This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGGTC -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 79.07 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 446,620 (14.8%) Reads that were too short: 9,882 (0.3%) Reads written (passing filters): 436,738 (14.5%) Total basepairs processed: 905,907,359 bp Total written (filtered): 93,022,808 bp (10.3%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 446620 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2364 734.8 0 2364 7 3768 734.8 0 3768 8 47 734.8 0 47 9 69 734.8 0 69 10 42 734.8 0 42 11 42 734.8 0 42 12 34 734.8 0 34 13 36 734.8 0 36 14 36 734.8 0 36 15 44 734.8 0 44 16 50 734.8 0 50 17 46 734.8 0 46 18 42 734.8 0 42 19 35 734.8 0 35 20 65 734.8 0 65 21 52 734.8 0 52 22 61 734.8 0 61 23 25 734.8 0 25 24 57 734.8 0 57 25 37 734.8 0 37 26 31 734.8 0 31 27 49 734.8 0 49 28 41 734.8 0 41 29 31 734.8 0 31 30 33 734.8 0 33 31 75 734.8 0 75 32 48 734.8 0 48 33 26 734.8 0 26 34 43 734.8 0 43 35 64 734.8 0 64 36 48 734.8 0 48 37 49 734.8 0 49 38 36 734.8 0 36 39 35 734.8 0 35 40 56 734.8 0 56 41 37 734.8 0 37 42 54 734.8 0 54 43 58 734.8 0 58 44 42 734.8 0 42 45 51 734.8 0 51 46 39 734.8 0 39 47 52 734.8 0 52 48 48 734.8 0 48 49 46 734.8 0 46 50 41 734.8 0 41 51 71 734.8 0 71 52 55 734.8 0 55 53 93 734.8 0 93 54 102 734.8 0 102 55 56 734.8 0 56 56 52 734.8 0 52 57 94 734.8 0 94 58 42 734.8 0 42 59 58 734.8 0 58 60 64 734.8 0 64 61 71 734.8 0 71 62 130 734.8 0 130 63 71 734.8 0 71 64 72 734.8 0 72 65 69 734.8 0 69 66 125 734.8 0 125 67 70 734.8 0 70 68 171 734.8 0 171 69 189 734.8 0 189 70 218 734.8 0 218 71 266 734.8 0 266 72 664 734.8 0 664 73 1936 734.8 0 1936 74 598 734.8 0 598 75 801 734.8 0 801 76 988 734.8 0 988 77 755 734.8 0 755 78 867 734.8 0 867 79 1369 734.8 0 1369 80 1244 734.8 0 1244 81 2099 734.8 0 2099 82 2152 734.8 0 2152 83 2792 734.8 0 2792 84 3326 734.8 0 3326 85 6812 734.8 0 6812 86 186062 734.8 0 186062 87 152800 734.8 0 152800 88 38436 734.8 0 38436 89 254 734.8 0 254 90 44 734.8 0 44 91 54 734.8 0 54 92 62 734.8 0 62 93 71 734.8 0 71 94 77 734.8 0 77 95 60 734.8 0 60 96 34 734.8 0 34 97 37 734.8 0 37 98 43 734.8 0 43 99 50 734.8 0 50 100 82 734.8 0 82 101 56 734.8 0 56 102 43 734.8 0 43 103 78 734.8 0 78 104 31 734.8 0 31 105 40 734.8 0 40 106 25 734.8 0 25 107 22 734.8 0 22 108 28 734.8 0 28 109 67 734.8 0 67 110 47 734.8 0 47 111 55 734.8 0 55 112 58 734.8 0 58 113 36 734.8 0 36 114 43 734.8 0 43 115 44 734.8 0 44 116 67 734.8 0 67 117 58 734.8 0 58 118 46 734.8 0 46 119 42 734.8 0 42 120 50 734.8 0 50 121 66 734.8 0 66 122 66 734.8 0 66 123 128 734.8 0 128 124 157 734.8 0 157 125 527 734.8 0 527 126 276 734.8 0 276 127 