This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GCGAGA -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 161.64 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 151,468 (4.4%) Reads that were too short: 33,940 (1.0%) Reads written (passing filters): 117,528 (3.4%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 30,454,531 bp (2.9%) === Adapter 1 === Sequence: GCGAGA; Type: regular 5'; Length: 6; Trimmed: 151468 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 5390 847.3 0 5390 7 42178 847.3 0 42178 8 35740 847.3 0 35740 9 63 847.3 0 63 10 29 847.3 0 29 11 33 847.3 0 33 12 37 847.3 0 37 13 35 847.3 0 35 14 36 847.3 0 36 15 41 847.3 0 41 16 32 847.3 0 32 17 29 847.3 0 29 18 22 847.3 0 22 19 23 847.3 0 23 20 37 847.3 0 37 21 31 847.3 0 31 22 45 847.3 0 45 23 26 847.3 0 26 24 32 847.3 0 32 25 36 847.3 0 36 26 25 847.3 0 25 27 49 847.3 0 49 28 34 847.3 0 34 29 20 847.3 0 20 30 36 847.3 0 36 31 64 847.3 0 64 32 34 847.3 0 34 33 39 847.3 0 39 34 50 847.3 0 50 35 39 847.3 0 39 36 54 847.3 0 54 37 73 847.3 0 73 38 42 847.3 0 42 39 51 847.3 0 51 40 62 847.3 0 62 41 55 847.3 0 55 42 50 847.3 0 50 43 58 847.3 0 58 44 55 847.3 0 55 45 56 847.3 0 56 46 54 847.3 0 54 47 73 847.3 0 73 48 122 847.3 0 122 49 133 847.3 0 133 50 1980 847.3 0 1980 51 2995 847.3 0 2995 52 987 847.3 0 987 53 28 847.3 0 28 54 27 847.3 0 27 55 25 847.3 0 25 56 28 847.3 0 28 57 42 847.3 0 42 58 37 847.3 0 37 59 53 847.3 0 53 60 58 847.3 0 58 61 70 847.3 0 70 62 51 847.3 0 51 63 71 847.3 0 71 64 80 847.3 0 80 65 85 847.3 0 85 66 57 847.3 0 57 67 77 847.3 0 77 68 52 847.3 0 52 69 40 847.3 0 40 70 42 847.3 0 42 71 51 847.3 0 51 72 74 847.3 0 74 73 121 847.3 0 121 74 604 847.3 0 604 75 543 847.3 0 543 76 890 847.3 0 890 77 105 847.3 0 105 78 246 847.3 0 246 79 70 847.3 0 70 80 91 847.3 0 91 81 39 847.3 0 39 82 61 847.3 0 61 83 36 847.3 0 36 84 50 847.3 0 50 85 62 847.3 0 62 86 33 847.3 0 33 87 38 847.3 0 38 88 32 847.3 0 32 89 43 847.3 0 43 90 47 847.3 0 47 91 115 847.3 0 115 92 93 847.3 0 93 93 72 847.3 0 72 94 63 847.3 0 63 95 35 847.3 0 35 96 38 847.3 0 38 97 35 847.3 0 35 98 66 847.3 0 66 99 44 847.3 0 44 100 34 847.3 0 34 101 44 847.3 0 44 102 40 847.3 0 40 103 41 847.3 0 41 104 46 847.3 0 46 105 35 847.3 0 35 106 46 847.3 0 46 107 31 847.3 0 31 108 32 847.3 0 32 109 44 847.3 0 44 110 28 847.3 0 28 111 49 847.3 0 49 112 63 847.3 0 63 113 63 847.3 0 63 114 99 847.3 0 99 115 134 847.3 0 134 116 78 847.3 0 78 117 111 847.3 0 111 118 111 847.3 0 111 119 108 847.3 0 108 120 114 847.3 0 114 121 80 847.3 0 80 122 83 847.3 0 83 123 120 847.3 0 120 124 141 847.3 0 141 125 1617 847.3 0 1617 126 1976 847.3 0 1976 127 621 847.3 0 621 128 98 847.3 0 98 129 123 847.3 0 123 130 362 847.3 0 362 131 209 847.3 0 209 132 204 847.3 0 204 133 50 847.3 0 50 134 77 847.3 0 77 135 59 847.3 0 59 136 228 847.3 0 228 137 73 847.3 0 73 138 68 847.3 0 68 139 42 847.3 0 42 140 47 847.3 0 47 141 46 847.3 0 46 142 66 847.3 0 66 143 58 847.3 0 58 144 72 