This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTTGGT -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 165.37 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 81,561 (2.4%) Reads that were too short: 11,973 (0.3%) Reads written (passing filters): 69,588 (2.0%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 14,281,141 bp (1.4%) === Adapter 1 === Sequence: CTTGGT; Type: regular 5'; Length: 6; Trimmed: 81561 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 662 847.3 0 662 7 11597 847.3 0 11597 8 10511 847.3 0 10511 9 106 847.3 0 106 10 96 847.3 0 96 11 73 847.3 0 73 12 84 847.3 0 84 13 73 847.3 0 73 14 95 847.3 0 95 15 86 847.3 0 86 16 78 847.3 0 78 17 73 847.3 0 73 18 96 847.3 0 96 19 128 847.3 0 128 20 167 847.3 0 167 21 201 847.3 0 201 22 88 847.3 0 88 23 94 847.3 0 94 24 80 847.3 0 80 25 73 847.3 0 73 26 116 847.3 0 116 27 76 847.3 0 76 28 78 847.3 0 78 29 73 847.3 0 73 30 86 847.3 0 86 31 109 847.3 0 109 32 80 847.3 0 80 33 89 847.3 0 89 34 111 847.3 0 111 35 89 847.3 0 89 36 93 847.3 0 93 37 92 847.3 0 92 38 162 847.3 0 162 39 117 847.3 0 117 40 154 847.3 0 154 41 96 847.3 0 96 42 86 847.3 0 86 43 81 847.3 0 81 44 87 847.3 0 87 45 106 847.3 0 106 46 93 847.3 0 93 47 80 847.3 0 80 48 112 847.3 0 112 49 105 847.3 0 105 50 104 847.3 0 104 51 88 847.3 0 88 52 98 847.3 0 98 53 99 847.3 0 99 54 82 847.3 0 82 55 69 847.3 0 69 56 97 847.3 0 97 57 121 847.3 0 121 58 97 847.3 0 97 59 97 847.3 0 97 60 89 847.3 0 89 61 80 847.3 0 80 62 88 847.3 0 88 63 85 847.3 0 85 64 85 847.3 0 85 65 92 847.3 0 92 66 85 847.3 0 85 67 79 847.3 0 79 68 110 847.3 0 110 69 101 847.3 0 101 70 78 847.3 0 78 71 110 847.3 0 110 72 97 847.3 0 97 73 94 847.3 0 94 74 82 847.3 0 82 75 94 847.3 0 94 76 122 847.3 0 122 77 132 847.3 0 132 78 312 847.3 0 312 79 222 847.3 0 222 80 93 847.3 0 93 81 130 847.3 0 130 82 92 847.3 0 92 83 79 847.3 0 79 84 85 847.3 0 85 85 90 847.3 0 90 86 104 847.3 0 104 87 103 847.3 0 103 88 98 847.3 0 98 89 150 847.3 0 150 90 102 847.3 0 102 91 104 847.3 0 104 92 126 847.3 0 126 93 313 847.3 0 313 94 294 847.3 0 294 95 155 847.3 0 155 96 212 847.3 0 212 97 157 847.3 0 157 98 195 847.3 0 195 99 79 847.3 0 79 100 76 847.3 0 76 101 72 847.3 0 72 102 68 847.3 0 68 103 78 847.3 0 78 104 65 847.3 0 65 105 75 847.3 0 75 106 108 847.3 0 108 107 99 847.3 0 99 108 94 847.3 0 94 109 69 847.3 0 69 110 76 847.3 0 76 111 74 847.3 0 74 112 70 847.3 0 70 113 181 847.3 0 181 114 84 847.3 0 84 115 144 847.3 0 144 116 157 847.3 0 157 117 210 847.3 0 210 118 102 847.3 0 102 119 64 847.3 0 64 120 74 847.3 0 74 121 92 847.3 0 92 122 106 847.3 0 106 123 101 847.3 0 101 124 62 847.3 0 62 125 84 847.3 0 84 126 115 847.3 0 115 127 105 847.3 0 105 128 131 847.3 0 131 129 210 847.3 0 210 130 2207 847.3 0 2207 131 765 847.3 0 765 132 818 847.3 0 818 133 80 847.3 0 80 134 82 847.3 0 82 135 82 847.3 0 82 136 89 847.3 0 89 137 86 847.3 0 86 138 181 847.3 0 181 139 70 847.3 0 70 140 89 847.3 0 89 141 76 847.3 0 76 142 115 847.3 0 115 143 168 847.3 0 168 144 128 847.3 0 128 145 118 847.3 0 118 146 63 847.3 0 63 147 84 847.3 0 84 148 60 847.3 0 60 149 76 847.3 0 76 150 94 847.3 0 94 151 135 847.3 0 135 152 139 847.3 0 139 153 94 847.3 0 94 154 118 847.3 0 118 155 83 847.3 0 83 156 104 847.3 0 104 157 201 847.3 0 201 158 170 847.3 0 170 159 141 847.3 0 141 160 83 847.3 0 83 161 93 847.3 0 93 162 150 847.3 0 150 163 139 847.3 0 139 164 146 847.3 0 146 165 232 847.3 0 232 166 208 847.3 0 208 167 384 847.3 0 384 168 419 847.3 0 419 169 5224 847.3 0 5224 170 4639 847.3 0 4639 171 12764 847.3 0 12764 172 119 847.3 0 119 173 79 847.3 0 79 174 141 847.3 0 141 175 84 847.3 0 84 176 130 847.3 0 130 177 83 847.3 0 83 178 125 847.3 0 125 179 85 847.3 0 85 180 88 847.3 0 88 181 76 847.3 0 76 182 58 847.3 0 58 183 65 847.3 0 65 184 90 847.3 0 90 185 85 847.3 0 85 186 69 