This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -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 58.70 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 331,554 (14.8%) Reads that were too short: 8,460 (0.4%) Reads written (passing filters): 323,094 (14.4%) Total basepairs processed: 673,916,425 bp Total written (filtered): 50,219,893 bp (7.5%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 331554 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 142 546.6 0 142 7 6237 546.6 0 6237 8 488 546.6 0 488 9 5288 546.6 0 5288 10 58 546.6 0 58 11 21 546.6 0 21 12 48 546.6 0 48 13 76 546.6 0 76 14 67 546.6 0 67 15 96 546.6 0 96 16 37 546.6 0 37 17 24 546.6 0 24 18 31 546.6 0 31 19 54 546.6 0 54 20 35 546.6 0 35 21 44 546.6 0 44 22 21 546.6 0 21 23 26 546.6 0 26 24 49 546.6 0 49 25 80 546.6 0 80 26 135 546.6 0 135 27 937 546.6 0 937 28 792 546.6 0 792 29 800 546.6 0 800 30 65 546.6 0 65 31 25 546.6 0 25 32 34 546.6 0 34 33 40 546.6 0 40 34 62 546.6 0 62 35 41 546.6 0 41 36 39 546.6 0 39 37 56 546.6 0 56 38 64 546.6 0 64 39 32 546.6 0 32 40 31 546.6 0 31 41 51 546.6 0 51 42 47 546.6 0 47 43 41 546.6 0 41 44 57 546.6 0 57 45 45 546.6 0 45 46 31 546.6 0 31 47 56 546.6 0 56 48 46 546.6 0 46 49 65 546.6 0 65 50 77 546.6 0 77 51 58 546.6 0 58 52 47 546.6 0 47 53 49 546.6 0 49 54 42 546.6 0 42 55 47 546.6 0 47 56 50 546.6 0 50 57 102 546.6 0 102 58 204 546.6 0 204 59 436 546.6 0 436 60 53 546.6 0 53 61 30 546.6 0 30 62 29 546.6 0 29 63 41 546.6 0 41 64 35 546.6 0 35 65 44 546.6 0 44 66 32 546.6 0 32 67 59 546.6 0 59 68 35 546.6 0 35 69 39 546.6 0 39 70 45 546.6 0 45 71 48 546.6 0 48 72 34 546.6 0 34 73 44 546.6 0 44 74 51 546.6 0 51 75 56 546.6 0 56 76 38 546.6 0 38 77 48 546.6 0 48 78 54 546.6 0 54 79 47 546.6 0 47 80 45 546.6 0 45 81 106 546.6 0 106 82 41 546.6 0 41 83 41 546.6 0 41 84 64 546.6 0 64 85 59 546.6 0 59 86 37 546.6 0 37 87 39 546.6 0 39 88 57 546.6 0 57 89 60 546.6 0 60 90 64 546.6 0 64 91 152 546.6 0 152 92 115 546.6 0 115 93 131 546.6 0 131 94 99 546.6 0 99 95 107 546.6 0 107 96 120 546.6 0 120 97 57 546.6 0 57 98 62 546.6 0 62 99 64 546.6 0 64 100 80 546.6 0 80 101 93 546.6 0 93 102 99 546.6 0 99 103 127 546.6 0 127 104 167 546.6 0 167 105 252 546.6 0 252 106 529 546.6 0 529 107 1262 546.6 0 1262 108 17975 546.6 0 17975 109 5098 546.6 0 5098 110 10978 546.6 0 10978 111 123 546.6 0 123 112 53 546.6 0 53 113 48 546.6 0 48 114 61 546.6 0 61 115 65 546.6 0 65 116 112 546.6 0 112 117 88 546.6 0 88 118 65 546.6 0 65 119 66 546.6 0 66 120 75 546.6 0 75 121 75 546.6 0 75 122 52 546.6 0 52 123 58 546.6 0 58 124 88 546.6 0 88 125 131 546.6 0 131 126 86 546.6 0 86 127 103 546.6 0 103 128 129 546.6 0 129 129 149 546.6 