This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGACCG -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 92.66 s (30 us/read; 2.00 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 46,112 (1.5%) Reads that were too short: 25,393 (0.8%) Reads written (passing filters): 20,719 (0.7%) Total basepairs processed: 931,490,553 bp Total written (filtered): 4,703,856 bp (0.5%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 46112 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 94 755.5 0 94 7 165 755.5 0 165 8 233 755.5 0 233 9 9949 755.5 0 9949 10 34 755.5 0 34 11 7 755.5 0 7 12 72 755.5 0 72 13 17 755.5 0 17 14 5 755.5 0 5 15 5 755.5 0 5 16 7 755.5 0 7 17 10 755.5 0 10 18 9 755.5 0 9 19 3 755.5 0 3 20 7 755.5 0 7 21 8 755.5 0 8 22 3 755.5 0 3 23 5 755.5 0 5 24 8 755.5 0 8 25 6 755.5 0 6 26 2 755.5 0 2 27 7 755.5 0 7 28 1 755.5 0 1 29 13 755.5 0 13 30 18 755.5 0 18 31 4 755.5 0 4 32 2 755.5 0 2 33 9 755.5 0 9 34 10 755.5 0 10 35 6 755.5 0 6 36 8 755.5 0 8 37 4 755.5 0 4 38 3 755.5 0 3 39 7 755.5 0 7 40 5 755.5 0 5 41 5 755.5 0 5 42 7 755.5 0 7 43 8 755.5 0 8 44 7 755.5 0 7 45 11 755.5 0 11 46 7 755.5 0 7 47 5 755.5 0 5 48 11 755.5 0 11 49 5 755.5 0 5 50 11 755.5 0 11 51 4 755.5 0 4 52 5 755.5 0 5 53 6 755.5 0 6 54 11 755.5 0 11 55 14 755.5 0 14 56 21 755.5 0 21 57 9 755.5 0 9 58 13 755.5 0 13 59 11 755.5 0 11 60 6 755.5 0 6 61 10 755.5 0 10 62 7 755.5 0 7 63 4 755.5 0 4 64 18 755.5 0 18 65 1 755.5 0 1 66 6 755.5 0 6 67 6 755.5 0 6 68 8 755.5 0 8 69 9 755.5 0 9 70 8 755.5 0 8 71 63 755.5 0 63 72 20 755.5 0 20 73 20 755.5 0 20 74 239 755.5 0 239 75 55 755.5 0 55 76 27 755.5 0 27 77 30 755.5 0 30 78 44 755.5 0 44 79 174 755.5 0 174 80 84 755.5 0 84 81 105 755.5 0 105 82 269 755.5 0 269 83 283 755.5 0 283 84 212 755.5 0 212 85 51 755.5 0 51 86 76 755.5 0 76 87 55 755.5 0 55 88 58 755.5 0 58 89 62 755.5 0 62 90 23 755.5 0 23 91 41 755.5 0 41 92 20 755.5 0 20 93 65 755.5 0 65 94 24 755.5 0 24 95 16 755.5 0 16 96 16 755.5 0 16 97 19 755.5 0 19 98 8 755.5 0 8 99 19 755.5 0 19 100 11 755.5 0 11 101 25 755.5 0 25 102 13 755.5 0 13 103 11 755.5 0 11 104 23 755.5 0 23 105 11 755.5 0 11 106 11 755.5 0 11 107 15 755.5 0 15 108 18 755.5 0 18 109 14 755.5 0 14 110 19 755.5 0 19 111 21 755.5 0 21 112 7 755.5 0 7 113 22 755.5 0 22 114 11 755.5 0 11 115 19 755.5 0 19 116 9 755.5 0 9 117 58 755.5 0 58 118 38 755.5 0 38 119 102 755.5 0 102 120 42 755.5 0 42 121 140 755.5 0 140 122 62 755.5 0 62 123 85 755.5 0 85 124 102 755.5 0 102 125 57 755.5 0 57 126 35 755.5 0 35 127 41 755.5 0 41 128 34 755.5 0 34 129 37 755.5 0 37 130 24 755.5 0 24 131 41 755.5 0 41 132 81 755.5 0 81 133 56 755.5 0 56 134 59 755.5 0 59 135 45 755.5 0 45 136 48 755.5 0 48 137 65 755.5 0 65 138 58 755.5 0 58 139 54 755.5 0 54 140 31 755.5 0 31 141 32 755.5 0 32 142 27 755.5 0 27 143 67 755.5 0 67 144 73 755.5 0 73 145 78 755.5 0 78 146 174 755.5 0 174 147 58 755.5 0 58 148 81 755.5 0 81 149 25 755.5 0 25 150 34 755.5 0 34 151 36 755.5 0 36 152 49 755.5 0 49 153 74 755.5 0 74 154 100 755.5 0 100 155 62 755.5 0 62 156 62 755.5 0 62 157 60 755.5 0 60 158 64 755.5 0 64 159 53 755.5 0 53 160 44 755.5 0 44 161 44 755.5 0 44 162 31 755.5 0 31 163 72 755.5 0 72 164 97 755.5 0 97 165 85 755.5 0 85 166 61 755.5 0 61 167 407 755.5 0 407 168 168 755.5 0 168 169 465 755.5 0 465 170 58 755.5 0 58 171 125 755.5 0 125 172 165 755.5 0 165 173 49 755.5 0 49 174 55 755.5 0 55 175 22 755.5 0 22 176 27 755.5 0 27 177 43 755.5 0 43 178 58 755.5 0 58 179 80 755.5 0 80 180 88 755.5 0 88 181 68 755.5 0 68 182 67 755.5 0 67 183 66 755.5 0 66 184 81 755.5 0 81 185 41 755.5 