This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 103.67 s (33 us/read; 1.84 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 182,011 (5.7%) Reads that were too short: 158,495 (5.0%) Reads written (passing filters): 23,516 (0.7%) Total basepairs processed: 958,672,960 bp Total written (filtered): 5,414,770 bp (0.6%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 182011 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 92 777.6 0 92 7 2101 777.6 0 2101 8 124 777.6 0 124 9 15 777.6 0 15 10 16 777.6 0 16 11 12 777.6 0 12 12 9 777.6 0 9 13 13 777.6 0 13 14 10 777.6 0 10 15 17 777.6 0 17 16 37 777.6 0 37 17 19 777.6 0 19 18 17 777.6 0 17 19 16 777.6 0 16 20 125 777.6 0 125 21 19 777.6 0 19 22 12 777.6 0 12 23 9 777.6 0 9 24 12 777.6 0 12 25 11 777.6 0 11 26 17 777.6 0 17 27 13 777.6 0 13 28 20 777.6 0 20 29 12 777.6 0 12 30 12 777.6 0 12 31 12 777.6 0 12 32 9 777.6 0 9 33 14 777.6 0 14 34 14 777.6 0 14 35 13 777.6 0 13 36 12 777.6 0 12 37 19 777.6 0 19 38 18 777.6 0 18 39 55 777.6 0 55 40 15 777.6 0 15 41 12 777.6 0 12 42 12 777.6 0 12 43 9 777.6 0 9 44 13 777.6 0 13 45 9 777.6 0 9 46 16 777.6 0 16 47 6 777.6 0 6 48 15 777.6 0 15 49 27 777.6 0 27 50 1110 777.6 0 1110 51 60 777.6 0 60 52 23 777.6 0 23 53 12 777.6 0 12 54 36 777.6 0 36 55 33 777.6 0 33 56 39 777.6 0 39 57 60 777.6 0 60 58 28 777.6 0 28 59 49 777.6 0 49 60 156 777.6 0 156 61 138 777.6 0 138 62 324 777.6 0 324 63 46 777.6 0 46 64 92 777.6 0 92 65 164 777.6 0 164 66 89 777.6 0 89 67 80 777.6 0 80 68 147 777.6 0 147 69 112 777.6 0 112 70 145 777.6 0 145 71 95 777.6 0 95 72 145 777.6 0 145 73 113 777.6 0 113 74 233 777.6 0 233 75 6419 777.6 0 6419 76 3091 777.6 0 3091 77 5442 777.6 0 5442 78 85 777.6 0 85 79 15 777.6 0 15 80 16 777.6 0 16 81 11 777.6 0 11 82 6 777.6 0 6 83 5 777.6 0 5 84 5 777.6 0 5 85 6 777.6 0 6 86 9 777.6 0 9 87 8 777.6 0 8 88 7 777.6 0 7 89 5 777.6 0 5 90 4 777.6 0 4 91 14 777.6 0 14 92 5 777.6 0 5 93 9 777.6 0 9 94 7 777.6 0 7 95 9 777.6 0 9 96 5 777.6 0 5 97 5 777.6 0 5 98 12 777.6 0 12 99 9 777.6 0 9 100 7 777.6 0 7 101 8 777.6 0 8 102 9 777.6 0 9 103 9 777.6 0 9 104 13 777.6 0 13 105 11 777.6 0 11 106 12 777.6 0 12 107 7 777.6 0 7 108 8 777.6 0 8 109 8 777.6 0 8 110 9 777.6 0 9 111 11 777.6 0 11 112 8 777.6 0 8 113 4 777.6 0 4 114 9 777.6 0 9 115 10 777.6 0 10 116 5 777.6 0 5 117 13 777.6 0 13 118 8 777.6 0 8 119 15 777.6 0 15 120 4 777.6 0 4 121 15 777.6 0 15 122 10 777.6 0 10 123 9 777.6 0 9 124 17 777.6 0 17 125 153 777.6 0 153 126 109 777.6 0 109 127 73 777.6 0 73 128 15 777.6 0 15 129 48 777.6 0 48 130 7 777.6 0 7 131 11 777.6 0 11 132 7 777.6 0 7 133 12 777.6 0 12 134 22 777.6 0 22 135 15 777.6 0 15 136 29 777.6 0 29 137 40 777.6 0 40 138 54 777.6 0 54 139 77 777.6 0 77 140 30 777.6 0 30 141 44 777.6 0 44 142 8 777.6 0 8 143 18 777.6 0 18 144 12 777.6 0 12 145 22 777.6 0 22 146 14 777.6 0 14 147 8 777.6 0 8 148 5 777.6 0 5 149 7 777.6 0 7 150 10 777.6 0 10 151 1 777.6 0 1 152 2 777.6 0 2 153 3 777.6 0 3 154 4 777.6 0 4 155 8 777.6 0 8 156 12 777.6 0 12 157 4 777.6 0 4 158 6 777.6 0 6 159 4 777.6 0 4 160 10 777.6 0 10 161 1 777.6 0 1 162 10 777.6 0 10 163 14 777.6 0 14 164 3 777.6 0 3 165 13 777.6 0 13 166 12 777.6 0 12 167 7 777.6 0 7 168 10 777.6 0 10 169 7 777.6 0 7 170 11 777.6 0 11 171 4 777.6 0 4 172 10 777.6 0 10 173 6 777.6 0 6 174 10 777.6 0 10 175 3 777.6 0 3 176 7 777.6 0 7 177 9 777.6 0 9 178 9 777.6 0 9 179 6 777.6 0 6 180 12 777.6 0 12 181 18 777.6 0 18 182 5 777.6 0 5 183 18 777.6 0 18 184 10 777.6 0 10 185 11 777.6 0 11 186 18 777.6 0 18 187 7 777.6 0 7 188 15 777.6 0 15 189 4 777.6 0 4 190 5 777.6 0 5 191 11 777.6 0 