0 149 130 117 546.6 0 117 131 128 546.6 0 128 132 113 546.6 0 113 133 126 546.6 0 126 134 1142 546.6 0 1142 135 1288 546.6 0 1288 136 2552 546.6 0 2552 137 142 546.6 0 142 138 121 546.6 0 121 139 87 546.6 0 87 140 174 546.6 0 174 141 147 546.6 0 147 142 218 546.6 0 218 143 196 546.6 0 196 144 258 546.6 0 258 145 421 546.6 0 421 146 856 546.6 0 856 147 1724 546.6 0 1724 148 491 546.6 0 491 149 567 546.6 0 567 150 1023 546.6 0 1023 151 526 546.6 0 526 152 435 546.6 0 435 153 917 546.6 0 917 154 988 546.6 0 988 155 2729 546.6 0 2729 156 2318 546.6 0 2318 157 3093 546.6 0 3093 158 2662 546.6 0 2662 159 3565 546.6 0 3565 160 98899 546.6 0 98899 161 25771 546.6 0 25771 162 108271 546.6 0 108271 163 435 546.6 0 435 164 85 546.6 0 85 165 87 546.6 0 87 166 73 546.6 0 73 167 61 546.6 0 61 168 64 546.6 0 64 169 67 546.6 0 67 170 55 546.6 0 55 171 79 546.6 0 79 172 41 546.6 0 41 173 38 546.6 0 38 174 83 546.6 0 83 175 80 546.6 0 80 176 56 546.6 0 56 177 44 546.6 0 44 178 49 546.6 0 49 179 80 546.6 0 80 180 77 546.6 0 77 181 81 546.6 0 81 182 49 546.6 0 49 183 64 546.6 0 64 184 55 546.6 0 55 185 51 546.6 0 51 186 47 546.6 0 47 187 58 546.6 0 58 188 34 546.6 0 34 189 35 546.6 0 35 190 34 546.6 0 34 191 102 546.6 0 102 192 93 546.6 0 93 193 145 546.6 0 145 194 39 546.6 0 39 195 40 546.6 0 40 196 31 546.6 0 31 197 35 546.6 0 35 198 55 546.6 0 55 199 46 546.6 0 46 200 47 546.6 0 47 201 39 546.6 0 39 202 73 546.6 0 73 203 109 546.6 0 109 204 71 546.6 0 71 205 61 546.6 0 61 206 57 546.6 0 57 207 36 546.6 0 36 208 59 546.6 0 59 209 55 546.6 0 55 210 46 546.6 0 46 211 33 546.6 0 33 212 46 546.6 0 46 213 42 546.6 0 42 214 37 546.6 0 37 215 40 546.6 0 40 216 38 546.6 0 38 217 57 546.6 0 57 218 64 546.6 0 64 219 54 546.6 0 54 220 98 546.6 0 98 221 105 546.6 0 105 222 256 546.6 0 256 223 148 546.6 0 148 224 173 546.6 0 173 225 60 546.6 0 60 226 51 546.6 0 51 227 47 546.6 0 47 228 53 546.6 0 53 229 51 546.6 0 51 230 51 546.6 0 51 231 62 546.6 0 62 232 84 546.6 0 84 233 63 546.6 0 63 234 133 546.6 0 133 235 78 546.6 0 78 236 85 546.6 0 85 237 37 546.6 0 37 238 33 546.6 0 33 239 38 546.6 0 38 240 44 546.6 0 44 241 55 546.6 0 55 242 66 546.6 0 66 243 80 546.6 0 80 244 49 546.6 0 49 245 27 546.6 0 27 246 32 546.6 0 32 247 44 546.6 0 44 248 46 546.6 0 46 249 58 546.6 0 58 250 93 546.6 0 93 251 252 546.6 0 252 252 258 546.6 0 258 253 285 546.6 0 285 254 662 546.6 0 662 255 264 546.6 0 264 256 198 546.6 0 198 257 72 546.6 0 72 258 53 546.6 0 53 259 49 546.6 0 49 260 42 546.6 0 42 261 102 546.6 0 102 262 94 546.6 0 94 263 144 546.6 0 144 264 52 546.6 0 52 265 61 546.6 0 61 266 49 546.6 0 49 267 46 546.6 0 46 268 43 546.6 0 43 269 46 546.6 0 46 270 63 546.6 0 63 271 