This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -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 69.89 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,630,299 Reads with adapters: 238,706 (9.1%) Reads that were too short: 8,058 (0.3%) Reads written (passing filters): 230,648 (8.8%) Total basepairs processed: 791,719,999 bp Total written (filtered): 36,526,054 bp (4.6%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 238706 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 97 642.2 0 97 7 4903 642.2 0 4903 8 547 642.2 0 547 9 5107 642.2 0 5107 10 73 642.2 0 73 11 39 642.2 0 39 12 49 642.2 0 49 13 63 642.2 0 63 14 63 642.2 0 63 15 82 642.2 0 82 16 53 642.2 0 53 17 31 642.2 0 31 18 41 642.2 0 41 19 59 642.2 0 59 20 60 642.2 0 60 21 61 642.2 0 61 22 51 642.2 0 51 23 54 642.2 0 54 24 57 642.2 0 57 25 60 642.2 0 60 26 59 642.2 0 59 27 147 642.2 0 147 28 214 642.2 0 214 29 133 642.2 0 133 30 48 642.2 0 48 31 39 642.2 0 39 32 51 642.2 0 51 33 53 642.2 0 53 34 70 642.2 0 70 35 63 642.2 0 63 36 70 642.2 0 70 37 72 642.2 0 72 38 49 642.2 0 49 39 56 642.2 0 56 40 49 642.2 0 49 41 76 642.2 0 76 42 60 642.2 0 60 43 65 642.2 0 65 44 68 642.2 0 68 45 58 642.2 0 58 46 71 642.2 0 71 47 61 642.2 0 61 48 196 642.2 0 196 49 56 642.2 0 56 50 72 642.2 0 72 51 68 642.2 0 68 52 231 642.2 0 231 53 62 642.2 0 62 54 40 642.2 0 40 55 43 642.2 0 43 56 50 642.2 0 50 57 157 642.2 0 157 58 112 642.2 0 112 59 245 642.2 0 245 60 72 642.2 0 72 61 51 642.2 0 51 62 58 642.2 0 58 63 57 642.2 0 57 64 40 642.2 0 40 65 47 642.2 0 47 66 48 642.2 0 48 67 53 642.2 0 53 68 62 642.2 0 62 69 67 642.2 0 67 70 74 642.2 0 74 71 48 642.2 0 48 72 40 642.2 0 40 73 47 642.2 0 47 74 52 642.2 0 52 75 54 642.2 0 54 76 44 642.2 0 44 77 69 642.2 0 69 78 84 642.2 0 84 79 44 642.2 0 44 80 66 642.2 0 66 81 91 642.2 0 91 82 51 642.2 0 51 83 46 642.2 0 46 84 69 642.2 0 69 85 83 642.2 0 83 86 60 642.2 0 60 87 55 642.2 0 55 88 70 642.2 0 70 89 90 642.2 0 90 90 87 642.2 0 87 91 114 642.2 0 114 92 89 642.2 0 89 93 108 642.2 0 108 94 93 642.2 0 93 95 94 642.2 0 94 96 87 642.2 0 87 97 67 642.2 0 67 98 67 642.2 0 67 99 55 642.2 0 55 100 46 642.2 0 46 101 77 642.2 0 77 102 111 642.2 0 111 103 107 642.2 0 107 104 138 642.2 0 138 105 211 642.2 0 211 106 272 642.2 0 272 107 1053 642.2 0 1053 108 12704 642.2 0 12704 109 8369 642.2 0 8369 110 9055 642.2 0 9055 111 119 642.2 0 119 112 69 642.2 0 69 113 58 642.2 0 58 114 53 642.2 0 53 115 78 642.2 0 78 116 126 642.2 0 126 117 130 642.2 0 130 118 81 642.2 0 81 119 64 642.2 0 64 120 84 642.2 0 84 121 68 642.2 0 68 122 73 642.2 0 73 123 58 642.2 0 58 124 49 642.2 0 49 125 89 642.2 0 89 126 56 642.2 0 56 127 90 642.2 0 90 128 151 642.2 0 151 129 81 642.2 0 81 130 291 642.2 0 291 131 82 642.2 0 82 132 102 642.2 0 102 133 160 642.2 0 160 134 1127 642.2 0 1127 135 618 642.2 0 618 136 2156 642.2 0 2156 137 106 642.2 0 106 138 115 642.2 0 115 139 70 642.2 0 70 140 109 642.2 0 109 141 125 642.2 0 125 142 109 642.2 0 109 143 99 642.2 0 99 144 145 642.2 0 145 145 217 642.2 0 217 146 410 642.2 0 410 147 888 642.2 0 888 148 238 642.2 0 238 149 1234 642.2 0 1234 150 615 642.2 0 615 151 215 642.2 0 215 152 255 642.2 0 255 153 557 642.2 0 557 154 643 642.2 0 643 155 3478 642.2 0 3478 156 2719 642.2 0 2719 157 2926 642.2 0 2926 158 856 642.2 0 856 159 1704 642.2 0 1704 160 27806 642.2 0 27806 161 65261 642.2 0 65261 162 61880 642.2 0 61880 163 261 642.2 0 261 164 85 642.2 0 85 165 86 642.2 0 86 166 57 642.2 0 57 167 76 642.2 0 76 168 54 642.2 0 54 169 67 642.2 0 67 170 63 642.2 0 63 171 49 642.2 0 49 172 55 642.2 0 55 173 57 642.2 0 57 174 78 642.2 0 78 175 59 642.2 0 59 176 59 642.2 0 59 177 70 642.2 0 70 178 44 642.2 0 44 179 52 642.2 0 52 180 78 642.2 0 78 181 62 642.2 0 62 182 55 642.2 0 55 183 45 642.2 0 45 