This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -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 189.46 s (55 us/read; 1.10 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 1,732,952 (49.9%) Reads that were too short: 98,154 (2.8%) Reads written (passing filters): 1,634,798 (47.1%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 441,111,505 bp (42.2%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1732952 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 796 847.3 0 796 7 17260 847.3 0 17260 8 521 847.3 0 521 9 13144 847.3 0 13144 10 1253 847.3 0 1253 11 887 847.3 0 887 12 1966 847.3 0 1966 13 5229 847.3 0 5229 14 827 847.3 0 827 15 1948 847.3 0 1948 16 1290 847.3 0 1290 17 2208 847.3 0 2208 18 6828 847.3 0 6828 19 3997 847.3 0 3997 20 3418 847.3 0 3418 21 920 847.3 0 920 22 1419 847.3 0 1419 23 3563 847.3 0 3563 24 3375 847.3 0 3375 25 6060 847.3 0 6060 26 9676 847.3 0 9676 27 10098 847.3 0 10098 28 20167 847.3 0 20167 29 23947 847.3 0 23947 30 320665 847.3 0 320665 31 401537 847.3 0 401537 32 753470 847.3 0 753470 33 2608 847.3 0 2608 34 237 847.3 0 237 35 348 847.3 0 348 36 252 847.3 0 252 37 180 847.3 0 180 38 42 847.3 0 42 39 27 847.3 0 27 40 22 847.3 0 22 41 31 847.3 0 31 42 28 847.3 0 28 43 43 847.3 0 43 44 38 847.3 0 38 45 43 847.3 0 43 46 34 847.3 0 34 47 39 847.3 0 39 48 27 847.3 0 27 49 24 847.3 0 24 50 28 847.3 0 28 51 19 847.3 0 19 52 28 847.3 0 28 53 29 847.3 0 29 54 149 847.3 0 149 55 299 847.3 0 299 56 140 847.3 0 140 57 26 847.3 0 26 58 25 847.3 0 25 59 25 847.3 0 25 60 15 847.3 0 15 61 40 847.3 0 40 62 24 847.3 0 24 63 36 847.3 0 36 64 25 847.3 0 25 65 35 847.3 0 35 66 22 847.3 0 22 67 25 847.3 0 25 68 24 847.3 0 24 69 37 847.3 0 37 70 27 847.3 0 27 71 22 847.3 0 22 72 22 847.3 0 22 73 30 847.3 0 30 74 37 847.3 0 37 75 23 847.3 0 23 76 61 847.3 0 61 77 58 847.3 0 58 78 24 847.3 0 24 79 44 847.3 0 44 80 44 847.3 0 44 81 69 847.3 0 69 82 74 847.3 0 74 83 88 847.3 0 88 84 75 847.3 0 75 85 76 847.3 0 76 86 72 847.3 0 72 87 257 847.3 0 257 88 170 847.3 0 170 89 127 847.3 0 127 90 55 847.3 0 55 91 65 847.3 0 65 92 57 847.3 0 57 93 57 847.3 0 57 94 45 847.3 0 45 95 58 847.3 0 58 96 52 847.3 0 52 97 77 847.3 0 77 98 47 847.3 0 47 99 50 847.3 0 50 100 43 847.3 0 43 101 54 847.3 0 54 102 166 847.3 0 166 103 305 847.3 0 305 104 1793 847.3 0 1793 105 881 847.3 0 881 106 431 847.3 0 431 107 264 847.3 0 264 108 26 847.3 0 26 109 41 847.3 0 41 110 44 847.3 0 44 111 67 847.3 0 67 112 43 847.3 0 43 113 59 847.3 0 59 114 65 847.3 0 65 115 48 847.3 0 48 116 87 847.3 0 87 117 62 847.3 0 62 118 69 847.3 0 69 119 51 847.3 0 51 120 71 847.3 0 71 121 51 847.3 0 51 122 48 847.3 0 48 123 72 847.3 0 72 124 333 847.3 0 333 125 279 847.3 0 279 126 174 847.3 0 174 127 72 847.3 0 72 128 58 847.3 