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 168.96 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 348,506 (10.0%) Reads that were too short: 33,463 (1.0%) Reads written (passing filters): 315,043 (9.1%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 90,597,927 bp (8.7%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 348506 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4666 847.3 0 4666 7 160962 847.3 0 160962 8 3070 847.3 0 3070 9 131930 847.3 0 131930 10 381 847.3 0 381 11 31 847.3 0 31 12 43 847.3 0 43 13 60 847.3 0 60 14 14 847.3 0 14 15 17 847.3 0 17 16 38 847.3 0 38 17 13 847.3 0 13 18 25 847.3 0 25 19 15 847.3 0 15 20 7 847.3 0 7 21 27 847.3 0 27 22 21 847.3 0 21 23 30 847.3 0 30 24 15 847.3 0 15 25 22 847.3 0 22 26 19 847.3 0 19 27 14 847.3 0 14 28 12 847.3 0 12 29 33 847.3 0 33 30 29 847.3 0 29 31 21 847.3 0 21 32 30 847.3 0 30 33 14 847.3 0 14 34 16 847.3 0 16 35 13 847.3 0 13 36 19 847.3 0 19 37 26 847.3 0 26 38 19 847.3 0 19 39 16 847.3 0 16 40 21 847.3 0 21 41 23 847.3 0 23 42 19 847.3 0 19 43 20 847.3 0 20 44 19 847.3 0 19 45 23 847.3 0 23 46 14 847.3 0 14 47 25 847.3 0 25 48 26 847.3 0 26 49 23 847.3 0 23 50 18 847.3 0 18 51 15 847.3 0 15 52 24 847.3 0 24 53 27 847.3 0 27 54 33 847.3 0 33 55 83 847.3 0 83 56 81 847.3 0 81 57 34 847.3 0 34 58 15 847.3 0 15 59 46 847.3 0 46 60 30 847.3 0 30 61 46 847.3 0 46 62 28 847.3 0 28 63 25 847.3 0 25 64 30 847.3 0 30 65 33 847.3 0 33 66 28 847.3 0 28 67 37 847.3 0 37 68 17 847.3 0 17 69 45 847.3 0 45 70 47 847.3 0 47 71 54 847.3 0 54 72 46 847.3 0 46 73 64 847.3 0 64 74 138 847.3 0 138 75 139 847.3 0 139 76 207 847.3 0 207 77 57 847.3 0 57 78 28 847.3 0 28 79 69 847.3 0 69 80 93 847.3 0 93 81 165 847.3 0 165 82 304 847.3 0 304 83 368 847.3 0 368 84 398 847.3 0 398 85 70 847.3 0 70 86 85 847.3 0 85 87 59 847.3 0 59 88 42 847.3 0 42 89 90 847.3 0 90 90 49 847.3 0 49 91 24 847.3 0 24 92 30 847.3 0 30 93 33 847.3 0 33 94 24 847.3 0 24 95 24 847.3 0 24 96 42 847.3 0 42 97 25 847.3 0 25 98 27 847.3 0 27 99 18 847.3 0 18 100 28 847.3 0 28 101 21 847.3 0 21 102 40 847.3 0 40 103 39 847.3 0 39 104 30 847.3 0 30 105 37 847.3 0 37 106 25 847.3 0 25 107 29 847.3 0 29 108 21 847.3 0 21 109 27 847.3 0 27 110 24 847.3 0 24 111 37 847.3 0 37 112 40 847.3 0 40 113 49 847.3 0 49 114 36 847.3 0 36 115 45 847.3 0 45 116 22 847.3 0 22 117 30 847.3 0 30 118 37 847.3 0 37 119 47 847.3 0 47 120 51 847.3 0 51 121 141 847.3 0 141 122 155 847.3 0 155 123 196 847.3 0 196 124 61 847.3 0 61 125 78 847.3 0 78 126 123 847.3 0 123 127 81 847.3 0 81 128 57 847.3 0 57 129 44 847.3 0 44 130 35 847.3 0 35 131 42 847.3 0 42 132 38 847.3 0 38 133 53 847.3 0 53 134 45 847.3 0 45 135 54 847.3 0 54 136 27 847.3 0 27 137 36 847.3 0 36 138 109 847.3 0 109 139 59 847.3 0 59 140 202 847.3 0 202 141 248 847.3 0 248 142 40 847.3 0 40 143 44 847.3 0 44 144 57 847.3 0 57 145 44 847.3 