0 41 186 30 755.5 0 30 187 48 755.5 0 48 188 79 755.5 0 79 189 282 755.5 0 282 190 172 755.5 0 172 191 82 755.5 0 82 192 39 755.5 0 39 193 22 755.5 0 22 194 20 755.5 0 20 195 36 755.5 0 36 196 121 755.5 0 121 197 50 755.5 0 50 198 66 755.5 0 66 199 68 755.5 0 68 200 224 755.5 0 224 201 771 755.5 0 771 202 557 755.5 0 557 203 61 755.5 0 61 204 82 755.5 0 82 205 33 755.5 0 33 206 45 755.5 0 45 207 39 755.5 0 39 208 82 755.5 0 82 209 55 755.5 0 55 210 49 755.5 0 49 211 45 755.5 0 45 212 54 755.5 0 54 213 65 755.5 0 65 214 46 755.5 0 46 215 151 755.5 0 151 216 131 755.5 0 131 217 106 755.5 0 106 218 68 755.5 0 68 219 29 755.5 0 29 220 44 755.5 0 44 221 68 755.5 0 68 222 126 755.5 0 126 223 147 755.5 0 147 224 175 755.5 0 175 225 132 755.5 0 132 226 191 755.5 0 191 227 1106 755.5 0 1106 228 2696 755.5 0 2696 229 690 755.5 0 690 230 1679 755.5 0 1679 231 78 755.5 0 78 232 56 755.5 0 56 233 42 755.5 0 42 234 45 755.5 0 45 235 24 755.5 0 24 236 38 755.5 0 38 237 26 755.5 0 26 238 75 755.5 0 75 239 47 755.5 0 47 240 64 755.5 0 64 241 56 755.5 0 56 242 67 755.5 0 67 243 206 755.5 0 206 244 161 755.5 0 161 245 126 755.5 0 126 246 20 755.5 0 20 247 65 755.5 0 65 248 156 755.5 0 156 249 74 755.5 0 74 250 225 755.5 0 225 251 168 755.5 0 168 252 171 755.5 0 171 253 229 755.5 0 229 254 255 755.5 0 255 255 101 755.5 0 101 256 108 755.5 0 108 257 127 755.5 0 127 258 206 755.5 0 206 259 74 755.5 0 74 260 70 755.5 0 70 261 303 755.5 0 303 262 1186 755.5 0 1186 263 6874 755.5 0 6874 264 536 755.5 0 536 265 140 755.5 0 140 266 59 755.5 0 59 267 20 755.5 0 20 268 86 755.5 0 86 269 183 755.5 0 183 270 606 755.5 0 606 271 279 755.5 0 279 272 72 755.5 0 72 273 40 755.5 0 40 274 28 755.5 0 28 275 43 755.5 0 43 276 64 755.5 0 64 277 87 755.5 0 87 278 120 755.5 0 120 279 50 755.5 0 50 280 38 755.5 0 38 281 38 755.5 0 38 282 82 755.5 0 82 283 174 755.5 0 174 284 112 755.5 0 112 285 56 755.5 0 56 286 65 755.5 0 65 287 56 755.5 0 56 288 33 755.5 0 33 289 57 755.5 0 57 290 78 755.5 0 78 291 159 755.5 0 159 292 271 755.5 0 271 293 99 755.5 0 99 294 152 755.5 0 152 295 26 755.5 0 26 296 25 755.5 0 25 297 52 755.5 0 52 298 118 755.5 0 118 299 259 755.5 0 259 300 714 755.5 0 714 301 41 755.5 0 41 Finished in 0.98 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 20,719 Reads with adapters: 10,386 (50.1%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 10,378 (50.1%) Total basepairs processed: 4,703,856 bp Total written (filtered): 2,823,452 bp (60.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10386 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 4 0.0 3 0 0 3 1 19 101 0.0 3 0 97 3 1 20 10242 0.0 4 10010 197 25 9 1 21 25 0.0 4 6 19 23 4 0.0 4 0 0 0 4 25 1 0.0 4 1 26 1 0.0 4 0 0 0 0 1 47 2 0.0 4 0 0 0 0 2 73 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 132 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 0.41 s (40 us/read; 1.52 M reads/minute). === Summary === Total reads processed: 10,378 Reads with adapters: 4,480 (43.2%) Reads written (passing filters): 10,378 (100.0%) Total basepairs processed: 2,823,452 bp Total written (filtered): 1,721,871 bp (61.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4480 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.6% C: 93.1% G: 6.1% T: 0.2% 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 9 97 0.0 0 7 90 10 117 0.0 1 1 116 11 88 0.0 1 1 87 13 2 0.0 1 0 2 258 2 0.0 1 2 259 1 0.0 1 1 260 1 0.0 1 1 261 1 0.0 1 1 262 18 0.0 1 17 1 263 3959 0.0 1 3596 363 264 123 0.0 1 114 9 265 45 0.0 1 40 5 266 24 0.0 1 22 2 267 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.