This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCGACG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 159.53 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 85,682 (2.5%) Reads that were too short: 5,487 (0.2%) Reads written (passing filters): 80,195 (2.3%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 20,390,753 bp (2.0%) === Adapter 1 === Sequence: TCGACG; Type: regular 5'; Length: 6; Trimmed: 85682 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 20878 847.3 0 20878 7 541 847.3 0 541 8 25987 847.3 0 25987 9 3895 847.3 0 3895 10 24 847.3 0 24 11 8 847.3 0 8 12 16 847.3 0 16 13 25 847.3 0 25 14 16 847.3 0 16 15 19 847.3 0 19 16 24 847.3 0 24 17 21 847.3 0 21 18 16 847.3 0 16 19 28 847.3 0 28 20 16 847.3 0 16 21 24 847.3 0 24 22 14 847.3 0 14 23 11 847.3 0 11 24 22 847.3 0 22 25 10 847.3 0 10 26 18 847.3 0 18 27 17 847.3 0 17 28 22 847.3 0 22 29 17 847.3 0 17 30 32 847.3 0 32 31 22 847.3 0 22 32 19 847.3 0 19 33 31 847.3 0 31 34 32 847.3 0 32 35 21 847.3 0 21 36 28 847.3 0 28 37 24 847.3 0 24 38 21 847.3 0 21 39 24 847.3 0 24 40 21 847.3 0 21 41 12 847.3 0 12 42 11 847.3 0 11 43 12 847.3 0 12 44 19 847.3 0 19 45 23 847.3 0 23 46 20 847.3 0 20 47 46 847.3 0 46 48 18 847.3 0 18 49 29 847.3 0 29 50 20 847.3 0 20 51 28 847.3 0 28 52 24 847.3 0 24 53 31 847.3 0 31 54 29 847.3 0 29 55 30 847.3 0 30 56 25 847.3 0 25 57 16 847.3 0 16 58 17 847.3 0 17 59 24 847.3 0 24 60 34 847.3 0 34 61 21 847.3 0 21 62 35 847.3 0 35 63 16 847.3 0 16 64 23 847.3 0 23 65 21 847.3 0 21 66 174 847.3 0 174 67 188 847.3 0 188 68 112 847.3 0 112 69 14 847.3 0 14 70 25 847.3 0 25 71 9 847.3 0 9 72 18 847.3 0 18 73 29 847.3 0 29 74 24 847.3 0 24 75 19 847.3 0 19 76 26 847.3 0 26 77 25 847.3 0 25 78 15 847.3 0 15 79 42 847.3 0 42 80 36 847.3 0 36 81 21 847.3 0 21 82 29 847.3 0 29 83 35 847.3 0 35 84 31 847.3 0 31 85 46 847.3 0 46 86 28 847.3 0 28 87 35 847.3 0 35 88 36 847.3 0 36 89 23 847.3 0 23 90 27 847.3 0 27 91 54 847.3 0 54 92 57 847.3 0 57 93 88 847.3 0 88 94 77 847.3 0 77 95 28 847.3 0 28 96 34 847.3 0 34 97 45 847.3 0 45 98 86 847.3 0 86 99 54 847.3 0 54 100 50 847.3 0 50 101 49 847.3 0 49 102 65 847.3 0 65 103 100 847.3 0 100 104 208 847.3 0 208 105 64 847.3 0 64 106 75 847.3 0 75 107 126 847.3 0 126 108 101 847.3 0 101 109 83 847.3 0 83 110 138 847.3 0 138 111 278 847.3 0 278 112 363 847.3 0 363 113 298 847.3 0 298 114 143 847.3 0 143 115 302 847.3 0 302 116 443 847.3 0 443 117 8713 847.3 0 8713 118 6615 847.3 0 6615 119 4120 847.3 0 4120 120 36 847.3 0 36 121 22 847.3 0 22 122 27 847.3 0 27 123 30 847.3 0 30 124 25 847.3 0 25 125 31 847.3 0 31 126 114 847.3 0 114 127 64 847.3 