0 58 129 63 847.3 0 63 130 39 847.3 0 39 131 38 847.3 0 38 132 60 847.3 0 60 133 56 847.3 0 56 134 45 847.3 0 45 135 67 847.3 0 67 136 36 847.3 0 36 137 180 847.3 0 180 138 131 847.3 0 131 139 119 847.3 0 119 140 57 847.3 0 57 141 75 847.3 0 75 142 84 847.3 0 84 143 87 847.3 0 87 144 56 847.3 0 56 145 55 847.3 0 55 146 54 847.3 0 54 147 67 847.3 0 67 148 61 847.3 0 61 149 120 847.3 0 120 150 77 847.3 0 77 151 85 847.3 0 85 152 35 847.3 0 35 153 44 847.3 0 44 154 45 847.3 0 45 155 80 847.3 0 80 156 55 847.3 0 55 157 60 847.3 0 60 158 82 847.3 0 82 159 213 847.3 0 213 160 105 847.3 0 105 161 464 847.3 0 464 162 53 847.3 0 53 163 53 847.3 0 53 164 71 847.3 0 71 165 41 847.3 0 41 166 126 847.3 0 126 167 70 847.3 0 70 168 88 847.3 0 88 169 63 847.3 0 63 170 62 847.3 0 62 171 82 847.3 0 82 172 56 847.3 0 56 173 57 847.3 0 57 174 43 847.3 0 43 175 62 847.3 0 62 176 48 847.3 0 48 177 66 847.3 0 66 178 48 847.3 0 48 179 43 847.3 0 43 180 46 847.3 0 46 181 69 847.3 0 69 182 71 847.3 0 71 183 68 847.3 0 68 184 97 847.3 0 97 185 82 847.3 0 82 186 69 847.3 0 69 187 63 847.3 0 63 188 78 847.3 0 78 189 140 847.3 0 140 190 60 847.3 0 60 191 31 847.3 0 31 192 60 847.3 0 60 193 51 847.3 0 51 194 67 847.3 0 67 195 64 847.3 0 64 196 61 847.3 0 61 197 41 847.3 0 41 198 46 847.3 0 46 199 74 847.3 0 74 200 77 847.3 0 77 201 93 847.3 0 93 202 73 847.3 0 73 203 62 847.3 0 62 204 69 847.3 0 69 205 233 847.3 0 233 206 237 847.3 0 237 207 93 847.3 0 93 208 39 847.3 0 39 209 43 847.3 0 43 210 64 847.3 0 64 211 52 847.3 0 52 212 54 847.3 0 54 213 65 847.3 0 65 214 58 847.3 0 58 215 63 847.3 0 63 216 88 847.3 0 88 217 96 847.3 0 96 218 80 847.3 0 80 219 75 847.3 0 75 220 85 847.3 0 85 221 47 847.3 0 47 222 44 847.3 0 44 223 60 847.3 0 60 224 53 847.3 0 53 225 68 847.3 0 68 226 89 847.3 0 89 227 108 847.3 0 108 228 126 847.3 0 126 229 70 847.3 0 70 230 82 847.3 0 82 231 108 847.3 0 108 232 121 847.3 0 121 233 82 847.3 0 82 234 77 847.3 0 77 235 60 847.3 0 60 236 98 847.3 0 98 237 79 847.3 0 79 238 75 847.3 0 75 239 108 847.3 0 108 240 141 847.3 0 141 241 166 847.3 0 166 242 121 847.3 0 121 243 153 847.3 0 153 244 167 847.3 0 167 245 257 847.3 0 257 246 327 847.3 0 327 247 547 847.3 0 547 248 191 847.3 0 191 249 280 847.3 0 280 250 421 847.3 0 421 251 272 847.3 0 272 252 288 847.3 0 288 253 526 847.3 0 526 254 4645 847.3 0 4645 255 3294 847.3 0 3294 256 2268 847.3 0 2268 257 819 847.3 0 819 258 978 847.3 0 978 259 1435 847.3 0 1435 260 33642 847.3 0 33642 261 22142 847.3 0 22142 262 12465 847.3 0 12465 263 148 847.3 0 148 264 75 847.3 0 75 265 70 847.3 0 70 266 73 847.3 0 73 267 92 847.3 0 92 268 139 847.3 0 139 269 127 847.3 0 127 270 115 847.3 0 115 271 183 847.3 0 183 272 270 847.3 0 270 273 699 847.3 0 699 274 418 847.3 0 418 275 851 847.3 