This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCTCG -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 73.20 s (25 us/read; 2.40 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 52,631 (1.8%) Reads that were too short: 5,324 (0.2%) Reads written (passing filters): 47,307 (1.6%) Total basepairs processed: 881,011,047 bp Total written (filtered): 10,457,015 bp (1.2%) === Adapter 1 === Sequence: TTCTCG; Type: regular 5'; Length: 6; Trimmed: 52631 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 260 714.6 0 260 7 154 714.6 0 154 8 469 714.6 0 469 9 13047 714.6 0 13047 10 86 714.6 0 86 11 45 714.6 0 45 12 40 714.6 0 40 13 49 714.6 0 49 14 54 714.6 0 54 15 40 714.6 0 40 16 28 714.6 0 28 17 40 714.6 0 40 18 55 714.6 0 55 19 47 714.6 0 47 20 34 714.6 0 34 21 47 714.6 0 47 22 37 714.6 0 37 23 40 714.6 0 40 24 32 714.6 0 32 25 55 714.6 0 55 26 44 714.6 0 44 27 62 714.6 0 62 28 46 714.6 0 46 29 61 714.6 0 61 30 36 714.6 0 36 31 44 714.6 0 44 32 46 714.6 0 46 33 53 714.6 0 53 34 56 714.6 0 56 35 39 714.6 0 39 36 32 714.6 0 32 37 47 714.6 0 47 38 40 714.6 0 40 39 31 714.6 0 31 40 55 714.6 0 55 41 45 714.6 0 45 42 32 714.6 0 32 43 46 714.6 0 46 44 1741 714.6 0 1741 45 87 714.6 0 87 46 56 714.6 0 56 47 40 714.6 0 40 48 41 714.6 0 41 49 58 714.6 0 58 50 34 714.6 0 34 51 50 714.6 0 50 52 34 714.6 0 34 53 48 714.6 0 48 54 48 714.6 0 48 55 34 714.6 0 34 56 42 714.6 0 42 57 60 714.6 0 60 58 57 714.6 0 57 59 108 714.6 0 108 60 46 714.6 0 46 61 53 714.6 0 53 62 231 714.6 0 231 63 38 714.6 0 38 64 41 714.6 0 41 65 35 714.6 0 35 66 27 714.6 0 27 67 37 714.6 0 37 68 43 714.6 0 43 69 44 714.6 0 44 70 27 714.6 0 27 71 33 714.6 0 33 72 32 714.6 0 32 73 56 714.6 0 56 74 38 714.6 0 38 75 37 714.6 0 37 76 78 714.6 0 78 77 34 714.6 0 34 78 27 714.6 0 27 79 37 714.6 0 37 80 24 714.6 0 24 81 29 714.6 0 29 82 32 714.6 0 32 83 43 714.6 0 43 84 39 714.6 0 39 85 35 714.6 0 35 86 29 714.6 0 29 87 34 714.6 0 34 88 42 714.6 0 42 89 36 714.6 0 36 90 46 714.6 0 46 91 253 714.6 0 253 92 142 714.6 0 142 93 58 714.6 0 58 94 133 714.6 0 133 95 77 714.6 0 77 96 106 714.6 0 106 97 136 714.6 0 136 98 223 714.6 0 223 99 45 714.6 0 45 100 71 714.6 0 71 101 113 714.6 0 113 102 88 714.6 0 88 103 63 714.6 0 63 104 122 714.6 0 122 105 75 714.6 0 75 106 72 714.6 0 72 107 96 714.6 0 96 108 145 714.6 0 145 109 140 714.6 0 140 110 283 714.6 0 283 111 998 714.6 0 998 112 17920 714.6 0 17920 113 461 714.6 0 461 114 59 714.6 0 59 115 45 714.6 0 45 116 51 714.6 0 51 117 41 714.6 0 41 118 42 714.6 0 42 119 27 714.6 0 27 120 44 714.6 0 44 121 30 714.6 0 30 122 28 714.6 0 28 123 32 714.6 0 32 124 38 714.6 0 38 125 49 714.6 0 49 126 30 714.6 0 30 127 29 714.6 0 29 128 33 714.6 0 33 129 41 714.6 0 41 130 50 714.6 0 50 131 41 714.6 0 41 132 45 714.6 0 45 133 47 714.6 0 47 134 33 714.6 0 33 135 71 714.6 0 71 136 48 714.6 0 48 137 38 714.6 0 38 138 29 714.6 0 29 139 51 714.6 0 51 140 44 714.6 0 44 141 36 714.6 0 36 142 32 714.6 0 32 143 94 714.6 0 94 144 105 714.6 0 105 145 88 714.6 0 88 146 35 714.6 0 35 147 53 714.6 0 53 148 49 714.6 0 49 149 59 714.6 0 59 150 50 714.6 0 50 151 45 714.6 0 45 152 56 714.6 0 56 153 56 714.6 0 56 154 133 714.6 0 133 155 43 714.6 0 43 156 66 714.6 0 66 157 42 714.6 0 42 158 43 714.6 0 43 159 63 714.6 0 63 160 62 714.6 0 62 161 232 714.6 0 232 162 465 714.6 0 465 163 352 714.6 0 352 164 300 714.6 0 300 165 88 714.6 0 88 166 33 714.6 0 33 167 37 714.6 0 37 168 49 714.6 0 49 169 56 714.6 0 56 170 47 714.6 0 47 171 80 714.6 0 80 172 149 714.6 0 149 173 38 714.6 0 38 174 33 714.6 0 33 175 44 714.6 0 44 176 54 714.6 