11 192 15 777.6 0 15 193 33 777.6 0 33 194 25 777.6 0 25 195 27 777.6 0 27 196 9 777.6 0 9 197 25 777.6 0 25 198 46 777.6 0 46 199 68 777.6 0 68 200 15 777.6 0 15 201 26 777.6 0 26 202 18 777.6 0 18 203 9 777.6 0 9 204 94 777.6 0 94 205 25 777.6 0 25 206 14 777.6 0 14 207 19 777.6 0 19 208 23 777.6 0 23 209 18 777.6 0 18 210 32 777.6 0 32 211 89 777.6 0 89 212 12 777.6 0 12 213 21 777.6 0 21 214 28 777.6 0 28 215 60 777.6 0 60 216 18 777.6 0 18 217 55 777.6 0 55 218 79 777.6 0 79 219 100 777.6 0 100 220 56 777.6 0 56 221 93 777.6 0 93 222 64 777.6 0 64 223 445 777.6 0 445 224 258 777.6 0 258 225 307 777.6 0 307 226 101 777.6 0 101 227 67 777.6 0 67 228 87 777.6 0 87 229 193 777.6 0 193 230 139 777.6 0 139 231 153 777.6 0 153 232 270 777.6 0 270 233 362 777.6 0 362 234 526 777.6 0 526 235 932 777.6 0 932 236 1298 777.6 0 1298 237 1007 777.6 0 1007 238 14508 777.6 0 14508 239 8635 777.6 0 8635 240 8639 777.6 0 8639 241 410 777.6 0 410 242 514 777.6 0 514 243 545 777.6 0 545 244 433 777.6 0 433 245 847 777.6 0 847 246 926 777.6 0 926 247 1144 777.6 0 1144 248 10471 777.6 0 10471 249 12579 777.6 0 12579 250 82458 777.6 0 82458 251 5385 777.6 0 5385 252 26 777.6 0 26 253 6 777.6 0 6 254 7 777.6 0 7 255 8 777.6 0 8 257 4 777.6 0 4 258 8 777.6 0 8 259 16 777.6 0 16 260 6 777.6 0 6 261 6 777.6 0 6 262 30 777.6 0 30 263 10 777.6 0 10 264 43 777.6 0 43 265 11 777.6 0 11 266 13 777.6 0 13 267 8 777.6 0 8 268 17 777.6 0 17 269 32 777.6 0 32 270 7 777.6 0 7 271 10 777.6 0 10 272 22 777.6 0 22 273 15 777.6 0 15 274 3 777.6 0 3 275 27 777.6 0 27 276 9 777.6 0 9 277 26 777.6 0 26 278 44 777.6 0 44 279 58 777.6 0 58 280 141 777.6 0 141 281 95 777.6 0 95 282 859 777.6 0 859 283 304 777.6 0 304 284 1117 777.6 0 1117 285 29 777.6 0 29 286 11 777.6 0 11 287 9 777.6 0 9 288 8 777.6 0 8 289 7 777.6 0 7 290 9 777.6 0 9 291 19 777.6 0 19 292 13 777.6 0 13 293 15 777.6 0 15 294 184 777.6 0 184 295 54 777.6 0 54 296 251 777.6 0 251 297 193 777.6 0 193 298 26 777.6 0 26 299 32 777.6 0 32 300 31 777.6 0 31 301 50 777.6 0 50 Finished in 1.13 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 23,516 Reads with adapters: 2,174 (9.2%) Reads that were too short: 10 (0.0%) Reads written (passing filters): 2,164 (9.2%) Total basepairs processed: 5,414,770 bp Total written (filtered): 590,046 bp (10.9%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 2174 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 15 1 0.0 3 0 0 1 16 14 0.0 3 0 13 1 17 2075 0.0 3 2019 53 2 1 18 7 0.0 3 0 2 5 20 4 0.0 3 0 0 0 4 25 2 0.0 3 0 0 0 2 30 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 61 3 0.0 3 0 0 0 3 69 1 0.0 3 0 0 0 1 75 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 91 2 0.0 3 0 0 0 2 94 1 0.0 3 0 0 0 1 96 2 0.0 3 0 0 0 2 98 17 0.0 3 0 0 0 17 99 4 0.0 3 0 0 0 4 100 4 0.0 3 0 0 0 4 102 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 116 10 0.0 3 0 0 0 10 117 1 0.0 3 0 0 0 1 119 12 0.0 3 0 0 0 12 167 1 0.0 3 0 0 0 1 195 1 0.0 3 0 0 0 1 208 1 0.0 3 0 0 0 1 210 2 0.0 3 0 0 0 2 211 1 0.0 3 0 0 0 1 218 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 0.11 s (51 us/read; 1.18 M reads/minute). === Summary === Total reads processed: 2,164 Reads with adapters: 379 (17.5%) Reads written (passing filters): 2,164 (100.0%) Total basepairs processed: 590,046 bp Total written (filtered): 588,909 bp (99.8%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 379 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 5.3% C: 92.3% G: 2.4% T: 0.0% 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 3 379 33.8 0 379 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.