This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 57.13 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 319,358 (14.6%) Reads that were too short: 16,564 (0.8%) Reads written (passing filters): 302,794 (13.8%) Total basepairs processed: 659,880,795 bp Total written (filtered): 75,758,094 bp (11.5%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 319358 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 274 535.2 0 274 7 3984 535.2 0 3984 8 4122 535.2 0 4122 9 201 535.2 0 201 10 237 535.2 0 237 11 124 535.2 0 124 12 171 535.2 0 171 13 280 535.2 0 280 14 340 535.2 0 340 15 278 535.2 0 278 16 252 535.2 0 252 17 436 535.2 0 436 18 449 535.2 0 449 19 776 535.2 0 776 20 14031 535.2 0 14031 21 23281 535.2 0 23281 22 24998 535.2 0 24998 23 290 535.2 0 290 24 188 535.2 0 188 25 312 535.2 0 312 26 171 535.2 0 171 27 160 535.2 0 160 28 120 535.2 0 120 29 173 535.2 0 173 30 92 535.2 0 92 31 153 535.2 0 153 32 231 535.2 0 231 33 275 535.2 0 275 34 318 535.2 0 318 35 597 535.2 0 597 36 1359 535.2 0 1359 37 361 535.2 0 361 38 413 535.2 0 413 39 875 535.2 0 875 40 401 535.2 0 401 41 490 535.2 0 490 42 833 535.2 0 833 43 924 535.2 0 924 44 930 535.2 0 930 45 834 535.2 0 834 46 1303 535.2 0 1303 47 1352 535.2 0 1352 48 2243 535.2 0 2243 49 43150 535.2 0 43150 50 75549 535.2 0 75549 51 71047 535.2 0 71047 52 258 535.2 0 258 53 60 535.2 0 60 54 60 535.2 0 60 55 37 535.2 0 37 56 56 535.2 0 56 57 64 535.2 0 64 58 68 535.2 0 68 59 67 535.2 0 67 60 74 535.2 0 74 61 78 535.2 0 78 62 80 535.2 0 80 63 155 535.2 0 155 64 172 535.2 0 172 65 265 535.2 0 265 66 53 535.2 0 53 67 50 535.2 0 50 68 49 535.2 0 49 69 42 535.2 0 42 70 53 535.2 0 53 71 53 535.2 0 53 72 48 535.2 0 48 73 59 535.2 0 59 74 53 535.2 0 53 75 51 535.2 0 51 76 45 535.2 0 45 77 42 535.2 0 42 78 63 535.2 0 63 79 69 535.2 0 69 80 50 535.2 0 50 81 53 535.2 0 53 82 58 535.2 0 58 83 53 535.2 0 53 84 60 535.2 0 60 85 46 535.2 0 46 86 70 535.2 0 70 87 53 535.2 0 53 88 59 535.2 0 59 89 56 535.2 0 56 90 71 535.2 0 71 91 50 535.2 0 50 92 39 535.2 0 39 93 75 535.2 0 75 94 36 535.2 0 36 95 45 535.2 0 45 96 38 535.2 0 38 97 35 535.2 0 35 98 89 535.2 0 89 99 37 535.2 0 37 100 38 535.2 0 38 101 44 535.2 0 44 102 45 535.2 0 45 103 33 535.2 0 33 104 44 535.2 0 44 105 35 535.2 0 35 106 76 535.2 0 76 107 44 535.2 0 44 108 35 535.2 0 35 109 47 535.2 0 47 110 48 535.2 0 48 111 54 535.2 0 54 112 64 535.2 0 64 113 70 535.2 0 70 114 39 535.2 0 39 115 71 535.2 0 71 116 50 535.2 0 50 117 105 535.2 0 105 118 95 535.2 0 95 119 155 535.2 0 155 120 60 535.2 0 60 121 45 535.2 0 45 122 55 535.2 0 55 123 52 535.2 0 52 124 82 535.2 0 82 125 70 535.2 0 70 126 132 535.2 0 132 127 64 535.2 0 64 128 65 535.2 0 65 129 52 535.2 0 52 130 75 535.2 0 75 131 90 535.2 0 90 132 58 535.2 0 58 133 