0 54 177 198 714.6 0 198 178 123 714.6 0 123 179 173 714.6 0 173 180 45 714.6 0 45 181 33 714.6 0 33 182 30 714.6 0 30 183 43 714.6 0 43 184 38 714.6 0 38 185 50 714.6 0 50 186 36 714.6 0 36 187 26 714.6 0 26 188 75 714.6 0 75 189 80 714.6 0 80 190 118 714.6 0 118 191 148 714.6 0 148 192 44 714.6 0 44 193 30 714.6 0 30 194 32 714.6 0 32 195 46 714.6 0 46 196 69 714.6 0 69 197 62 714.6 0 62 198 42 714.6 0 42 199 71 714.6 0 71 200 64 714.6 0 64 201 33 714.6 0 33 202 40 714.6 0 40 203 40 714.6 0 40 204 49 714.6 0 49 205 44 714.6 0 44 206 36 714.6 0 36 207 39 714.6 0 39 208 28 714.6 0 28 209 34 714.6 0 34 210 41 714.6 0 41 211 92 714.6 0 92 212 69 714.6 0 69 213 70 714.6 0 70 214 54 714.6 0 54 215 73 714.6 0 73 216 71 714.6 0 71 217 82 714.6 0 82 218 44 714.6 0 44 219 39 714.6 0 39 220 35 714.6 0 35 221 40 714.6 0 40 222 45 714.6 0 45 223 59 714.6 0 59 224 81 714.6 0 81 225 314 714.6 0 314 226 81 714.6 0 81 227 44 714.6 0 44 228 46 714.6 0 46 229 68 714.6 0 68 230 50 714.6 0 50 231 44 714.6 0 44 232 46 714.6 0 46 233 52 714.6 0 52 234 58 714.6 0 58 235 87 714.6 0 87 236 85 714.6 0 85 237 72 714.6 0 72 238 81 714.6 0 81 239 39 714.6 0 39 240 27 714.6 0 27 241 43 714.6 0 43 242 68 714.6 0 68 243 81 714.6 0 81 244 182 714.6 0 182 245 161 714.6 0 161 246 140 714.6 0 140 247 55 714.6 0 55 248 54 714.6 0 54 249 28 714.6 0 28 250 27 714.6 0 27 251 36 714.6 0 36 252 33 714.6 0 33 253 34 714.6 0 34 254 56 714.6 0 56 255 60 714.6 0 60 256 60 714.6 0 60 257 52 714.6 0 52 258 37 714.6 0 37 259 72 714.6 0 72 260 55 714.6 0 55 261 52 714.6 0 52 262 46 714.6 0 46 263 52 714.6 0 52 264 66 714.6 0 66 265 76 714.6 0 76 266 42 714.6 0 42 267 35 714.6 0 35 268 19 714.6 0 19 269 33 714.6 0 33 270 49 714.6 0 49 271 37 714.6 0 37 272 28 714.6 0 28 273 22 714.6 0 22 274 37 714.6 0 37 275 39 714.6 0 39 276 39 714.6 0 39 277 39 714.6 0 39 278 39 714.6 0 39 279 26 714.6 0 26 280 27 714.6 0 27 281 33 714.6 0 33 282 31 714.6 0 31 283 38 714.6 0 38 284 49 714.6 0 49 285 46 714.6 0 46 286 67 714.6 0 67 287 45 714.6 0 45 288 41 714.6 0 41 289 25 714.6 0 25 290 36 714.6 0 36 291 23 714.6 0 23 292 32 714.6 0 32 293 28 714.6 0 28 294 28 714.6 0 28 295 18 714.6 0 18 296 30 714.6 0 30 297 63 714.6 0 63 298 55 714.6 0 55 299 30 714.6 0 30 300 37 714.6 0 37 301 33 714.6 0 33 Finished in 2.07 s (44 us/read; 1.37 M reads/minute). === Summary === Total reads processed: 47,307 Reads with adapters: 13,764 (29.1%) Reads that were too short: 1 (0.0%) Reads written (passing filters): 13,763 (29.1%) Total basepairs processed: 10,457,015 bp Total written (filtered): 3,743,837 bp (35.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 13764 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 18 11 0.0 3 0 0 10 1 19 93 0.0 3 0 91 0 1 1 20 13458 0.0 4 13283 167 8 21 55 0.0 4 16 39 22 4 0.0 4 1 1 2 23 133 0.0 4 124 2 0 6 1 24 2 0.0 4 2 33 1 0.0 4 0 0 0 0 1 36 1 0.0 4 1 46 1 0.0 4 1 56 2 0.0 4 0 0 0 0 2 111 1 0.0 4 0 0 0 1 137 1 0.0 4 0 0 0 0 1 235 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 0.47 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 13,763 Reads with adapters: 417 (3.0%) Reads written (passing filters): 13,763 (100.0%) Total basepairs processed: 3,743,837 bp Total written (filtered): 3,739,674 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 417 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 2.9% G: 93.0% T: 2.4% 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 4 2 53.8 0 2 5 2 13.4 0 2 6 2 3.4 0 2 9 40 0.1 0 0 40 10 308 0.0 1 12 296 11 63 0.0 1 0 63 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.