71 546.6 0 71 272 200 546.6 0 200 273 52 546.6 0 52 274 38 546.6 0 38 275 54 546.6 0 54 276 38 546.6 0 38 277 60 546.6 0 60 278 123 546.6 0 123 279 137 546.6 0 137 280 97 546.6 0 97 281 144 546.6 0 144 282 174 546.6 0 174 283 205 546.6 0 205 284 99 546.6 0 99 285 64 546.6 0 64 286 50 546.6 0 50 287 42 546.6 0 42 288 38 546.6 0 38 289 30 546.6 0 30 290 50 546.6 0 50 291 62 546.6 0 62 292 71 546.6 0 71 293 59 546.6 0 59 294 53 546.6 0 53 295 48 546.6 0 48 296 40 546.6 0 40 297 45 546.6 0 45 298 51 546.6 0 51 299 75 546.6 0 75 300 44 546.6 0 44 301 33 546.6 0 33 Finished in 11.03 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 323,094 Reads with adapters: 5,954 (1.8%) Reads that were too short: 61 (0.0%) Reads written (passing filters): 5,893 (1.8%) Total basepairs processed: 50,219,893 bp Total written (filtered): 1,596,691 bp (3.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5954 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 0 1 18 2 0.0 3 0 0 0 2 19 37 0.0 3 0 24 8 4 1 20 5735 0.0 4 5376 283 57 14 5 21 27 0.0 4 11 12 2 1 1 22 3 0.0 4 0 0 2 0 1 23 24 0.0 4 0 0 0 14 10 24 3 0.0 4 0 0 0 1 2 25 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 1 54 2 0.0 4 0 0 0 0 2 55 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 1 62 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 72 4 0.0 4 0 0 0 0 4 75 1 0.0 4 0 0 0 0 1 77 5 0.0 4 0 0 0 0 5 80 6 0.0 4 0 0 0 0 6 81 10 0.0 4 0 0 0 1 9 82 8 0.0 4 0 0 0 0 8 83 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 104 3 0.0 4 0 0 0 0 3 108 2 0.0 4 0 0 0 0 2 123 1 0.0 4 0 0 0 0 1 127 48 0.0 4 0 0 0 0 48 129 1 0.0 4 0 1 137 1 0.0 4 0 0 1 139 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 1 186 1 0.0 4 0 0 0 0 1 189 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 1 203 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 0 6 229 4 0.0 4 0 0 0 0 4 238 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 283 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 0.22 s (37 us/read; 1.61 M reads/minute). === Summary === Total reads processed: 5,893 Reads with adapters: 1,362 (23.1%) Reads written (passing filters): 5,893 (100.0%) Total basepairs processed: 1,596,691 bp Total written (filtered): 1,580,275 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1362 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.5% C: 13.4% G: 81.1% T: 3.1% 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 2 92.1 0 2 4 2 23.0 0 2 6 5 1.4 0 5 7 1 0.4 0 1 9 239 0.0 0 21 218 10 935 0.0 1 68 867 11 156 0.0 1 4 152 12 2 0.0 1 0 2 13 4 0.0 1 0 4 14 1 0.0 1 0 1 70 2 0.0 1 2 153 1 0.0 1 1 223 10 0.0 1 8 2 266 1 0.0 1 1 269 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.