This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGCTG -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 89.66 s (26 us/read; 2.32 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 64,383 (1.9%) Reads that were too short: 41,205 (1.2%) Reads written (passing filters): 23,178 (0.7%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 4,902,339 bp (0.5%) === Adapter 1 === Sequence: CCGCTG; Type: regular 5'; Length: 6; Trimmed: 64383 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 123 846.0 0 123 7 104 846.0 0 104 8 329 846.0 0 329 9 6287 846.0 0 6287 10 74 846.0 0 74 11 51 846.0 0 51 12 34 846.0 0 34 13 61 846.0 0 61 14 42 846.0 0 42 15 32 846.0 0 32 16 30 846.0 0 30 17 31 846.0 0 31 18 57 846.0 0 57 19 62 846.0 0 62 20 37 846.0 0 37 21 38 846.0 0 38 22 59 846.0 0 59 23 43 846.0 0 43 24 56 846.0 0 56 25 56 846.0 0 56 26 76 846.0 0 76 27 51 846.0 0 51 28 42 846.0 0 42 29 36 846.0 0 36 30 31 846.0 0 31 31 49 846.0 0 49 32 47 846.0 0 47 33 49 846.0 0 49 34 51 846.0 0 51 35 42 846.0 0 42 36 32 846.0 0 32 37 41 846.0 0 41 38 45 846.0 0 45 39 32 846.0 0 32 40 29 846.0 0 29 41 40 846.0 0 40 42 132 846.0 0 132 43 75 846.0 0 75 44 44 846.0 0 44 45 40 846.0 0 40 46 53 846.0 0 53 47 43 846.0 0 43 48 46 846.0 0 46 49 60 846.0 0 60 50 44 846.0 0 44 51 43 846.0 0 43 52 48 846.0 0 48 53 45 846.0 0 45 54 31 846.0 0 31 55 35 846.0 0 35 56 36 846.0 0 36 57 44 846.0 0 44 58 36 846.0 0 36 59 22 846.0 0 22 60 21 846.0 0 21 61 36 846.0 0 36 62 34 846.0 0 34 63 24 846.0 0 24 64 25 846.0 0 25 65 30 846.0 0 30 66 22 846.0 0 22 67 35 846.0 0 35 68 36 846.0 0 36 69 36 846.0 0 36 70 34 846.0 0 34 71 26 846.0 0 26 72 49 846.0 0 49 73 39 846.0 0 39 74 47 846.0 0 47 75 28 846.0 0 28 76 27 846.0 0 27 77 36 846.0 0 36 78 34 846.0 0 34 79 27 846.0 0 27 80 33 846.0 0 33 81 60 846.0 0 60 82 56 846.0 0 56 83 62 846.0 0 62 84 47 846.0 0 47 85 52 846.0 0 52 86 50 846.0 0 50 87 30 846.0 0 30 88 44 846.0 0 44 89 34 846.0 0 34 90 42 846.0 0 42 91 53 846.0 0 53 92 60 846.0 0 60 93 80 846.0 0 80 94 1331 846.0 0 1331 95 639 846.0 0 639 96 620 846.0 0 620 97 78 846.0 0 78 98 57 846.0 0 57 99 56 846.0 0 56 100 34 846.0 0 34 101 36 846.0 0 36 102 40 846.0 0 40 103 43 846.0 0 43 104 41 846.0 0 41 105 188 846.0 0 188 106 145 846.0 0 145 107 144 846.0 0 144 108 63 846.0 0 63 109 36 846.0 0 36 110 38 846.0 0 38 111 50 846.0 0 50 112 473 846.0 0 473 113 34 846.0 0 34 114 46 846.0 0 46 115 38 846.0 0 38 116 29 846.0 0 29 117 33 846.0 0 33 118 34 846.0 0 34 119 34 846.0 0 34 120 26 846.0 0 26 121 28 846.0 0 28 122 32 846.0 0 32 123 33 846.0 0 33 124 26 846.0 0 26 125 46 846.0 0 46 126 57 846.0 0 57 127 51 846.0 0 51 128 349 846.0 0 349 129 425 846.0 0 425 130 133 846.0 0 133 131 31 846.0 0 31 132 39 846.0 0 39 133 32 846.0 0 32 134 45 846.0 0 45 135 52 846.0 0 52 136 44 846.0 0 44 137 30 846.0 0 30 138 23 846.0 0 23 139 43 846.0 0 43 140 39 846.0 0 39 141 40 846.0 0 40 142 48 846.0 0 48 143 55 846.0 0 55 144 40 846.0 0 40 145 164 846.0 0 164 146 181 846.0 0 181 147 208 846.0 0 208 148 47 846.0 0 47 149 39 846.0 0 39 150 35 846.0 0 35 151 38 846.0 0 38 152 60 846.0 0 60 153 75 846.0 0 75 154 45 846.0 0 45 155 34 846.0 0 34 156 36 846.0 0 36 157 54 846.0 0 54 158 47 846.0 0 47 159 46 846.0 0 46 160 50 846.0 0 50 161 31 846.0 0 31 162 33 846.0 0 33 163 40 846.0 0 40 164 39 846.0 0 39 165 40 846.0 0 40 166 63 846.0 0 63 167 43 846.0 0 43 168 52 846.0 0 52 169 46 846.0 0 46 170 41 846.0 0 41 171 63 846.0 0 63 172 186 846.0 0 186 173 123 846.0 0 123 174 166 846.0 0 166 175 107 846.0 0 107 176 161 846.0 0 161 177 449 846.0 0 449 178 137 846.0 0 137 179 258 846.0 0 258 180 368 846.0 0 368 181 444 846.0 0 444 182 210 846.0 0 210 183 55 846.0 0 55 184 62 846.0 0 62 185 53 846.0 0 53 