43 535.2 0 43 134 56 535.2 0 56 135 56 535.2 0 56 136 53 535.2 0 53 137 52 535.2 0 52 138 79 535.2 0 79 139 62 535.2 0 62 140 51 535.2 0 51 141 78 535.2 0 78 142 73 535.2 0 73 143 71 535.2 0 71 144 80 535.2 0 80 145 71 535.2 0 71 146 70 535.2 0 70 147 77 535.2 0 77 148 73 535.2 0 73 149 81 535.2 0 81 150 61 535.2 0 61 151 62 535.2 0 62 152 69 535.2 0 69 153 72 535.2 0 72 154 69 535.2 0 69 155 65 535.2 0 65 156 77 535.2 0 77 157 63 535.2 0 63 158 65 535.2 0 65 159 61 535.2 0 61 160 80 535.2 0 80 161 63 535.2 0 63 162 68 535.2 0 68 163 39 535.2 0 39 164 60 535.2 0 60 165 74 535.2 0 74 166 66 535.2 0 66 167 61 535.2 0 61 168 59 535.2 0 59 169 60 535.2 0 60 170 81 535.2 0 81 171 77 535.2 0 77 172 55 535.2 0 55 173 77 535.2 0 77 174 65 535.2 0 65 175 100 535.2 0 100 176 97 535.2 0 97 177 80 535.2 0 80 178 101 535.2 0 101 179 90 535.2 0 90 180 171 535.2 0 171 181 163 535.2 0 163 182 2292 535.2 0 2292 183 1279 535.2 0 1279 184 1641 535.2 0 1641 185 123 535.2 0 123 186 83 535.2 0 83 187 69 535.2 0 69 188 129 535.2 0 129 189 107 535.2 0 107 190 161 535.2 0 161 191 126 535.2 0 126 192 139 535.2 0 139 193 1193 535.2 0 1193 194 1286 535.2 0 1286 195 1867 535.2 0 1867 196 1093 535.2 0 1093 197 2139 535.2 0 2139 198 511 535.2 0 511 199 60 535.2 0 60 200 92 535.2 0 92 201 60 535.2 0 60 202 70 535.2 0 70 203 79 535.2 0 79 204 114 535.2 0 114 205 71 535.2 0 71 206 97 535.2 0 97 207 129 535.2 0 129 208 105 535.2 0 105 209 47 535.2 0 47 210 61 535.2 0 61 211 77 535.2 0 77 212 58 535.2 0 58 213 152 535.2 0 152 214 277 535.2 0 277 215 421 535.2 0 421 216 364 535.2 0 364 217 121 535.2 0 121 218 126 535.2 0 126 219 174 535.2 0 174 220 177 535.2 0 177 221 164 535.2 0 164 222 169 535.2 0 169 223 109 535.2 0 109 224 70 535.2 0 70 225 70 535.2 0 70 226 52 535.2 0 52 227 85 535.2 0 85 228 82 535.2 0 82 229 66 535.2 0 66 230 85 535.2 0 85 231 68 535.2 0 68 232 90 535.2 0 90 233 80 535.2 0 80 234 108 535.2 0 108 235 65 535.2 0 65 236 206 535.2 0 206 237 93 535.2 0 93 238 118 535.2 0 118 239 242 535.2 0 242 240 648 535.2 0 648 241 407 535.2 0 407 242 130 535.2 0 130 243 55 535.2 0 55 244 57 535.2 0 57 245 66 535.2 0 66 246 64 535.2 0 64 247 86 535.2 0 86 248 77 535.2 0 77 249 111 535.2 0 111 250 243 535.2 0 243 251 445 535.2 0 445 252 570 535.2 0 570 253 225 535.2 0 225 254 56 535.2 0 56 255 98 535.2 0 98 256 79 535.2 0 79 257 98 535.2 0 98 258 110 535.2 0 110 259 228 535.2 0 228 260 385 535.2 0 385 261 390 535.2 0 390 262 87 535.2 0 87 263 260 535.2 0 260 264 410 535.2 0 410 265 457 535.2 0 457 266 142 535.2 0 142 267 183 535.2 0 183 268 100 535.2 0 100 269 113 535.2 0 113 270 106 535.2 0 106 271 83 535.2 0 83 272 103 535.2 0 103 273 69 535.2 0 69 274 72 535.2 0 72 275 80 535.2 0 80 276 79 535.2 0 79 277 73 535.2 0 73 278 81 535.2 0 81 279 