This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -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 176.34 s (49 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 268,957 (7.4%) Reads that were too short: 197,991 (5.4%) Reads written (passing filters): 70,966 (2.0%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 15,519,314 bp (1.4%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 268957 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2607 887.3 0 2607 7 2424 887.3 0 2424 8 2097 887.3 0 2097 9 68 887.3 0 68 10 144 887.3 0 144 11 27 887.3 0 27 12 39 887.3 0 39 13 38 887.3 0 38 14 45 887.3 0 45 15 30 887.3 0 30 16 31 887.3 0 31 17 61 887.3 0 61 18 27 887.3 0 27 19 28 887.3 0 28 20 42 887.3 0 42 21 56 887.3 0 56 22 23 887.3 0 23 23 24 887.3 0 24 24 35 887.3 0 35 25 35 887.3 0 35 26 20 887.3 0 20 27 22 887.3 0 22 28 25 887.3 0 25 29 36 887.3 0 36 30 48 887.3 0 48 31 26 887.3 0 26 32 32 887.3 0 32 33 24 887.3 0 24 34 22 887.3 0 22 35 34 887.3 0 34 36 28 887.3 0 28 37 35 887.3 0 35 38 22 887.3 0 22 39 31 887.3 0 31 40 35 887.3 0 35 41 26 887.3 0 26 42 29 887.3 0 29 43 34 887.3 0 34 44 36 887.3 0 36 45 22 887.3 0 22 46 35 887.3 0 35 47 73 887.3 0 73 48 72 887.3 0 72 49 53 887.3 0 53 50 50 887.3 0 50 51 109 887.3 0 109 52 63 887.3 0 63 53 29 887.3 0 29 54 44 887.3 0 44 55 81 887.3 0 81 56 59 887.3 0 59 57 38 887.3 0 38 58 50 887.3 0 50 59 68 887.3 0 68 60 62 887.3 0 62 61 76 887.3 0 76 62 209 887.3 0 209 63 94 887.3 0 94 64 113 887.3 0 113 65 146 887.3 0 146 66 81 887.3 0 81 67 65 887.3 0 65 68 143 887.3 0 143 69 196 887.3 0 196 70 269 887.3 0 269 71 251 887.3 0 251 72 394 887.3 0 394 73 637 887.3 0 637 74 1258 887.3 0 1258 75 22480 887.3 0 22480 76 13737 887.3 0 13737 77 9413 887.3 0 9413 78 58 887.3 0 58 79 38 887.3 0 38 80 50 887.3 0 50 81 33 887.3 0 33 82 34 887.3 0 34 83 32 887.3 0 32 84 35 887.3 0 35 85 45 887.3 0 45 86 39 887.3 0 39 87 42 887.3 0 42 88 89 887.3 0 89 89 43 887.3 0 43 90 86 887.3 0 86 91 70 887.3 0 70 92 61 887.3 0 61 93 23 887.3 0 23 94 21 887.3 0 21 95 68 887.3 0 68 96 30 887.3 0 30 97 15 887.3 0 15 98 30 887.3 0 30 99 21 887.3 0 21 100 13 887.3 0 13 101 28 887.3 0 28 102 35 887.3 0 35 103 25 887.3 0 25 104 33 887.3 0 33 105 35 887.3 0 35 106 33 887.3 0 33 107 28 887.3 0 28 108 23 887.3 0 23 109 41 887.3 0 41 110 27 887.3 0 27 111 19 887.3 0 19 112 26 887.3 0 26 113 26 887.3 0 26 114 19 887.3 0 19 115 38 887.3 0 38 116 32 887.3 0 32 117 43 887.3 0 43 118 35 887.3 0 35 119 63 887.3 0 63 120 68 887.3 0 68 121 100 887.3 0 100 122 35 887.3 0 35 123 40 887.3 0 40 124 37 887.3 0 37 125 116 887.3 0 116 126 166 887.3 0 166 127 176 887.3 0 176 128 91 887.3 0 91 129 58 887.3 0 58 130 75 887.3 0 75 131 51 887.3 0 51 132 49 887.3 0 49 133 53 887.3 0 53 134 80 887.3 0 80 135 164 887.3 0 164 136 142 887.3 0 142 137 111 887.3 0 111 138 66 887.3 0 66 139 124 887.3 0 124 140 57 887.3 0 57 141 40 887.3 0 40 142 90 887.3 0 90 143 208 887.3 0 208 144 102 887.3 0 102 145 59 887.3 0 59 146 35 887.3 0 35 147 32 887.3 0 32 148 43 887.3 0 43 149 32 887.3 0 32 150 38 887.3 0 38 151 39 887.3 0 39 152 27 887.3 0 27 153 21 887.3 0 21 154 27 887.3 0 27 155 39 887.3 0 39 156 44 887.3 0 44 157 43 887.3 0 43 158 37 887.3 0 37 159 28 887.3 0 28 160 33 887.3 0 33 161 93 887.3 0 93 162 75 887.3 0 75 163 113 887.3 0 113 164 49 887.3 0 49 165 77 887.3 0 77 166 163 887.3 0 163 167 196 887.3 0 196 168 203 887.3 0 203 169 82 887.3 0 82 170 28 887.3 0 28 171 36 887.3 0 36 172 34 887.3 0 34 173 32 887.3 0 32 174 42 887.3 0 42 175 17 887.3 0 17 176 32 887.3 0 32 177 47 887.3 0 47 178 50 887.3 0 50 179 47 887.3 0 47 180 74 887.3 0 74 181 102 887.3 0 102 182 105 887.3 0 105 183 119 887.3 0 119 184 88 887.3 0 88 185 73 887.3 0 73 186 242 887.3 0 242 187 231 887.3 0 231 188 289 887.3 0 289 189 147 887.3 0 147 190 91 887.3 0 91 191 77 887.3 0 77 192 127 887.3 0 127 193 629 887.3 0 629 194 449 887.3 0 449 195 357 887.3 0 357 196 181 