847.3 0 69 187 60 847.3 0 60 188 63 847.3 0 63 189 62 847.3 0 62 190 76 847.3 0 76 191 76 847.3 0 76 192 89 847.3 0 89 193 115 847.3 0 115 194 153 847.3 0 153 195 70 847.3 0 70 196 66 847.3 0 66 197 61 847.3 0 61 198 87 847.3 0 87 199 73 847.3 0 73 200 59 847.3 0 59 201 76 847.3 0 76 202 88 847.3 0 88 203 112 847.3 0 112 204 184 847.3 0 184 205 183 847.3 0 183 206 92 847.3 0 92 207 50 847.3 0 50 208 76 847.3 0 76 209 79 847.3 0 79 210 84 847.3 0 84 211 81 847.3 0 81 212 81 847.3 0 81 213 81 847.3 0 81 214 79 847.3 0 79 215 131 847.3 0 131 216 83 847.3 0 83 217 79 847.3 0 79 218 83 847.3 0 83 219 74 847.3 0 74 220 69 847.3 0 69 221 86 847.3 0 86 222 504 847.3 0 504 223 326 847.3 0 326 224 257 847.3 0 257 225 61 847.3 0 61 226 68 847.3 0 68 227 59 847.3 0 59 228 100 847.3 0 100 229 51 847.3 0 51 230 102 847.3 0 102 231 112 847.3 0 112 232 131 847.3 0 131 233 79 847.3 0 79 234 102 847.3 0 102 235 110 847.3 0 110 236 188 847.3 0 188 237 178 847.3 0 178 238 111 847.3 0 111 239 81 847.3 0 81 240 71 847.3 0 71 241 103 847.3 0 103 242 88 847.3 0 88 243 71 847.3 0 71 244 80 847.3 0 80 245 72 847.3 0 72 246 94 847.3 0 94 247 72 847.3 0 72 248 59 847.3 0 59 249 59 847.3 0 59 250 69 847.3 0 69 251 80 847.3 0 80 252 71 847.3 0 71 253 96 847.3 0 96 254 82 847.3 0 82 255 101 847.3 0 101 256 76 847.3 0 76 257 80 847.3 0 80 258 123 847.3 0 123 259 73 847.3 0 73 260 67 847.3 0 67 261 140 847.3 0 140 262 149 847.3 0 149 263 119 847.3 0 119 264 86 847.3 0 86 265 79 847.3 0 79 266 83 847.3 0 83 267 101 847.3 0 101 268 73 847.3 0 73 269 80 847.3 0 80 270 122 847.3 0 122 271 309 847.3 0 309 272 396 847.3 0 396 273 415 847.3 0 415 274 140 847.3 0 140 275 79 847.3 0 79 276 130 847.3 0 130 277 116 847.3 0 116 278 170 847.3 0 170 279 142 847.3 0 142 280 97 847.3 0 97 281 113 847.3 0 113 282 80 847.3 0 80 283 88 847.3 0 88 284 91 847.3 0 91 285 84 847.3 0 84 286 83 847.3 0 83 287 77 847.3 0 77 288 101 847.3 0 101 289 84 847.3 0 84 290 93 847.3 0 93 291 113 847.3 0 113 292 206 847.3 0 206 293 213 847.3 0 213 294 187 847.3 0 187 295 121 847.3 0 121 296 430 847.3 0 430 297 229 847.3 0 229 298 147 847.3 0 147 299 84 847.3 0 84 300 78 847.3 0 78 301 63 847.3 0 63 Finished in 4.62 s (66 us/read; 0.90 M reads/minute). === Summary === Total reads processed: 69,588 Reads with adapters: 11,249 (16.2%) Reads that were too short: 6 (0.0%) Reads written (passing filters): 11,243 (16.2%) Total basepairs processed: 14,281,141 bp Total written (filtered): 3,049,175 bp (21.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 11249 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 19 0.0 3 0 0 0 0 19 18 3 0.0 3 0 0 3 19 124 0.0 3 0 122 1 1 20 10854 0.0 4 10676 171 6 1 21 27 0.0 4 2 24 1 22 4 0.0 4 1 0 3 23 10 0.0 4 1 0 0 9 24 1 0.0 4 0 0 0 0 1 25 2 0.0 4 1 0 1 27 3 0.0 4 0 0 0 0 3 41 32 0.0 4 0 0 0 0 32 44 2 0.0 4 0 0 0 0 2 124 1 0.0 4 1 126 1 0.0 4 0 0 0 0 1 127 153 0.0 4 0 0 0 0 153 130 7 0.0 4 0 0 0 0 7 131 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 259 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 0.66 s (59 us/read; 1.02 M reads/minute). === Summary === Total reads processed: 11,243 Reads with adapters: 1,067 (9.5%) Reads written (passing filters): 11,243 (100.0%) Total basepairs processed: 3,049,175 bp Total written (filtered): 3,027,720 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1067 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 2.3% G: 90.9% T: 5.2% 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 7 175.7 0 7 4 3 43.9 0 3 5 2 11.0 0 2 6 1 2.7 0 1 8 1 0.2 0 1 9 6 0.0 0 0 6 10 39 0.0 1 2 37 11 955 0.0 1 3 952 12 3 0.0 1 0 3 23 1 0.0 1 1 81 3 0.0 1 3 105 1 0.0 1 0 1 151 1 0.0 1 0 1 170 1 0.0 1 1 201 1 0.0 1 1 209 2 0.0 1 1 1 224 32 0.0 1 30 2 225 2 0.0 1 2 226 2 0.0 1 2 244 2 0.0 1 2 272 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.