67 535.2 0 67 280 68 535.2 0 68 281 75 535.2 0 75 282 85 535.2 0 85 283 98 535.2 0 98 284 114 535.2 0 114 285 118 535.2 0 118 286 82 535.2 0 82 287 96 535.2 0 96 288 696 535.2 0 696 289 999 535.2 0 999 290 924 535.2 0 924 291 156 535.2 0 156 292 57 535.2 0 57 293 103 535.2 0 103 294 99 535.2 0 99 295 80 535.2 0 80 296 96 535.2 0 96 297 64 535.2 0 64 298 86 535.2 0 86 299 98 535.2 0 98 300 265 535.2 0 265 301 170 535.2 0 170 Finished in 14.19 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 302,794 Reads with adapters: 8,655 (2.9%) Reads that were too short: 65 (0.0%) Reads written (passing filters): 8,590 (2.8%) Total basepairs processed: 75,758,094 bp Total written (filtered): 1,873,835 bp (2.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8655 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 17 1 0.0 3 0 0 0 1 18 3 0.0 3 0 0 3 19 61 0.0 3 0 61 20 4090 0.0 4 4031 58 1 21 5 0.0 4 2 3 22 1 0.0 4 1 23 4 0.0 4 0 0 0 3 1 34 1 0.0 4 1 50 1 0.0 4 0 0 0 0 1 79 1 0.0 4 1 80 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 83 6 0.0 4 0 0 0 0 6 84 6 0.0 4 0 0 0 0 6 85 3827 0.0 4 0 0 0 0 3827 88 3 0.0 4 0 0 0 0 3 90 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 110 1 0.0 4 1 111 2 0.0 4 0 0 0 0 2 113 2 0.0 4 0 0 0 0 2 114 563 0.0 4 0 0 0 0 563 116 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 128 1 0.0 4 1 139 2 0.0 4 0 0 0 0 2 140 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 172 3 0.0 4 0 1 0 0 2 174 1 0.0 4 0 0 1 183 1 0.0 4 0 0 0 0 1 186 13 0.0 4 0 0 0 0 13 187 1 0.0 4 0 0 0 0 1 189 1 0.0 4 0 0 0 0 1 190 3 0.0 4 0 1 0 0 2 194 1 0.0 4 0 0 0 0 1 199 2 0.0 4 0 1 0 0 1 215 2 0.0 4 0 0 0 0 2 216 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 1 220 1 0.0 4 0 0 0 0 1 221 2 0.0 4 0 0 0 0 2 223 2 0.0 4 0 0 0 0 2 224 1 0.0 4 0 0 0 0 1 226 2 0.0 4 0 0 0 0 2 240 3 0.0 4 0 0 0 0 3 241 1 0.0 4 0 0 0 0 1 243 2 0.0 4 0 0 0 0 2 244 2 0.0 4 0 0 0 0 2 245 2 0.0 4 0 0 0 0 2 246 5 0.0 4 0 0 0 0 5 248 1 0.0 4 0 0 0 0 1 249 3 0.0 4 0 0 1 0 2 250 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 252 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 269 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 0.27 s (31 us/read; 1.91 M reads/minute). === Summary === Total reads processed: 8,590 Reads with adapters: 435 (5.1%) Reads written (passing filters): 8,590 (100.0%) Total basepairs processed: 1,873,835 bp Total written (filtered): 1,869,344 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 435 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.0% C: 1.4% G: 88.7% T: 1.8% 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 16 134.2 0 16 4 15 33.6 0 15 5 7 8.4 0 7 9 1 0.0 0 0 1 10 18 0.0 1 0 18 11 377 0.0 1 1 376 12 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.