847.3 0 72 145 51 847.3 0 51 146 68 847.3 0 68 147 34 847.3 0 34 148 58 847.3 0 58 149 55 847.3 0 55 150 35 847.3 0 35 151 49 847.3 0 49 152 51 847.3 0 51 153 44 847.3 0 44 154 55 847.3 0 55 155 52 847.3 0 52 156 38 847.3 0 38 157 56 847.3 0 56 158 48 847.3 0 48 159 54 847.3 0 54 160 62 847.3 0 62 161 36 847.3 0 36 162 54 847.3 0 54 163 59 847.3 0 59 164 380 847.3 0 380 165 334 847.3 0 334 166 342 847.3 0 342 167 75 847.3 0 75 168 89 847.3 0 89 169 57 847.3 0 57 170 66 847.3 0 66 171 81 847.3 0 81 172 62 847.3 0 62 173 39 847.3 0 39 174 56 847.3 0 56 175 50 847.3 0 50 176 48 847.3 0 48 177 66 847.3 0 66 178 50 847.3 0 50 179 88 847.3 0 88 180 91 847.3 0 91 181 138 847.3 0 138 182 96 847.3 0 96 183 122 847.3 0 122 184 111 847.3 0 111 185 66 847.3 0 66 186 101 847.3 0 101 187 94 847.3 0 94 188 80 847.3 0 80 189 145 847.3 0 145 190 184 847.3 0 184 191 516 847.3 0 516 192 378 847.3 0 378 193 205 847.3 0 205 194 230 847.3 0 230 195 276 847.3 0 276 196 1877 847.3 0 1877 197 2474 847.3 0 2474 198 2002 847.3 0 2002 199 1104 847.3 0 1104 200 477 847.3 0 477 201 143 847.3 0 143 202 187 847.3 0 187 203 212 847.3 0 212 204 1440 847.3 0 1440 205 824 847.3 0 824 206 2517 847.3 0 2517 207 113 847.3 0 113 208 129 847.3 0 129 209 121 847.3 0 121 210 106 847.3 0 106 211 146 847.3 0 146 212 99 847.3 0 99 213 111 847.3 0 111 214 108 847.3 0 108 215 172 847.3 0 172 216 1176 847.3 0 1176 217 1562 847.3 0 1562 218 759 847.3 0 759 219 251 847.3 0 251 220 149 847.3 0 149 221 151 847.3 0 151 222 120 847.3 0 120 223 117 847.3 0 117 224 92 847.3 0 92 225 80 847.3 0 80 226 130 847.3 0 130 227 97 847.3 0 97 228 82 847.3 0 82 229 78 847.3 0 78 230 73 847.3 0 73 231 78 847.3 0 78 232 77 847.3 0 77 233 62 847.3 0 62 234 105 847.3 0 105 235 230 847.3 0 230 236 91 847.3 0 91 237 73 847.3 0 73 238 139 847.3 0 139 239 143 847.3 0 143 240 199 847.3 0 199 241 257 847.3 0 257 242 107 847.3 0 107 243 106 847.3 0 106 244 100 847.3 0 100 245 144 847.3 0 144 246 169 847.3 0 169 247 1262 847.3 0 1262 248 1644 847.3 0 1644 249 1410 847.3 0 1410 250 852 847.3 0 852 251 242 847.3 0 242 252 120 847.3 0 120 253 97 847.3 0 97 254 90 847.3 0 90 255 82 847.3 0 82 256 88 847.3 0 88 257 111 847.3 0 111 258 120 847.3 0 120 259 94 847.3 0 94 260 220 847.3 0 220 261 127 847.3 0 127 262 201 847.3 0 201 263 141 847.3 0 141 264 129 847.3 0 129 265 110 847.3 0 110 266 83 847.3 0 83 267 73 847.3 0 73 268 98 847.3 0 98 269 421 847.3 0 421 270 369 847.3 0 369 271 551 847.3 0 551 272 99 847.3 0 99 273 90 847.3 0 90 274 69 847.3 0 69 275 75 847.3 0 75 276 107 847.3 0 107 277 160 847.3 0 160 278 152 847.3 0 152 279 269 847.3 0 269 280 186 847.3 0 186 281 96 847.3 0 96 282 86 847.3 0 86 283 155 847.3 0 155 284 125 847.3 0 125 285 123 847.3 0 123 286 185 847.3 0 185 287 157 847.3 0 157 288 166 847.3 0 166 289 962 847.3 0 962 290 1995 847.3 0 1995 291 2636 847.3 0 2636 292 1580 847.3 0 1580 293 417 847.3 0 417 294 135 847.3 0 135 295 121 847.3 0 121 296 122 847.3 0 122 297 284 847.3 0 284 298 363 847.3 0 363 299 478 847.3 0 478 300 335 847.3 0 335 301 195 847.3 0 195 Finished in 8.75 s (74 us/read; 0.81 M reads/minute). === Summary === Total reads processed: 117,528 Reads with adapters: 40,903 (34.8%) Reads that were too short: 77 (0.1%) Reads written (passing filters): 40,826 (34.7%) Total basepairs processed: 30,454,531 bp Total written (filtered): 11,084,849 bp (36.