0 64 128 27 847.3 0 27 129 24 847.3 0 24 130 17 847.3 0 17 131 44 847.3 0 44 132 52 847.3 0 52 133 33 847.3 0 33 134 24 847.3 0 24 135 34 847.3 0 34 136 21 847.3 0 21 137 24 847.3 0 24 138 49 847.3 0 49 139 33 847.3 0 33 140 23 847.3 0 23 141 103 847.3 0 103 142 57 847.3 0 57 143 20 847.3 0 20 144 30 847.3 0 30 145 29 847.3 0 29 146 38 847.3 0 38 147 64 847.3 0 64 148 32 847.3 0 32 149 37 847.3 0 37 150 29 847.3 0 29 151 403 847.3 0 403 152 382 847.3 0 382 153 184 847.3 0 184 154 48 847.3 0 48 155 33 847.3 0 33 156 25 847.3 0 25 157 31 847.3 0 31 158 45 847.3 0 45 159 20 847.3 0 20 160 21 847.3 0 21 161 14 847.3 0 14 162 48 847.3 0 48 163 30 847.3 0 30 164 27 847.3 0 27 165 27 847.3 0 27 166 21 847.3 0 21 167 13 847.3 0 13 168 17 847.3 0 17 169 30 847.3 0 30 170 31 847.3 0 31 171 19 847.3 0 19 172 33 847.3 0 33 173 31 847.3 0 31 174 29 847.3 0 29 175 19 847.3 0 19 176 23 847.3 0 23 177 26 847.3 0 26 178 21 847.3 0 21 179 48 847.3 0 48 180 42 847.3 0 42 181 94 847.3 0 94 182 130 847.3 0 130 183 39 847.3 0 39 184 27 847.3 0 27 185 131 847.3 0 131 186 19 847.3 0 19 187 16 847.3 0 16 188 25 847.3 0 25 189 24 847.3 0 24 190 45 847.3 0 45 191 27 847.3 0 27 192 50 847.3 0 50 193 18 847.3 0 18 194 18 847.3 0 18 195 15 847.3 0 15 196 22 847.3 0 22 197 21 847.3 0 21 198 22 847.3 0 22 199 22 847.3 0 22 200 24 847.3 0 24 201 20 847.3 0 20 202 30 847.3 0 30 203 26 847.3 0 26 204 27 847.3 0 27 205 31 847.3 0 31 206 14 847.3 0 14 207 21 847.3 0 21 208 24 847.3 0 24 209 14 847.3 0 14 210 23 847.3 0 23 211 21 847.3 0 21 212 27 847.3 0 27 213 37 847.3 0 37 214 59 847.3 0 59 215 33 847.3 0 33 216 24 847.3 0 24 217 62 847.3 0 62 218 244 847.3 0 244 219 276 847.3 0 276 220 460 847.3 0 460 221 151 847.3 0 151 222 12 847.3 0 12 223 21 847.3 0 21 224 22 847.3 0 22 225 45 847.3 0 45 226 51 847.3 0 51 227 50 847.3 0 50 228 38 847.3 0 38 229 52 847.3 0 52 230 44 847.3 0 44 231 79 847.3 0 79 232 121 847.3 0 121 233 221 847.3 0 221 234 117 847.3 0 117 235 69 847.3 0 69 236 64 847.3 0 64 237 42 847.3 0 42 238 38 847.3 0 38 239 33 847.3 0 33 240 24 847.3 0 24 241 20 847.3 0 20 242 30 847.3 0 30 243 23 847.3 0 23 244 24 847.3 0 24 245 53 847.3 0 53 246 51 847.3 0 51 247 79 847.3 0 79 248 72 847.3 0 72 249 41 847.3 0 41 250 35 847.3 0 35 251 70 847.3 0 70 252 87 847.3 0 87 253 44 847.3 0 44 254 109 847.3 0 109 255 101 847.3 0 101 256 57 847.3 0 57 257 30 847.3 0 30 258 25 847.3 0 25 259 33 847.3 0 33 260 42 847.3 0 42 261 22 847.3 0 22 262 18 847.3 0 18 263 14 847.3 0 14 264 35 847.3 0 35 265 29 847.3 0 29 266 22 847.3 0 22 267 56 847.3 0 56 268 30 847.3 0 30 269 18 847.3 0 18 270 27 847.3 0 27 271 48 847.3 0 48 272 