0 44 146 31 847.3 0 31 147 45 847.3 0 45 148 43 847.3 0 43 149 35 847.3 0 35 150 44 847.3 0 44 151 51 847.3 0 51 152 87 847.3 0 87 153 56 847.3 0 56 154 50 847.3 0 50 155 57 847.3 0 57 156 46 847.3 0 46 157 44 847.3 0 44 158 33 847.3 0 33 159 42 847.3 0 42 160 45 847.3 0 45 161 30 847.3 0 30 162 57 847.3 0 57 163 78 847.3 0 78 164 65 847.3 0 65 165 79 847.3 0 79 166 72 847.3 0 72 167 182 847.3 0 182 168 495 847.3 0 495 169 1358 847.3 0 1358 170 94 847.3 0 94 171 256 847.3 0 256 172 243 847.3 0 243 173 390 847.3 0 390 174 66 847.3 0 66 175 45 847.3 0 45 176 37 847.3 0 37 177 40 847.3 0 40 178 27 847.3 0 27 179 47 847.3 0 47 180 80 847.3 0 80 181 109 847.3 0 109 182 137 847.3 0 137 183 122 847.3 0 122 184 81 847.3 0 81 185 75 847.3 0 75 186 78 847.3 0 78 187 71 847.3 0 71 188 75 847.3 0 75 189 108 847.3 0 108 190 92 847.3 0 92 191 90 847.3 0 90 192 52 847.3 0 52 193 72 847.3 0 72 194 71 847.3 0 71 195 62 847.3 0 62 196 51 847.3 0 51 197 75 847.3 0 75 198 87 847.3 0 87 199 113 847.3 0 113 200 318 847.3 0 318 201 475 847.3 0 475 202 489 847.3 0 489 203 225 847.3 0 225 204 55 847.3 0 55 205 105 847.3 0 105 206 127 847.3 0 127 207 49 847.3 0 49 208 61 847.3 0 61 209 36 847.3 0 36 210 53 847.3 0 53 211 88 847.3 0 88 212 56 847.3 0 56 213 68 847.3 0 68 214 85 847.3 0 85 215 119 847.3 0 119 216 157 847.3 0 157 217 117 847.3 0 117 218 117 847.3 0 117 219 119 847.3 0 119 220 97 847.3 0 97 221 105 847.3 0 105 222 76 847.3 0 76 223 106 847.3 0 106 224 144 847.3 0 144 225 213 847.3 0 213 226 345 847.3 0 345 227 512 847.3 0 512 228 3484 847.3 0 3484 229 3406 847.3 0 3406 230 5441 847.3 0 5441 231 420 847.3 0 420 232 126 847.3 0 126 233 55 847.3 0 55 234 55 847.3 0 55 235 58 847.3 0 58 236 69 847.3 0 69 237 62 847.3 0 62 238 77 847.3 0 77 239 84 847.3 0 84 240 84 847.3 0 84 241 61 847.3 0 61 242 56 847.3 0 56 243 111 847.3 0 111 244 114 847.3 0 114 245 124 847.3 0 124 246 217 847.3 0 217 247 228 847.3 0 228 248 207 847.3 0 207 249 138 847.3 0 138 250 118 847.3 0 118 251 75 847.3 0 75 252 85 847.3 0 85 253 72 847.3 0 72 254 157 847.3 0 157 255 127 847.3 0 127 256 444 847.3 0 444 257 432 847.3 0 432 258 383 847.3 0 383 259 153 847.3 0 153 260 158 847.3 0 158 261 897 847.3 0 897 262 1948 847.3 0 1948 263 1574 847.3 0 1574 264 885 847.3 0 885 265 519 847.3 0 519 266 133 847.3 0 133 267 221 847.3 0 221 268 651 847.3 0 651 269 753 847.3 0 753 270 495 847.3 0 495 271 174 847.3 0 174 272 141 847.3 0 141 273 119 847.3 0 119 274 116 847.3 0 116 275 166 847.3 0 166 276 115 847.3 0 115 277 71 847.3 0 71 278 63 847.3 0 63 279 64 847.3 0 64 280 100 847.3 0 100 281 209 847.3 0 209 282 219 847.3 0 219 283 199 847.3 0 199 284 72 847.3 0 72 285 102 847.3 0 102 286 116 847.3 0 116 287 216 847.3 0 216 288 238 847.3 0 238 289 120 847.3 0 120 290 71 847.3 0 71 291 81 847.3 0 81 292 231 847.3 0 231 293 421 847.3 0 421 294 265 847.3 0 265 295 103 847.3 0 103 296 51 847.3 0 51 297 73 847.3 0 73 298 72 847.3 0 72 299 124 847.3 0 124 300 254 847.3 0 254 301 416 847.3 0 416 Finished in 24.44 s (78 us/read; 0.77 M reads/minute). === Summary === Total reads processed: 315,043 Reads with adapters: 138,012 (43.8%) Reads that were too short: 70 (0.0%) Reads written (passing filters): 137,942 (43.8%) Total basepairs processed: 90,597,927 bp Total written (filtered): 37,463,265 bp (41.