213 734.8 0 213 128 163 734.8 0 163 129 162 734.8 0 162 130 104 734.8 0 104 131 130 734.8 0 130 132 59 734.8 0 59 133 75 734.8 0 75 134 90 734.8 0 90 135 81 734.8 0 81 136 102 734.8 0 102 137 117 734.8 0 117 138 103 734.8 0 103 139 113 734.8 0 113 140 95 734.8 0 95 141 185 734.8 0 185 142 171 734.8 0 171 143 202 734.8 0 202 144 1196 734.8 0 1196 145 8972 734.8 0 8972 146 581 734.8 0 581 147 94 734.8 0 94 148 37 734.8 0 37 149 44 734.8 0 44 150 48 734.8 0 48 151 75 734.8 0 75 152 57 734.8 0 57 153 52 734.8 0 52 154 87 734.8 0 87 155 70 734.8 0 70 156 91 734.8 0 91 157 66 734.8 0 66 158 63 734.8 0 63 159 50 734.8 0 50 160 66 734.8 0 66 161 43 734.8 0 43 162 39 734.8 0 39 163 52 734.8 0 52 164 48 734.8 0 48 165 93 734.8 0 93 166 217 734.8 0 217 167 1848 734.8 0 1848 168 126 734.8 0 126 169 60 734.8 0 60 170 62 734.8 0 62 171 56 734.8 0 56 172 77 734.8 0 77 173 54 734.8 0 54 174 68 734.8 0 68 175 88 734.8 0 88 176 58 734.8 0 58 177 59 734.8 0 59 178 54 734.8 0 54 179 70 734.8 0 70 180 79 734.8 0 79 181 73 734.8 0 73 182 77 734.8 0 77 183 76 734.8 0 76 184 70 734.8 0 70 185 312 734.8 0 312 186 1059 734.8 0 1059 187 113 734.8 0 113 188 79 734.8 0 79 189 55 734.8 0 55 190 53 734.8 0 53 191 80 734.8 0 80 192 66 734.8 0 66 193 86 734.8 0 86 194 61 734.8 0 61 195 75 734.8 0 75 196 61 734.8 0 61 197 97 734.8 0 97 198 90 734.8 0 90 199 44 734.8 0 44 200 48 734.8 0 48 201 49 734.8 0 49 202 74 734.8 0 74 203 106 734.8 0 106 204 120 734.8 0 120 205 96 734.8 0 96 206 837 734.8 0 837 207 985 734.8 0 985 208 352 734.8 0 352 209 49 734.8 0 49 210 83 734.8 0 83 211 411 734.8 0 411 212 481 734.8 0 481 213 120 734.8 0 120 214 61 734.8 0 61 215 43 734.8 0 43 216 46 734.8 0 46 217 43 734.8 0 43 218 42 734.8 0 42 219 43 734.8 0 43 220 54 734.8 0 54 221 54 734.8 0 54 222 53 734.8 0 53 223 76 734.8 0 76 224 54 734.8 0 54 225 67 734.8 0 67 226 101 734.8 0 101 227 105 734.8 0 105 228 78 734.8 0 78 229 57 734.8 0 57 230 39 734.8 0 39 231 47 734.8 0 47 232 51 734.8 0 51 233 37 734.8 0 37 234 49 734.8 0 49 235 52 734.8 0 52 236 50 734.8 0 50 237 28 734.8 0 28 238 44 734.8 0 44 239 58 734.8 0 58 240 37 734.8 0 37 241 144 734.8 0 144 242 373 734.8 0 373 243 160 734.8 0 160 244 76 734.8 0 76 245 58 734.8 0 58 246 55 734.8 0 55 247 26 734.8 0 26 248 17 734.8 0 17 249 28 734.8 0 28 250 59 734.8 0 59 251 90 734.8 0 90 252 102 734.8 0 102 253 57 734.8 0 57 254 42 734.8 0 42 255 68 734.8 0 68 256 94 734.8 0 94 257 38 734.8 0 38 258 32 734.8 0 32 259 85 734.8 0 85 260 77 734.8 0 77 261 69 734.8 0 69 262 88 734.8 0 88 263 137 734.8 0 137 264 74 734.8 0 74 265 65 734.8 0 65 266 66 734.8 0 66 267 69 734.8 0 69 268 37 734.8 0 37 269 22 734.8 0 22 270 34 734.8 