184 40 642.2 0 40 185 56 642.2 0 56 186 44 642.2 0 44 187 50 642.2 0 50 188 62 642.2 0 62 189 41 642.2 0 41 190 58 642.2 0 58 191 82 642.2 0 82 192 63 642.2 0 63 193 76 642.2 0 76 194 49 642.2 0 49 195 57 642.2 0 57 196 39 642.2 0 39 197 34 642.2 0 34 198 51 642.2 0 51 199 41 642.2 0 41 200 44 642.2 0 44 201 46 642.2 0 46 202 74 642.2 0 74 203 80 642.2 0 80 204 54 642.2 0 54 205 59 642.2 0 59 206 43 642.2 0 43 207 47 642.2 0 47 208 65 642.2 0 65 209 57 642.2 0 57 210 40 642.2 0 40 211 56 642.2 0 56 212 41 642.2 0 41 213 41 642.2 0 41 214 47 642.2 0 47 215 45 642.2 0 45 216 57 642.2 0 57 217 45 642.2 0 45 218 68 642.2 0 68 219 63 642.2 0 63 220 57 642.2 0 57 221 86 642.2 0 86 222 216 642.2 0 216 223 179 642.2 0 179 224 133 642.2 0 133 225 202 642.2 0 202 226 60 642.2 0 60 227 69 642.2 0 69 228 68 642.2 0 68 229 48 642.2 0 48 230 61 642.2 0 61 231 55 642.2 0 55 232 78 642.2 0 78 233 96 642.2 0 96 234 105 642.2 0 105 235 81 642.2 0 81 236 99 642.2 0 99 237 67 642.2 0 67 238 72 642.2 0 72 239 37 642.2 0 37 240 52 642.2 0 52 241 62 642.2 0 62 242 67 642.2 0 67 243 63 642.2 0 63 244 80 642.2 0 80 245 51 642.2 0 51 246 52 642.2 0 52 247 56 642.2 0 56 248 48 642.2 0 48 249 57 642.2 0 57 250 85 642.2 0 85 251 443 642.2 0 443 252 207 642.2 0 207 253 274 642.2 0 274 254 274 642.2 0 274 255 139 642.2 0 139 256 83 642.2 0 83 257 42 642.2 0 42 258 58 642.2 0 58 259 49 642.2 0 49 260 56 642.2 0 56 261 86 642.2 0 86 262 90 642.2 0 90 263 88 642.2 0 88 264 60 642.2 0 60 265 63 642.2 0 63 266 51 642.2 0 51 267 65 642.2 0 65 268 48 642.2 0 48 269 178 642.2 0 178 270 79 642.2 0 79 271 77 642.2 0 77 272 91 642.2 0 91 273 45 642.2 0 45 274 47 642.2 0 47 275 62 642.2 0 62 276 48 642.2 0 48 277 57 642.2 0 57 278 126 642.2 0 126 279 141 642.2 0 141 280 87 642.2 0 87 281 81 642.2 0 81 282 107 642.2 0 107 283 134 642.2 0 134 284 86 642.2 0 86 285 63 642.2 0 63 286 45 642.2 0 45 287 59 642.2 0 59 288 38 642.2 0 38 289 38 642.2 0 38 290 81 642.2 0 81 291 91 642.2 0 91 292 47 642.2 0 47 293 39 642.2 0 39 294 52 642.2 0 52 295 40 642.2 0 40 296 66 642.2 0 66 297 53 642.2 0 53 298 49 642.2 0 49 299 43 642.2 0 43 300 47 642.2 0 47 301 61 642.2 0 61 Finished in 8.13 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 230,648 Reads with adapters: 5,795 (2.5%) Reads that were too short: 14 (0.0%) Reads written (passing filters): 5,781 (2.5%) Total basepairs processed: 36,526,054 bp Total written (filtered): 1,561,419 bp (4.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5795 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 1 0.0 3 0 0 1 19 24 0.0 3 0 24 20 5635 0.0 4 5546 88 1 21 10 0.0 4 1 9 22 3 0.0 4 0 0 2 0 1 23 3 0.0 4 0 0 0 2 1 30 3 0.0 4 3 36 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 75 1 0.0 4 1 77 5 0.0 4 0 0 0 0 5 81 1 0.0 4 0 0 0 0 1 95 1 0.0 4 1 103 2 0.0 4 0 0 0 0 2 105 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 125 1 0.0 4 1 126 1 0.0 4 0 0 0 0 1 127 93 0.0 4 0 0 0 0 93 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 135 1 0.0 4 1 166 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 264 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 0.21 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 5,781 Reads with adapters: 1,001 (17.3%) Reads written (passing filters): 5,781 (100.0%) Total basepairs processed: 1,561,419 bp Total written (filtered): 1,546,615 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1001 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.8% C: 2.8% G: 93.1% T: 3.3% 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 3 1 90.3 0 1 4 2 22.6 0 2 5 1 5.6 0 1 8 4 0.1 0 4 9 521 0.0 0 17 504 10 362 0.0 1 14 348 11 80 0.0 1 1 79 12 4 0.0 1 0 4 15 1 0.0 1 0 1 150 1 0.0 1 1 223 22 0.0 1 20 2 224 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.