This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GATATT -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 103.33 s (32 us/read; 1.85 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 70,157 (2.2%) Reads that were too short: 21,041 (0.7%) Reads written (passing filters): 49,116 (1.5%) Total basepairs processed: 958,672,960 bp Total written (filtered): 11,956,859 bp (1.2%) === Adapter 1 === Sequence: GATATT; Type: regular 5'; Length: 6; Trimmed: 70157 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 262 777.6 0 262 7 20693 777.6 0 20693 8 49 777.6 0 49 9 41 777.6 0 41 10 22 777.6 0 22 11 31 777.6 0 31 12 16 777.6 0 16 13 23 777.6 0 23 14 20 777.6 0 20 15 18 777.6 0 18 16 21 777.6 0 21 17 16 777.6 0 16 18 36 777.6 0 36 19 38 777.6 0 38 20 40 777.6 0 40 21 93 777.6 0 93 22 77 777.6 0 77 23 31 777.6 0 31 24 78 777.6 0 78 25 57 777.6 0 57 26 92 777.6 0 92 27 101 777.6 0 101 28 53 777.6 0 53 29 49 777.6 0 49 30 51 777.6 0 51 31 71 777.6 0 71 32 114 777.6 0 114 33 3166 777.6 0 3166 34 106 777.6 0 106 35 1816 777.6 0 1816 36 536 777.6 0 536 37 653 777.6 0 653 38 32 777.6 0 32 39 25 777.6 0 25 40 17 777.6 0 17 41 26 777.6 0 26 42 23 777.6 0 23 43 31 777.6 0 31 44 22 777.6 0 22 45 17 777.6 0 17 46 20 777.6 0 20 47 13 777.6 0 13 48 11 777.6 0 11 49 16 777.6 0 16 50 13 777.6 0 13 51 23 777.6 0 23 52 25 777.6 0 25 53 21 777.6 0 21 54 23 777.6 0 23 55 15 777.6 0 15 56 19 777.6 0 19 57 17 777.6 0 17 58 16 777.6 0 16 59 161 777.6 0 161 60 24 777.6 0 24 61 21 777.6 0 21 62 100 777.6 0 100 63 85 777.6 0 85 64 69 777.6 0 69 65 19 777.6 0 19 66 22 777.6 0 22 67 31 777.6 0 31 68 142 777.6 0 142 69 359 777.6 0 359 70 261 777.6 0 261 71 101 777.6 0 101 72 19 777.6 0 19 73 11 777.6 0 11 74 31 777.6 0 31 75 22 777.6 0 22 76 78 777.6 0 78 77 58 777.6 0 58 78 72 777.6 0 72 79 35 777.6 0 35 80 179 777.6 0 179 81 82 777.6 0 82 82 118 777.6 0 118 83 43 777.6 0 43 84 47 777.6 0 47 85 23 777.6 0 23 86 46 777.6 0 46 87 119 777.6 0 119 88 85 777.6 0 85 89 200 777.6 0 200 90 719 777.6 0 719 91 42 777.6 0 42 92 140 777.6 0 140 93 81 777.6 0 81 94 84 777.6 0 84 95 85 777.6 0 85 96 135 777.6 0 135 97 465 777.6 0 465 98 1026 777.6 0 1026 99 2539 777.6 0 2539 100 1901 777.6 0 1901 101 359 777.6 0 359 102 37 777.6 0 37 103 56 777.6 0 56 104 145 777.6 0 145 105 68 777.6 0 68 106 64 777.6 0 64 107 117 777.6 0 117 108 53 777.6 0 53 109 133 777.6 0 133 110 493 777.6 0 493 111 267 777.6 0 267 112 427 777.6 0 427 113 110 777.6 0 110 114 49 777.6 0 49 115 65 777.6 0 65 116 45 777.6 0 45 117 39 777.6 0 39 118 71 777.6 0 71 119 51 777.6 0 51 120 67 777.6 0 67 121 152 777.6 0 152 122 106 777.6 0 106 123 65 777.6 0 65 124 64 777.6 0 64 125 62 777.6 0 62 126 58 777.6 0 58 127 86 777.6 0 86 128 82 777.6 0 82 129 133 777.6 0 133 130 78 777.6 0 78 131 125 777.6 0 125 132 141 777.6 0 141 133 115 777.6 0 115 134 112 777.6 0 112 135 78 777.6 0 78 136 55 777.6 0 55 137 69 777.6 0 69 138 68 777.6 0 68 139 149 777.6 0 149 140 85 777.6 0 85 141 195 777.6 0 195 142 81 777.6 0 81 143 137 777.6 0 137 144 60 777.6 0 60 145 61 777.6 0 61 146 98 777.6 0 98 147 79 777.6 0 79 148 228 777.6 0 228 149 82 777.6 0 82 150 48 777.6 0 48 151 32 777.6 0 32 152 56 777.6 0 56 153 54 777.6 0 54 154 56 777.6 0 56 155 143 777.6 0 143 156 82 777.6 0 82 157 78 777.6 0 78 158 71 777.6 0 71 159 533 777.6 0 533 160 323 777.6 0 323 161 143 777.6 0 143 162 51 777.6 0 51 163 54 777.6 0 54 164 58 777.6 0 58 165 63 777.6 0 63 166 71 777.6 0 71 167 81 777.6 0 81 168 166 777.6 0 166 169 55 777.6 0 55 170 62 777.6 0 62 171 77 777.6 0 77 172 64 777.6 0 64 173 74 777.6 0 74 174 65 777.6 0 65 175 58 777.6 0 58 176 45 777.6 0 45 177 62 777.6 0 62 178 57 777.6 0 57 179 70 777.6 0 70 180 54 777.6 0 54 181 46 777.6 0 46 182 80 777.6 0 80 183 86 777.6 0 86 184 76 777.6 0 76 185 76 777.6 0 76 