This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCCGCT -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 61.00 s (27 us/read; 2.20 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 436,209 (19.5%) Reads that were too short: 9,497 (0.4%) Reads written (passing filters): 426,712 (19.1%) Total basepairs processed: 673,916,425 bp Total written (filtered): 121,053,546 bp (18.0%) === Adapter 1 === Sequence: TCCGCT; Type: regular 5'; Length: 6; Trimmed: 436209 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1912 546.6 0 1912 7 9785 546.6 0 9785 8 179408 546.6 0 179408 9 206135 546.6 0 206135 10 145 546.6 0 145 11 14 546.6 0 14 12 20 546.6 0 20 13 11 546.6 0 11 14 8 546.6 0 8 15 6 546.6 0 6 16 6 546.6 0 6 17 16 546.6 0 16 18 5 546.6 0 5 19 14 546.6 0 14 20 13 546.6 0 13 21 9 546.6 0 9 22 13 546.6 0 13 23 11 546.6 0 11 24 12 546.6 0 12 25 9 546.6 0 9 26 9 546.6 0 9 27 16 546.6 0 16 28 7 546.6 0 7 29 22 546.6 0 22 30 6 546.6 0 6 31 8 546.6 0 8 32 29 546.6 0 29 33 20 546.6 0 20 34 144 546.6 0 144 35 20 546.6 0 20 36 25 546.6 0 25 37 190 546.6 0 190 38 41 546.6 0 41 39 29 546.6 0 29 40 20 546.6 0 20 41 10 546.6 0 10 42 69 546.6 0 69 43 7 546.6 0 7 44 9 546.6 0 9 45 13 546.6 0 13 46 9 546.6 0 9 47 12 546.6 0 12 48 6 546.6 0 6 49 20 546.6 0 20 50 11 546.6 0 11 51 17 546.6 0 17 52 163 546.6 0 163 53 48 546.6 0 48 54 39 546.6 0 39 55 4 546.6 0 4 56 18 546.6 0 18 57 14 546.6 0 14 58 14 546.6 0 14 59 10 546.6 0 10 60 217 546.6 0 217 61 78 546.6 0 78 62 28 546.6 0 28 63 11 546.6 0 11 64 7 546.6 0 7 65 12 546.6 0 12 66 13 546.6 0 13 67 8 546.6 0 8 68 13 546.6 0 13 69 8 546.6 0 8 70 9 546.6 0 9 71 10 546.6 0 10 72 14 546.6 0 14 73 36 546.6 0 36 74 9 546.6 0 9 75 7 546.6 0 7 76 13 546.6 0 13 77 8 546.6 0 8 78 17 546.6 0 17 79 10 546.6 0 10 80 14 546.6 0 14 81 28 546.6 0 28 82 46 546.6 0 46 83 36 546.6 0 36 84 259 546.6 0 259 85 38 546.6 0 38 86 29 546.6 0 29 87 10 546.6 0 10 88 16 546.6 0 16 89 7 546.6 0 7 90 40 546.6 0 40 91 26 546.6 0 26 92 28 546.6 0 28 93 28 546.6 0 28 94 24 546.6 0 24 95 32 546.6 0 32 96 23 546.6 0 23 97 119 546.6 0 119 98 12 546.6 0 12 99 14 546.6 0 14 100 17 546.6 0 17 101 11 546.6 0 11 102 10 546.6 0 10 103 11 546.6 0 11 104 40 546.6 0 40 105 30 546.6 0 30 106 33 546.6 0 33 107 47 546.6 0 47 108 244 546.6 0 244 109 34 546.6 0 34 110 35 546.6 0 35 111 22 546.6 0 22 112 66 546.6 0 66 113 45 546.6 0 45 114 27 546.6 0 27 115 26 546.6 0 26 116 17 546.6 0 17 117 89 546.6 0 89 118 30 546.6 0 30 119 12 546.6 0 12 120 10 546.6 0 10 121 10 546.6 0 10 122 9 546.6 0 9 123 16 546.6 0 16 124 28 546.6 0 28 125 35 546.6 0 35 126 46 546.6 0 46 127 403 546.6 0 403 128 92 546.6 0 92 129 120 546.6 0 120 130 42 546.6 0 42 131 48 546.6 0 48 132 95 546.6 0 95 133 33 546.6 0 33 134 25 546.6 0 25 135 12 546.6 0 12 136 30 546.6 0 30 137 68 546.6 0 68 