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 40903 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 21 0.0 3 0 0 15 5 1 19 519 0.0 3 0 429 49 27 14 20 36174 0.0 4 34351 1513 227 63 20 21 288 0.0 4 150 110 16 9 3 22 52 0.0 4 10 19 17 4 2 23 3191 0.0 4 2950 128 20 72 21 24 14 0.0 4 2 6 1 3 2 25 4 0.0 4 1 0 1 1 1 26 9 0.0 4 0 0 0 6 3 27 1 0.0 4 0 1 28 2 0.0 4 1 0 0 0 1 30 2 0.0 4 0 0 1 0 1 31 1 0.0 4 1 34 1 0.0 4 1 45 1 0.0 4 1 47 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 1 51 1 0.0 4 0 0 0 0 1 56 2 0.0 4 0 0 0 0 2 60 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 62 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 73 2 0.0 4 0 0 0 0 2 74 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 84 5 0.0 4 0 0 0 0 5 85 1 0.0 4 0 0 0 0 1 86 3 0.0 4 0 0 0 0 3 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 110 2 0.0 4 0 0 0 0 2 111 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 9 0.0 4 0 0 0 0 9 127 504 0.0 4 0 0 0 0 504 129 1 0.0 4 0 0 0 0 1 130 2 0.0 4 0 0 0 0 2 133 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 153 4 0.0 4 0 0 0 0 4 154 7 0.0 4 0 0 0 0 7 184 1 0.0 4 0 0 0 0 1 185 7 0.0 4 0 0 0 1 6 186 8 0.0 4 0 0 0 0 8 187 3 0.0 4 0 0 0 0 3 191 1 0.0 4 0 0 0 0 1 195 2 0.0 4 0 0 0 0 2 202 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 214 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 1 232 1 0.0 4 0 0 0 0 1 234 4 0.0 4 0 0 0 0 4 244 2 0.0 4 0 0 0 0 2 256 1 0.0 4 0 0 0 0 1 259 2 0.0 4 0 0 0 0 2 262 1 0.0 4 0 0 0 0 1 263 2 0.0 4 0 0 0 0 2 264 2 0.0 4 0 0 0 0 2 265 3 0.0 4 0 0 0 0 3 284 1 0.0 4 0 0 0 0 1 288 2 0.0 4 0 0 0 0 2 290 2 0.0 4 0 0 0 0 2 293 2 0.0 4 0 0 0 0 2 294 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 2.49 s (61 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 40,826 Reads with adapters: 7,881 (19.3%) Reads written (passing filters): 40,826 (100.0%) Total basepairs processed: 11,084,849 bp Total written (filtered): 10,988,196 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7881 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.1% C: 6.2% G: 89.8% T: 1.9% 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 33 637.9 0 33 4 42 159.5 0 42 6 1 10.0 0 1 7 3 2.5 0 3 8 3 0.6 0 3 9 604 0.2 0 41 563 10 2988 0.0 1 192 2796 11 4073 0.0 1 95 3978 12 32 0.0 1 1 31 13 11 0.0 1 1 10 14 3 0.0 1 0 3 15 1 0.0 1 0 1 139 1 0.0 1 1 150 2 0.0 1 2 151 39 0.0 1 34 5 153 2 0.0 1 2 159 1 0.0 1 0 1 170 1 0.0 1 0 1 208 1 0.0 1 1 209 28 0.0 1 26 2 210 1 0.0 1 1 211 5 0.0 1 4 1 224 6 0.0 1 6 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.