 0 156 230 83 777.6 0 83 231 51 777.6 0 51 232 22 777.6 0 22 233 11 777.6 0 11 234 19 777.6 0 19 235 33 777.6 0 33 236 47 777.6 0 47 237 66 777.6 0 66 238 364 777.6 0 364 239 156 777.6 0 156 240 241 777.6 0 241 241 17 777.6 0 17 242 16 777.6 0 16 243 12 777.6 0 12 244 26 777.6 0 26 245 38 777.6 0 38 246 112 777.6 0 112 247 135 777.6 0 135 248 61 777.6 0 61 249 23 777.6 0 23 250 27 777.6 0 27 251 25 777.6 0 25 252 20 777.6 0 20 253 49 777.6 0 49 254 80 777.6 0 80 255 96 777.6 0 96 256 75 777.6 0 75 257 122 777.6 0 122 258 114 777.6 0 114 259 74 777.6 0 74 260 45 777.6 0 45 261 23 777.6 0 23 262 63 777.6 0 63 263 208 777.6 0 208 264 246 777.6 0 246 265 615 777.6 0 615 266 93 777.6 0 93 267 184 777.6 0 184 268 185 777.6 0 185 269 197 777.6 0 197 270 100 777.6 0 100 271 124 777.6 0 124 272 1034 777.6 0 1034 273 2075 777.6 0 2075 274 4771 777.6 0 4771 275 104 777.6 0 104 276 48 777.6 0 48 277 57 777.6 0 57 278 128 777.6 0 128 279 110 777.6 0 110 280 118 777.6 0 118 281 33 777.6 0 33 282 25 777.6 0 25 283 47 777.6 0 47 284 89 777.6 0 89 285 185 777.6 0 185 286 257 777.6 0 257 287 250 777.6 0 250 288 122 777.6 0 122 289 25 777.6 0 25 290 18 777.6 0 18 291 14 777.6 0 14 292 69 777.6 0 69 293 143 777.6 0 143 294 133 777.6 0 133 295 108 777.6 0 108 296 96 777.6 0 96 297 49 777.6 0 49 298 30 777.6 0 30 299 75 777.6 0 75 300 194 777.6 0 194 301 1610 777.6 0 1610 Finished in 1.88 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 39,700 Reads with adapters: 29,098 (73.3%) Reads that were too short: 5 (0.0%) Reads written (passing filters): 29,093 (73.3%) Total basepairs processed: 10,493,143 bp Total written (filtered): 8,058,635 bp (76.8%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 29098 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 3 0.0 2 0 0 0 3 15 8 0.0 3 0 0 7 1 16 186 0.0 3 0 174 10 2 17 28749 0.0 3 28208 511 26 4 18 74 0.0 3 6 64 4 19 5 0.0 3 0 0 4 1 20 63 0.0 3 2 0 0 61 29 1 0.0 3 0 0 0 1 45 1 0.0 3 0 0 0 1 92 1 0.0 3 0 0 0 1 105 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 136 1 0.0 3 0 0 0 1 186 2 0.0 3 0 0 0 2 192 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 1.30 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 29,093 Reads with adapters: 1,260 (4.3%) Reads written (passing filters): 29,093 (100.0%) Total basepairs processed: 8,058,635 bp Total written (filtered): 8,054,849 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1260 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 4.1% C: 86.7% G: 8.3% T: 0.9% 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 1255 454.6 0 1255 4 4 113.6 0 4 5 1 28.4 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.