138 49 546.6 0 49 139 102 546.6 0 102 140 239 546.6 0 239 141 302 546.6 0 302 142 485 546.6 0 485 143 1363 546.6 0 1363 144 15436 546.6 0 15436 145 2823 546.6 0 2823 146 2103 546.6 0 2103 147 18 546.6 0 18 148 18 546.6 0 18 149 18 546.6 0 18 150 11 546.6 0 11 151 119 546.6 0 119 152 65 546.6 0 65 153 51 546.6 0 51 154 60 546.6 0 60 155 20 546.6 0 20 156 80 546.6 0 80 157 39 546.6 0 39 158 74 546.6 0 74 159 85 546.6 0 85 160 10 546.6 0 10 161 14 546.6 0 14 162 8 546.6 0 8 163 8 546.6 0 8 164 18 546.6 0 18 165 15 546.6 0 15 166 6 546.6 0 6 167 9 546.6 0 9 168 5 546.6 0 5 169 8 546.6 0 8 170 14 546.6 0 14 171 16 546.6 0 16 172 24 546.6 0 24 173 25 546.6 0 25 174 18 546.6 0 18 175 13 546.6 0 13 176 13 546.6 0 13 177 19 546.6 0 19 178 37 546.6 0 37 179 132 546.6 0 132 180 113 546.6 0 113 181 34 546.6 0 34 182 19 546.6 0 19 183 9 546.6 0 9 184 10 546.6 0 10 185 19 546.6 0 19 186 26 546.6 0 26 187 12 546.6 0 12 188 16 546.6 0 16 189 29 546.6 0 29 190 197 546.6 0 197 191 15 546.6 0 15 192 73 546.6 0 73 193 16 546.6 0 16 194 15 546.6 0 15 195 12 546.6 0 12 196 21 546.6 0 21 197 14 546.6 0 14 198 54 546.6 0 54 199 42 546.6 0 42 200 25 546.6 0 25 201 13 546.6 0 13 202 13 546.6 0 13 203 8 546.6 0 8 204 8 546.6 0 8 205 13 546.6 0 13 206 14 546.6 0 14 207 8 546.6 0 8 208 7 546.6 0 7 209 6 546.6 0 6 210 10 546.6 0 10 211 13 546.6 0 13 212 7 546.6 0 7 213 14 546.6 0 14 214 9 546.6 0 9 215 12 546.6 0 12 216 19 546.6 0 19 217 36 546.6 0 36 218 15 546.6 0 15 219 23 546.6 0 23 220 10 546.6 0 10 221 9 546.6 0 9 222 11 546.6 0 11 223 13 546.6 0 13 224 16 546.6 0 16 225 37 546.6 0 37 226 23 546.6 0 23 227 17 546.6 0 17 228 28 546.6 0 28 229 34 546.6 0 34 230 64 546.6 0 64 231 27 546.6 0 27 232 35 546.6 0 35 233 34 546.6 0 34 234 29 546.6 0 29 235 180 546.6 0 180 236 291 546.6 0 291 237 103 546.6 0 103 238 60 546.6 0 60 239 37 546.6 0 37 240 155 546.6 0 155 241 54 546.6 0 54 242 62 546.6 0 62 243 16 546.6 0 16 244 18 546.6 0 18 245 37 546.6 0 37 246 24 546.6 0 24 247 74 546.6 0 74 248 36 546.6 0 36 249 108 546.6 0 108 250 40 546.6 0 40 251 44 546.6 0 44 252 120 546.6 0 120 253 18 546.6 0 18 254 15 546.6 0 15 255 12 546.6 0 12 256 23 546.6 0 23 257 30 546.6 0 30 258 71 546.6 0 71 259 162 546.6 0 162 260 1946 546.6 0 1946 261 957 546.6 0 957 262 1011 546.6 0 1011 263 166 546.6 0 166 264 15 546.6 0 15 265 21 546.6 0 21 266 59 546.6 0 59 267 51 546.6 0 51 268 62 546.6 0 62 269 52 546.6 0 52 270 105 546.6 0 105 271 78 546.6 0 78 272 298 546.6 0 298 273 22 546.6 0 22 274 15 546.6 0 15 275 15 546.6 0 15 276 23 546.6 0 23 277 141 546.6 0 141 278 30 546.6 0 30 279 57 546.6 0 57 280 70 546.6 0 70 281 58 546.6 0 58 282 47 546.6 0 47 283 112 546.6 0 112 284 117 546.6 0 117 285 516 546.6 0 516 286 42 546.6 0 42 287 48 546.6 0 48 288 160 546.6 0 160 289 53 546.6 0 53 290 94 546.6 0 94 291 