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 138012 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 17 13 0.0 3 0 0 0 3 10 18 85 0.0 3 0 0 58 17 10 19 1346 0.0 3 0 1146 71 95 34 20 135043 0.0 4 128431 5374 915 232 91 21 306 0.0 4 61 214 22 4 5 22 29 0.0 4 1 1 19 4 4 23 490 0.0 4 2 0 0 343 145 24 10 0.0 4 1 0 0 2 7 25 1 0.0 4 0 0 0 1 26 1 0.0 4 1 27 1 0.0 4 0 0 1 28 3 0.0 4 1 0 2 29 1 0.0 4 0 0 0 0 1 37 1 0.0 4 1 39 1 0.0 4 1 43 1 0.0 4 0 0 0 0 1 47 2 0.0 4 0 0 0 1 1 69 2 0.0 4 0 0 0 0 2 70 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 1 108 1 0.0 4 0 1 115 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 8 0.0 4 0 0 0 0 8 127 561 0.0 4 0 0 0 0 561 128 4 0.0 4 0 0 0 0 4 129 1 0.0 4 0 0 0 0 1 130 2 0.0 4 0 0 0 0 2 138 3 0.0 4 0 0 0 0 3 139 7 0.0 4 0 0 0 1 6 144 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 2 0.0 4 0 0 0 0 2 153 12 0.0 4 0 0 0 0 12 157 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 1 226 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 229 2 0.0 4 0 0 0 0 2 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 3 0.0 4 0 0 0 0 3 236 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 260 5 0.0 4 0 0 0 1 4 261 1 0.0 4 0 0 0 0 1 262 2 0.0 4 0 0 0 0 2 263 2 0.0 4 0 0 0 0 2 264 6 0.0 4 0 0 0 0 6 265 4 0.0 4 0 0 0 0 4 268 1 0.0 4 0 0 0 0 1 274 1 0.0 4 0 0 0 1 277 1 0.0 4 0 0 0 0 1 282 4 0.0 4 0 0 0 0 4 291 1 0.0 4 0 0 0 0 1 292 1 0.0 4 0 0 0 0 1 293 1 0.0 4 0 0 0 0 1 294 5 0.0 4 0 0 0 0 5 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 8.28 s (60 us/read; 1.00 M reads/minute). === Summary === Total reads processed: 137,942 Reads with adapters: 39,151 (28.4%) Reads written (passing filters): 137,942 (100.0%) Total basepairs processed: 37,463,265 bp Total written (filtered): 37,060,845 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 39151 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.5% C: 5.1% G: 91.9% T: 1.5% 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 60 2155.3 0 60 4 27 538.8 0 27 6 7 33.7 0 7 7 4 8.4 0 4 8 9 2.1 0 9 9 21341 0.5 0 1487 19854 10 13104 0.1 1 813 12291 11 4300 0.0 1 104 4196 12 105 0.0 1 4 101 13 32 0.0 1 4 28 14 4 0.0 1 0 4 35 7 0.0 1 4 3 38 1 0.0 1 1 122 1 0.0 1 1 147 2 0.0 1 1 1 150 20 0.0 1 15 5 151 1 0.0 1 1 152 2 0.0 1 2 158 1 0.0 1 1 169 1 0.0 1 1 189 3 0.0 1 1 2 190 1 0.0 1 1 208 108 0.0 1 81 27 209 5 0.0 1 3 2 210 1 0.0 1 1 223 4 0.0 1 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.