This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -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 64.70 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 278,118 (11.4%) Reads that were too short: 14,261 (0.6%) Reads written (passing filters): 263,857 (10.8%) Total basepairs processed: 735,190,694 bp Total written (filtered): 58,904,103 bp (8.0%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 278118 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 323 596.3 0 323 7 12998 596.3 0 12998 8 7370 596.3 0 7370 9 18 596.3 0 18 10 104 596.3 0 104 11 26 596.3 0 26 12 10 596.3 0 10 13 21 596.3 0 21 14 12 596.3 0 12 15 13 596.3 0 13 16 7 596.3 0 7 17 7 596.3 0 7 18 14 596.3 0 14 19 17 596.3 0 17 20 13 596.3 0 13 21 43 596.3 0 43 22 32 596.3 0 32 23 24 596.3 0 24 24 7 596.3 0 7 25 10 596.3 0 10 26 10 596.3 0 10 27 17 596.3 0 17 28 15 596.3 0 15 29 17 596.3 0 17 30 16 596.3 0 16 31 16 596.3 0 16 32 11 596.3 0 11 33 44 596.3 0 44 34 11 596.3 0 11 35 36 596.3 0 36 36 18 596.3 0 18 37 14 596.3 0 14 38 8 596.3 0 8 39 28 596.3 0 28 40 29 596.3 0 29 41 16 596.3 0 16 42 74 596.3 0 74 43 49 596.3 0 49 44 55 596.3 0 55 45 42 596.3 0 42 46 33 596.3 0 33 47 39 596.3 0 39 48 22 596.3 0 22 49 88 596.3 0 88 50 39 596.3 0 39 51 62 596.3 0 62 52 547 596.3 0 547 53 118 596.3 0 118 54 133 596.3 0 133 55 200 596.3 0 200 56 18 596.3 0 18 57 24 596.3 0 24 58 15 596.3 0 15 59 70 596.3 0 70 60 79 596.3 0 79 61 286 596.3 0 286 62 739 596.3 0 739 63 160 596.3 0 160 64 385 596.3 0 385 65 754 596.3 0 754 66 1614 596.3 0 1614 67 2291 596.3 0 2291 68 194 596.3 0 194 69 247 596.3 0 247 70 88 596.3 0 88 71 151 596.3 0 151 72 419 596.3 0 419 73 489 596.3 0 489 74 817 596.3 0 817 75 1096 596.3 0 1096 76 1156 596.3 0 1156 77 2522 596.3 0 2522 78 5875 596.3 0 5875 79 84483 596.3 0 84483 80 35744 596.3 0 35744 81 83249 596.3 0 83249 82 590 596.3 0 590 83 295 596.3 0 295 84 41 596.3 0 41 85 25 596.3 0 25 86 25 596.3 0 25 87 48 596.3 0 48 88 29 596.3 0 29 89 20 596.3 0 20 90 43 596.3 0 43 91 10 596.3 0 10 92 39 596.3 0 39 93 24 596.3 0 24 94 16 596.3 0 16 95 37 596.3 0 37 96 27 596.3 0 27 97 17 596.3 0 17 98 11 596.3 0 11 99 13 596.3 0 13 100 13 596.3 0 13 101 12 596.3 0 12 102 26 596.3 0 26 103 24 596.3 0 24 104 20 596.3 0 20 105 17 596.3 0 17 106 26 596.3 0 26 107 23 596.3 0 23 108 22 596.3 0 22 109 11 596.3 0 11 110 16 596.3 0 16 111 26 596.3 0 26 112 38 596.3 0 38 113 37 596.3 0 37 114 55 596.3 0 55 115 61 596.3 0 61 116 478 596.3 0 478 117 476 596.3 0 476 118 700 596.3 0 700 119 114 596.3 0 114 120 58 596.3 0 58 121 77 596.3 0 77 122 84 596.3 0 84 123 119 596.3 0 119 124 137 596.3 0 137 125 201 596.3 0 201 126 188 596.3 0 188 127 58 596.3 0 58 128 50 596.3 0 50 129 50 596.3 0 50 130 268 596.3 0 268 131 568 596.3 0 568 132 550 596.3 0 