122 546.6 0 122 292 83 546.6 0 83 293 119 546.6 0 119 294 77 546.6 0 77 295 78 546.6 0 78 296 45 546.6 0 45 297 25 546.6 0 25 298 26 546.6 0 26 299 21 546.6 0 21 300 21 546.6 0 21 301 27 546.6 0 27 Finished in 19.58 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 426,712 Reads with adapters: 213,793 (50.1%) Reads that were too short: 67 (0.0%) Reads written (passing filters): 213,726 (50.1%) Total basepairs processed: 121,053,546 bp Total written (filtered): 58,046,391 bp (48.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 213793 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 4 0.0 3 0 0 0 3 1 18 80 0.0 3 0 0 77 2 1 19 2162 0.0 3 0 2124 29 6 3 20 209980 0.0 4 205948 3865 157 6 4 21 400 0.0 4 44 336 19 0 1 22 31 0.0 4 3 1 24 0 3 23 131 0.0 4 2 0 1 113 15 24 14 0.0 4 2 0 0 0 12 27 1 0.0 4 0 0 1 29 1 0.0 4 1 30 1 0.0 4 1 32 1 0.0 4 1 34 1 0.0 4 1 38 1 0.0 4 1 66 1 0.0 4 0 0 0 0 1 76 1 0.0 4 1 126 9 0.0 4 0 0 0 0 9 127 878 0.0 4 0 0 0 0 878 128 17 0.0 4 0 0 0 0 17 130 2 0.0 4 0 0 0 0 2 134 1 0.0 4 0 0 0 0 1 135 7 0.0 4 0 0 0 0 7 136 1 0.0 4 0 0 0 0 1 137 4 0.0 4 0 0 0 0 4 180 1 0.0 4 0 0 0 0 1 196 1 0.0 4 1 207 3 0.0 4 0 0 0 0 3 222 2 0.0 4 0 0 0 0 2 223 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 225 2 0.0 4 0 0 0 0 2 227 4 0.0 4 0 0 0 0 4 228 18 0.0 4 0 0 0 1 17 229 5 0.0 4 0 0 0 0 5 230 2 0.0 4 0 0 0 0 2 232 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 5 0.0 4 0 0 0 0 5 237 1 0.0 4 0 0 0 1 240 1 0.0 4 0 1 248 3 0.0 4 0 0 0 2 1 257 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 262 2 0.0 4 0 0 0 0 2 263 1 0.0 4 0 0 0 0 1 267 1 0.0 4 0 0 0 0 1 276 1 0.0 4 0 0 1 283 2 0.0 4 0 1 0 0 1 285 1 0.0 4 0 0 0 0 1 288 1 0.0 4 0 0 0 0 1 292 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 7.51 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 213,726 Reads with adapters: 25,911 (12.1%) Reads written (passing filters): 213,726 (100.0%) Total basepairs processed: 58,046,391 bp Total written (filtered): 57,785,138 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 25911 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.3% C: 3.0% G: 94.0% T: 1.7% 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 3 170 3339.5 0 170 4 41 834.9 0 41 5 11 208.7 0 11 6 8 52.2 0 8 7 2 13.0 0 2 8 8 3.3 0 8 9 8971 0.8 0 277 8694 10 13365 0.2 1 485 12880 11 3227 0.1 1 25 3202 12 26 0.0 1 0 26 13 17 0.0 1 0 17 14 1 0.0 1 0 1 20 1 0.0 1 1 24 1 0.0 1 1 31 1 0.0 1 1 33 1 0.0 1 1 39 1 0.0 1 1 40 2 0.0 1 1 1 61 1 0.0 1 0 1 64 1 0.0 1 1 77 1 0.0 1 1 82 1 0.0 1 1 84 1 0.0 1 1 112 1 0.0 1 0 1 117 1 0.0 1 1 123 1 0.0 1 1 138 3 0.0 1 3 147 1 0.0 1 1 150 13 0.0 1 0 13 155 2 0.0 1 0 2 169 3 0.0 1 3 170 1 0.0 1 1 191 2 0.0 1 1 1 208 18 0.0 1 9 9 210 1 0.0 1 0 1 223 3 0.0 1 3 257 1 0.0 1 1 258 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.