0 851 276 1030 847.3 0 1030 277 1882 847.3 0 1882 278 550 847.3 0 550 279 353 847.3 0 353 280 551 847.3 0 551 281 465 847.3 0 465 282 275 847.3 0 275 283 119 847.3 0 119 284 56 847.3 0 56 285 54 847.3 0 54 286 51 847.3 0 51 287 61 847.3 0 61 288 51 847.3 0 51 289 52 847.3 0 52 290 53 847.3 0 53 291 52 847.3 0 52 292 46 847.3 0 46 293 52 847.3 0 52 294 71 847.3 0 71 295 76 847.3 0 76 296 54 847.3 0 54 297 33 847.3 0 33 298 38 847.3 0 38 299 26 847.3 0 26 300 28 847.3 0 28 301 86 847.3 0 86 Finished in 115.39 s (71 us/read; 0.85 M reads/minute). === Summary === Total reads processed: 1,634,798 Reads with adapters: 17,273 (1.1%) Reads that were too short: 38 (0.0%) Reads written (passing filters): 17,235 (1.1%) Total basepairs processed: 441,111,505 bp Total written (filtered): 4,713,240 bp (1.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 17273 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 7 0.0 3 0 0 5 2 19 179 0.0 3 0 173 2 4 20 16926 0.0 4 16643 274 6 1 2 21 34 0.0 4 5 28 1 22 4 0.0 4 1 0 3 23 4 0.0 4 0 0 0 2 2 31 1 0.0 4 1 41 1 0.0 4 0 0 0 0 1 71 1 0.0 4 1 72 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 80 2 0.0 4 0 0 0 0 2 84 32 0.0 4 0 0 0 0 32 94 1 0.0 4 1 100 1 0.0 4 0 0 0 0 1 106 1 0.0 4 1 108 1 0.0 4 1 109 2 0.0 4 1 0 0 0 1 112 1 0.0 4 1 116 2 0.0 4 2 117 1 0.0 4 0 0 0 0 1 121 2 0.0 4 1 0 0 0 1 124 1 0.0 4 0 0 0 0 1 130 3 0.0 4 0 0 0 0 3 135 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 146 1 0.0 4 1 148 19 0.0 4 0 0 0 0 19 149 4 0.0 4 0 0 0 0 4 150 2 0.0 4 0 0 0 0 2 152 1 0.0 4 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 1 170 1 0.0 4 1 179 1 0.0 4 1 180 1 0.0 4 0 0 0 0 1 181 1 0.0 4 1 182 2 0.0 4 0 0 0 0 2 187 1 0.0 4 0 1 192 1 0.0 4 0 0 0 0 1 193 2 0.0 4 0 0 0 0 2 202 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 1 207 1 0.0 4 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 1 216 1 0.0 4 1 224 1 0.0 4 0 0 0 1 226 1 0.0 4 1 228 3 0.0 4 0 0 0 0 3 229 2 0.0 4 0 0 0 0 2 242 1 0.0 4 1 246 1 0.0 4 0 1 247 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 253 1 0.0 4 0 1 264 1 0.0 4 0 1 269 2 0.0 4 0 0 0 0 2 288 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 0.98 s (57 us/read; 1.06 M reads/minute). === Summary === Total reads processed: 17,235 Reads with adapters: 433 (2.5%) Reads written (passing filters): 17,235 (100.0%) Total basepairs processed: 4,713,240 bp Total written (filtered): 4,708,166 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 433 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.0% C: 8.3% G: 84.8% 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 26 269.3 0 26 4 5 67.3 0 5 10 7 0.0 1 1 6 11 373 0.0 1 2 371 12 18 0.0 1 0 18 15 1 0.0 1 0 1 152 1 0.0 1 0 1 210 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.