550 133 92 596.3 0 92 134 50 596.3 0 50 135 54 596.3 0 54 136 45 596.3 0 45 137 97 596.3 0 97 138 70 596.3 0 70 139 116 596.3 0 116 140 269 596.3 0 269 141 578 596.3 0 578 142 158 596.3 0 158 143 120 596.3 0 120 144 96 596.3 0 96 145 207 596.3 0 207 146 186 596.3 0 186 147 199 596.3 0 199 148 146 596.3 0 146 149 244 596.3 0 244 150 2104 596.3 0 2104 151 1773 596.3 0 1773 152 1492 596.3 0 1492 153 81 596.3 0 81 154 59 596.3 0 59 155 62 596.3 0 62 156 38 596.3 0 38 157 49 596.3 0 49 158 64 596.3 0 64 159 42 596.3 0 42 160 35 596.3 0 35 161 37 596.3 0 37 162 48 596.3 0 48 163 49 596.3 0 49 164 35 596.3 0 35 165 74 596.3 0 74 166 88 596.3 0 88 167 132 596.3 0 132 168 89 596.3 0 89 169 101 596.3 0 101 170 122 596.3 0 122 171 325 596.3 0 325 172 370 596.3 0 370 173 190 596.3 0 190 174 85 596.3 0 85 175 40 596.3 0 40 176 49 596.3 0 49 177 42 596.3 0 42 178 42 596.3 0 42 179 46 596.3 0 46 180 44 596.3 0 44 181 38 596.3 0 38 182 57 596.3 0 57 183 55 596.3 0 55 184 80 596.3 0 80 185 87 596.3 0 87 186 208 596.3 0 208 187 113 596.3 0 113 188 107 596.3 0 107 189 175 596.3 0 175 190 60 596.3 0 60 191 50 596.3 0 50 192 52 596.3 0 52 193 62 596.3 0 62 194 63 596.3 0 63 195 50 596.3 0 50 196 43 596.3 0 43 197 48 596.3 0 48 198 58 596.3 0 58 199 64 596.3 0 64 200 59 596.3 0 59 201 40 596.3 0 40 202 45 596.3 0 45 203 56 596.3 0 56 204 47 596.3 0 47 205 66 596.3 0 66 206 56 596.3 0 56 207 57 596.3 0 57 208 55 596.3 0 55 209 108 596.3 0 108 210 90 596.3 0 90 211 64 596.3 0 64 212 64 596.3 0 64 213 80 596.3 0 80 214 62 596.3 0 62 215 69 596.3 0 69 216 68 596.3 0 68 217 98 596.3 0 98 218 368 596.3 0 368 219 191 596.3 0 191 220 65 596.3 0 65 221 104 596.3 0 104 222 130 596.3 0 130 223 168 596.3 0 168 224 130 596.3 0 130 225 207 596.3 0 207 226 857 596.3 0 857 227 1088 596.3 0 1088 228 862 596.3 0 862 229 249 596.3 0 249 230 123 596.3 0 123 231 85 596.3 0 85 232 64 596.3 0 64 233 67 596.3 0 67 234 68 596.3 0 68 235 36 596.3 0 36 236 51 596.3 0 51 237 45 596.3 0 45 238 60 596.3 0 60 239 79 596.3 0 79 240 71 596.3 0 71 241 106 596.3 0 106 242 79 596.3 0 79 243 86 596.3 0 86 244 60 596.3 0 60 245 83 596.3 0 83 246 131 596.3 0 131 247 199 596.3 0 199 248 163 596.3 0 163 249 121 596.3 0 121 250 102 596.3 0 102 251 119 596.3 0 119 252 115 596.3 0 115 253 105 596.3 0 105 254 77 596.3 0 77 255 116 596.3 0 116 256 113 596.3 0 113 257 82 596.3 0 82 258 74 596.3 0 74 259 91 596.3 0 91 260 101 596.3 0 101 261 114 596.3 0 114 262 98 596.3 0 98 263 104 596.3 0 104 264 105 596.3 0 105 265 110 596.3 0 110 266 110 596.3 0 110 267 78 596.3 0 78 268 112 596.3 0 112 269 83 596.3 0 83 270 64 596.3 0 64 271 64 596.3 0 64 272 89 596.3 0 89 273 98 596.3 0 98 274 233 596.3 0 233 275 258 596.3 0 258 276 254 596.3 0 254 277 210 596.3 0 210 278 115 596.3 0 115 279 181 