186 47 777.6 0 47 187 56 777.6 0 56 188 55 777.6 0 55 189 89 777.6 0 89 190 69 777.6 0 69 191 86 777.6 0 86 192 80 777.6 0 80 193 105 777.6 0 105 194 67 777.6 0 67 195 135 777.6 0 135 196 113 777.6 0 113 197 130 777.6 0 130 198 72 777.6 0 72 199 48 777.6 0 48 200 100 777.6 0 100 201 199 777.6 0 199 202 243 777.6 0 243 203 228 777.6 0 228 204 81 777.6 0 81 205 347 777.6 0 347 206 252 777.6 0 252 207 560 777.6 0 560 208 272 777.6 0 272 209 294 777.6 0 294 210 74 777.6 0 74 211 99 777.6 0 99 212 110 777.6 0 110 213 88 777.6 0 88 214 132 777.6 0 132 215 83 777.6 0 83 216 76 777.6 0 76 217 87 777.6 0 87 218 45 777.6 0 45 219 49 777.6 0 49 220 112 777.6 0 112 221 166 777.6 0 166 222 148 777.6 0 148 223 162 777.6 0 162 224 85 777.6 0 85 225 72 777.6 0 72 226 74 777.6 0 74 227 83 777.6 0 83 228 69 777.6 0 69 229 99 777.6 0 99 230 87 777.6 0 87 231 130 777.6 0 130 232 136 777.6 0 136 233 135 777.6 0 135 234 157 777.6 0 157 235 358 777.6 0 358 236 189 777.6 0 189 237 391 777.6 0 391 238 153 777.6 0 153 239 202 777.6 0 202 240 228 777.6 0 228 241 990 777.6 0 990 242 512 777.6 0 512 243 158 777.6 0 158 244 83 777.6 0 83 245 68 777.6 0 68 246 79 777.6 0 79 247 297 777.6 0 297 248 280 777.6 0 280 249 1035 777.6 0 1035 250 432 777.6 0 432 251 115 777.6 0 115 252 62 777.6 0 62 253 42 777.6 0 42 254 39 777.6 0 39 255 42 777.6 0 42 256 38 777.6 0 38 257 61 777.6 0 61 258 97 777.6 0 97 259 220 777.6 0 220 260 1120 777.6 0 1120 261 1279 777.6 0 1279 262 702 777.6 0 702 263 175 777.6 0 175 264 84 777.6 0 84 265 97 777.6 0 97 266 47 777.6 0 47 267 43 777.6 0 43 268 77 777.6 0 77 269 74 777.6 0 74 270 128 777.6 0 128 271 107 777.6 0 107 272 113 777.6 0 113 273 218 777.6 0 218 274 267 777.6 0 267 275 253 777.6 0 253 276 82 777.6 0 82 277 61 777.6 0 61 278 69 777.6 0 69 279 70 777.6 0 70 280 101 777.6 0 101 281 136 777.6 0 136 282 186 777.6 0 186 283 318 777.6 0 318 284 88 777.6 0 88 285 79 777.6 0 79 286 107 777.6 0 107 287 86 777.6 0 86 288 202 777.6 0 202 289 681 777.6 0 681 290 124 777.6 0 124 291 125 777.6 0 125 292 120 777.6 0 120 293 74 777.6 0 74 294 83 777.6 0 83 295 137 777.6 0 137 296 127 777.6 0 127 297 311 777.6 0 311 298 515 777.6 0 515 299 243 777.6 0 243 300 379 777.6 0 379 301 747 777.6 0 747 Finished in 2.57 s (52 us/read; 1.15 M reads/minute). === Summary === Total reads processed: 49,116 Reads with adapters: 20,853 (42.5%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 20,844 (42.4%) Total basepairs processed: 11,956,859 bp Total written (filtered): 5,709,007 bp (47.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 20853 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 2 0.0 3 0 0 2 19 221 0.0 3 0 207 9 3 2 20 20515 0.0 4 20061 393 41 13 7 21 57 0.0 4 12 44 1 22 16 0.0 4 0 0 13 2 1 23 11 0.0 4 0 0 0 10 1 25 1 0.0 4 0 0 0 0 1 31 1 0.0 4 1 50 3 0.0 4 0 0 0 0 3 51 1 0.0 4 0 0 0 0 1 53 1 0.0 4 1 54 1 0.0 4 1 66 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 99 11 0.0 4 0 0 0 0 11 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 261 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 0.89 s (43 us/read; 1.41 M reads/minute). === Summary === Total reads processed: 20,844 Reads with adapters: 4,088 (19.6%) Reads written (passing filters): 20,844 (100.0%) Total basepairs processed: 5,709,007 bp Total written (filtered): 4,757,904 bp (83.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4088 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.7% C: 0.4% G: 98.6% T: 0.3% 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 11 325.7 0 11 4 3 81.4 0 3 9 3 0.1 0 0 3 11 531 0.0 1 0 531 12 29 0.0 1 0 29 13 1 0.0 1 0 1 20 4 0.0 1 2 2 24 6 0.0 1 6 152 2 0.0 1 0 2 225 4 0.0 1 4 244 1 0.0 1 1 269 13 0.0 1 13 270 3420 0.0 1 3254 166 271 60 0.0 1 57 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.