0 34 271 40 734.8 0 40 272 46 734.8 0 46 273 45 734.8 0 45 274 34 734.8 0 34 275 30 734.8 0 30 276 64 734.8 0 64 277 82 734.8 0 82 278 95 734.8 0 95 279 71 734.8 0 71 280 42 734.8 0 42 281 38 734.8 0 38 282 51 734.8 0 51 283 54 734.8 0 54 284 44 734.8 0 44 285 55 734.8 0 55 286 32 734.8 0 32 287 28 734.8 0 28 288 34 734.8 0 34 289 31 734.8 0 31 290 89 734.8 0 89 291 81 734.8 0 81 292 62 734.8 0 62 293 43 734.8 0 43 294 92 734.8 0 92 295 100 734.8 0 100 296 104 734.8 0 104 297 91 734.8 0 91 298 102 734.8 0 102 299 100 734.8 0 100 300 136 734.8 0 136 301 441 734.8 0 441 Finished in 17.48 s (40 us/read; 1.50 M reads/minute). === Summary === Total reads processed: 436,738 Reads with adapters: 3,881 (0.9%) Reads that were too short: 47 (0.0%) Reads written (passing filters): 3,834 (0.9%) Total basepairs processed: 93,022,808 bp Total written (filtered): 1,041,844 bp (1.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3881 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 18 4 0.0 3 0 0 3 0 1 19 89 0.0 3 0 88 1 20 3419 0.0 4 3347 64 5 2 1 21 5 0.0 4 0 5 22 237 0.0 4 216 19 1 1 23 3 0.0 4 0 2 0 1 24 1 0.0 4 1 48 4 0.0 4 0 0 0 0 4 72 2 0.0 4 0 0 0 0 2 73 2 0.0 4 0 0 0 0 2 74 25 0.0 4 0 0 0 1 24 80 2 0.0 4 0 0 0 1 1 87 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 1 108 27 0.0 4 0 0 0 26 1 109 1 0.0 4 0 0 0 0 1 111 7 0.0 4 0 0 0 7 117 1 0.0 4 0 0 0 0 1 128 1 0.0 4 0 0 0 0 1 129 5 0.0 4 0 0 0 0 5 145 1 0.0 4 0 0 0 0 1 146 3 0.0 4 0 0 0 0 3 149 2 0.0 4 0 0 0 0 2 154 3 0.0 4 0 0 0 0 3 155 5 0.0 4 0 0 0 0 5 156 2 0.0 4 0 0 0 1 1 159 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 175 1 0.0 4 0 0 0 0 1 176 2 0.0 4 0 0 0 0 2 177 3 0.0 4 0 0 0 0 3 178 3 0.0 4 0 0 0 0 3 179 3 0.0 4 0 0 0 0 3 181 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 209 2 0.0 4 0 0 0 0 2 210 6 0.0 4 0 0 0 0 6 212 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 218 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 0.13 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 3,834 Reads with adapters: 1,260 (32.9%) Reads written (passing filters): 3,834 (100.0%) Total basepairs processed: 1,041,844 bp Total written (filtered): 723,091 bp (69.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1260 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 96.0% C: 0.7% G: 3.1% T: 0.2% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 59.9 0 1 9 4 0.0 0 1 3 10 8 0.0 1 0 8 11 20 0.0 1 1 19 12 7 0.0 1 0 7 152 1 0.0 1 1 234 2 0.0 1 2 257 1 0.0 1 1 258 1 0.0 1 1 259 1 0.0 1 1 260 7 0.0 1 7 261 1151 0.0 1 1090 61 262 48 0.0 1 46 2 263 3 0.0 1 3 266 3 0.0 1 3 270 1 0.0 1 1 272 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.