596.3 0 181 280 179 596.3 0 179 281 301 596.3 0 301 282 101 596.3 0 101 283 118 596.3 0 118 284 87 596.3 0 87 285 221 596.3 0 221 286 96 596.3 0 96 287 162 596.3 0 162 288 121 596.3 0 121 289 118 596.3 0 118 290 169 596.3 0 169 291 179 596.3 0 179 292 227 596.3 0 227 293 162 596.3 0 162 294 118 596.3 0 118 295 89 596.3 0 89 296 96 596.3 0 96 297 94 596.3 0 94 298 168 596.3 0 168 299 217 596.3 0 217 300 250 596.3 0 250 301 132 596.3 0 132 Finished in 10.99 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 263,857 Reads with adapters: 9,890 (3.7%) Reads that were too short: 47 (0.0%) Reads written (passing filters): 9,843 (3.7%) Total basepairs processed: 58,904,103 bp Total written (filtered): 2,673,016 bp (4.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9890 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 5 0.0 3 0 0 4 0 1 19 98 0.0 3 0 79 13 5 1 20 7399 0.0 4 6934 381 61 16 7 21 52 0.0 4 9 38 0 3 2 22 2118 0.0 4 1993 101 18 5 1 23 40 0.0 4 0 5 0 25 10 24 4 0.0 4 0 0 2 0 2 25 10 0.0 4 0 0 0 7 3 26 1 0.0 4 1 33 1 0.0 4 0 0 0 0 1 35 3 0.0 4 0 0 0 0 3 42 1 0.0 4 0 0 0 0 1 43 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 69 2 0.0 4 0 0 0 0 2 71 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 95 6 0.0 4 0 0 0 0 6 96 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 99 2 0.0 4 0 0 0 0 2 106 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 117 3 0.0 4 0 0 0 0 3 118 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 97 0.0 4 0 0 0 0 97 130 2 0.0 4 0 0 0 0 2 147 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 166 2 0.0 4 0 0 0 0 2 174 1 0.0 4 0 0 0 0 1 183 2 0.0 4 0 0 0 0 2 190 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 1 207 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 237 1 0.0 4 0 0 0 0 1 238 1 0.0 4 0 0 0 0 1 255 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 263 2 0.0 4 0 0 0 0 2 264 1 0.0 4 0 0 0 0 1 283 2 0.0 4 0 0 0 0 2 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 0.35 s (36 us/read; 1.69 M reads/minute). === Summary === Total reads processed: 9,843 Reads with adapters: 2,018 (20.5%) Reads written (passing filters): 9,843 (100.0%) Total basepairs processed: 2,673,016 bp Total written (filtered): 2,647,908 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2018 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.1% C: 9.1% G: 83.3% T: 2.6% 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 11 153.8 0 11 4 2 38.4 0 2 9 65 0.0 0 5 60 10 491 0.0 1 40 451 11 1368 0.0 1 52 1316 12 9 0.0 1 0 9 13 3 0.0 1 1 2 14 2 0.0 1 0 2 18 2 0.0 1 2 19 43 0.0 1 30 13 20 3 0.0 1 3 23 1 0.0 1 1 68 1 0.0 1 1 115 3 0.0 1 2 1 159 1 0.0 1 1 166 1 0.0 1 1 209 6 0.0 1 4 2 223 3 0.0 1 3 224 1 0.0 1 1 264 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.