887.3 0 181 197 1208 887.3 0 1208 198 826 887.3 0 826 199 534 887.3 0 534 200 91 887.3 0 91 201 133 887.3 0 133 202 72 887.3 0 72 203 131 887.3 0 131 204 226 887.3 0 226 205 345 887.3 0 345 206 70 887.3 0 70 207 58 887.3 0 58 208 88 887.3 0 88 209 92 887.3 0 92 210 126 887.3 0 126 211 191 887.3 0 191 212 100 887.3 0 100 213 170 887.3 0 170 214 207 887.3 0 207 215 213 887.3 0 213 216 160 887.3 0 160 217 421 887.3 0 421 218 532 887.3 0 532 219 439 887.3 0 439 220 268 887.3 0 268 221 189 887.3 0 189 222 126 887.3 0 126 223 552 887.3 0 552 224 549 887.3 0 549 225 660 887.3 0 660 226 220 887.3 0 220 227 278 887.3 0 278 228 230 887.3 0 230 229 248 887.3 0 248 230 359 887.3 0 359 231 197 887.3 0 197 232 226 887.3 0 226 233 375 887.3 0 375 234 482 887.3 0 482 235 830 887.3 0 830 236 1178 887.3 0 1178 237 1136 887.3 0 1136 238 13596 887.3 0 13596 239 24994 887.3 0 24994 240 20443 887.3 0 20443 241 384 887.3 0 384 242 376 887.3 0 376 243 468 887.3 0 468 244 472 887.3 0 472 245 670 887.3 0 670 246 996 887.3 0 996 247 1636 887.3 0 1636 248 20457 887.3 0 20457 249 36935 887.3 0 36935 250 21724 887.3 0 21724 251 15142 887.3 0 15142 252 285 887.3 0 285 253 175 887.3 0 175 254 110 887.3 0 110 255 166 887.3 0 166 256 182 887.3 0 182 257 112 887.3 0 112 258 83 887.3 0 83 259 282 887.3 0 282 260 149 887.3 0 149 261 223 887.3 0 223 262 365 887.3 0 365 263 193 887.3 0 193 264 78 887.3 0 78 265 82 887.3 0 82 266 81 887.3 0 81 267 72 887.3 0 72 268 93 887.3 0 93 269 187 887.3 0 187 270 133 887.3 0 133 271 209 887.3 0 209 272 177 887.3 0 177 273 141 887.3 0 141 274 101 887.3 0 101 275 96 887.3 0 96 276 90 887.3 0 90 277 135 887.3 0 135 278 272 887.3 0 272 279 381 887.3 0 381 280 568 887.3 0 568 281 554 887.3 0 554 282 5578 887.3 0 5578 283 4132 887.3 0 4132 284 5177 887.3 0 5177 285 422 887.3 0 422 286 354 887.3 0 354 287 386 887.3 0 386 288 194 887.3 0 194 289 156 887.3 0 156 290 143 887.3 0 143 291 177 887.3 0 177 292 217 887.3 0 217 293 192 887.3 0 192 294 503 887.3 0 503 295 1190 887.3 0 1190 296 1009 887.3 0 1009 297 612 887.3 0 612 298 389 887.3 0 389 299 470 887.3 0 470 300 453 887.3 0 453 301 425 887.3 0 425 Finished in 4.85 s (68 us/read; 0.88 M reads/minute). === Summary === Total reads processed: 70,966 Reads with adapters: 4,885 (6.9%) Reads that were too short: 39 (0.1%) Reads written (passing filters): 4,846 (6.8%) Total basepairs processed: 15,519,314 bp Total written (filtered): 1,311,204 bp (8.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4885 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 16 1 0.0 3 0 0 0 0 1 18 2 0.0 3 0 0 2 19 46 0.0 3 0 45 0 0 1 20 2202 0.0 4 2098 88 13 2 1 21 39 0.0 4 2 33 3 0 1 22 2417 0.0 4 2309 87 9 6 6 23 15 0.0 4 5 6 0 3 1 24 1 0.0 4 0 0 1 25 9 0.0 4 0 0 0 8 1 26 1 0.0 4 0 0 0 0 1 28 1 0.0 4 1 37 1 0.0 4 1 53 1 0.0 4 0 0 0 0 1 55 1 0.0 4 1 58 1 0.0 4 1 59 97 0.0 4 0 0 0 0 97 60 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 85 3 0.0 4 0 0 0 0 3 86 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 161 2 0.0 4 0 0 0 0 2 162 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 168 3 0.0 4 0 0 0 0 3 173 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 202 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 221 2 0.0 4 0 0 0 0 2 228 1 0.0 4 0 0 0 0 1 229 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 0.30 s (62 us/read; 0.97 M reads/minute). === Summary === Total reads processed: 4,846 Reads with adapters: 915 (18.9%) Reads written (passing filters): 4,846 (100.0%) Total basepairs processed: 1,311,204 bp Total written (filtered): 1,301,333 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 915 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.9% C: 7.0% G: 90.3% T: 0.9% 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 9 75.7 0 9 4 2 18.9 0 2 9 8 0.0 0 0 8 10 109 0.0 1 5 104 11 770 0.0 1 20 750 12 17 0.0 1 0 17 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.