47 847.3 0 47 273 37 847.3 0 37 274 27 847.3 0 27 275 30 847.3 0 30 276 25 847.3 0 25 277 44 847.3 0 44 278 150 847.3 0 150 279 107 847.3 0 107 280 80 847.3 0 80 281 32 847.3 0 32 282 53 847.3 0 53 283 49 847.3 0 49 284 43 847.3 0 43 285 25 847.3 0 25 286 42 847.3 0 42 287 38 847.3 0 38 288 38 847.3 0 38 289 25 847.3 0 25 290 25 847.3 0 25 291 50 847.3 0 50 292 49 847.3 0 49 293 62 847.3 0 62 294 49 847.3 0 49 295 34 847.3 0 34 296 34 847.3 0 34 297 46 847.3 0 46 298 43 847.3 0 43 299 53 847.3 0 53 300 33 847.3 0 33 301 25 847.3 0 25 Finished in 5.46 s (68 us/read; 0.88 M reads/minute). === Summary === Total reads processed: 80,195 Reads with adapters: 26,726 (33.3%) Reads that were too short: 85 (0.1%) Reads written (passing filters): 26,641 (33.2%) Total basepairs processed: 20,390,753 bp Total written (filtered): 7,306,732 bp (35.8%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 26726 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 1 0.0 2 0 0 0 1 15 3 0.0 3 0 0 2 1 16 41 0.0 3 0 34 7 17 3640 0.0 3 3374 258 8 18 22672 0.0 3 22191 460 20 1 19 70 0.0 3 6 55 6 3 20 13 0.0 3 0 0 7 6 21 35 0.0 3 1 0 0 34 22 1 0.0 3 0 0 0 1 23 1 0.0 3 0 0 0 1 24 1 0.0 3 1 26 1 0.0 3 0 0 0 1 30 1 0.0 3 0 0 0 1 40 11 0.0 3 1 0 0 10 43 1 0.0 3 0 0 0 1 48 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 54 101 0.0 3 0 0 0 101 56 3 0.0 3 0 0 0 3 57 11 0.0 3 0 0 0 11 58 9 0.0 3 0 0 0 9 61 2 0.0 3 0 0 0 2 62 1 0.0 3 0 0 0 1 65 2 0.0 3 0 0 0 2 66 1 0.0 3 0 0 0 1 80 1 0.0 3 0 0 0 1 85 1 0.0 3 0 0 0 1 96 1 0.0 3 0 0 0 1 105 4 0.0 3 0 0 0 4 106 5 0.0 3 0 0 0 5 107 1 0.0 3 0 0 0 1 109 1 0.0 3 0 0 0 1 110 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 126 2 0.0 3 0 0 0 2 132 1 0.0 3 0 0 0 1 142 2 0.0 3 0 0 0 2 152 1 0.0 3 0 0 0 1 160 1 0.0 3 0 0 0 1 164 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 166 20 0.0 3 0 0 1 19 167 8 0.0 3 0 0 0 8 168 3 0.0 3 0 0 0 3 169 36 0.0 3 0 0 5 31 170 1 0.0 3 0 0 0 1 173 2 0.0 3 0 0 0 2 221 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 282 2 0.0 3 0 0 0 2 283 2 0.0 3 0 0 0 2 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 1.63 s (61 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 26,641 Reads with adapters: 3,214 (12.1%) Reads written (passing filters): 26,641 (100.0%) Total basepairs processed: 7,306,732 bp Total written (filtered): 7,297,055 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 3214 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 89.4% C: 5.2% G: 4.9% T: 0.5% 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 3183 416.3 0 3183 4 29 104.1 0 29 6 2 6.5 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.