186 36 846.0 0 36 187 38 846.0 0 38 188 45 846.0 0 45 189 54 846.0 0 54 190 54 846.0 0 54 191 89 846.0 0 89 192 253 846.0 0 253 193 139 846.0 0 139 194 123 846.0 0 123 195 85 846.0 0 85 196 90 846.0 0 90 197 412 846.0 0 412 198 250 846.0 0 250 199 291 846.0 0 291 200 96 846.0 0 96 201 42 846.0 0 42 202 61 846.0 0 61 203 98 846.0 0 98 204 66 846.0 0 66 205 50 846.0 0 50 206 33 846.0 0 33 207 32 846.0 0 32 208 29 846.0 0 29 209 48 846.0 0 48 210 42 846.0 0 42 211 47 846.0 0 47 212 28 846.0 0 28 213 54 846.0 0 54 214 142 846.0 0 142 215 821 846.0 0 821 216 360 846.0 0 360 217 660 846.0 0 660 218 54 846.0 0 54 219 39 846.0 0 39 220 48 846.0 0 48 221 29 846.0 0 29 222 50 846.0 0 50 223 30 846.0 0 30 224 27 846.0 0 27 225 28 846.0 0 28 226 36 846.0 0 36 227 42 846.0 0 42 228 26 846.0 0 26 229 41 846.0 0 41 230 32 846.0 0 32 231 45 846.0 0 45 232 48 846.0 0 48 233 53 846.0 0 53 234 34 846.0 0 34 235 39 846.0 0 39 236 36 846.0 0 36 237 35 846.0 0 35 238 47 846.0 0 47 239 40 846.0 0 40 240 31 846.0 0 31 241 36 846.0 0 36 242 59 846.0 0 59 243 49 846.0 0 49 244 39 846.0 0 39 245 41 846.0 0 41 246 48 846.0 0 48 247 57 846.0 0 57 248 89 846.0 0 89 249 62 846.0 0 62 250 95 846.0 0 95 251 580 846.0 0 580 252 116 846.0 0 116 253 245 846.0 0 245 254 194 846.0 0 194 255 71 846.0 0 71 256 52 846.0 0 52 257 49 846.0 0 49 258 63 846.0 0 63 259 103 846.0 0 103 260 20 846.0 0 20 261 38 846.0 0 38 262 51 846.0 0 51 263 56 846.0 0 56 264 90 846.0 0 90 265 86 846.0 0 86 266 76 846.0 0 76 267 58 846.0 0 58 268 117 846.0 0 117 269 153 846.0 0 153 270 66 846.0 0 66 271 89 846.0 0 89 272 99 846.0 0 99 273 82 846.0 0 82 274 35 846.0 0 35 275 47 846.0 0 47 276 53 846.0 0 53 277 93 846.0 0 93 278 144 846.0 0 144 279 143 846.0 0 143 280 257 846.0 0 257 281 138 846.0 0 138 282 57 846.0 0 57 283 51 846.0 0 51 284 74 846.0 0 74 285 117 846.0 0 117 286 120 846.0 0 120 287 185 846.0 0 185 288 341 846.0 0 341 289 1683 846.0 0 1683 290 3749 846.0 0 3749 291 2428 846.0 0 2428 292 2327 846.0 0 2327 293 8052 846.0 0 8052 294 3731 846.0 0 3731 295 3776 846.0 0 3776 296 5251 846.0 0 5251 297 1462 846.0 0 1462 298 252 846.0 0 252 299 23 846.0 0 23 300 10 846.0 0 10 301 16 846.0 0 16 Finished in 1.06 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 23,178 Reads with adapters: 6,654 (28.7%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 6,650 (28.7%) Total basepairs processed: 4,902,339 bp Total written (filtered): 1,806,234 bp (36.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6654 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 3 0.0 3 0 0 3 19 69 0.0 3 0 61 5 3 20 6511 0.0 4 6087 364 42 12 6 21 29 0.0 4 8 16 4 0 1 23 4 0.0 4 0 0 0 4 26 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 47 2 0.0 4 0 0 0 0 2 79 1 0.0 4 0 0 0 0 1 109 8 0.0 4 0 0 0 8 110 1 0.0 4 0 0 0 1 111 19 0.0 4 0 0 0 18 1 112 1 0.0 4 0 0 0 1 116 1 0.0 4 0 0 0 0 1 128 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 205 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 0.24 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 6,650 Reads with adapters: 480 (7.2%) Reads written (passing filters): 6,650 (100.0%) Total basepairs processed: 1,806,234 bp Total written (filtered): 1,791,112 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 480 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.3% C: 4.2% G: 85.4% T: 2.1% 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 1 26.0 0 1 9 66 0.0 0 8 58 10 196 0.0 1 11 185 11 175 0.0 1 0 175 13 1 0.0 1 0 1 237 5 0.0 1 4 1 256 1 0.0 1 1 257 14 0.0 1 13 1 261 1 0.0 1 1 262 3 0.0 1 3 263 1 0.0 1 1 264 1 0.0 1 1 266 8 0.0 1 8 267 1 0.0 1 1 268 1 0.0 1 1 269 1 0.0 1 1 270 3 0.0 1 3 271 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.