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 77.91 s (26 us/read; 2.32 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 318,074 (10.6%) Reads that were too short: 8,383 (0.3%) Reads written (passing filters): 309,691 (10.3%) Total basepairs processed: 905,907,359 bp Total written (filtered): 65,737,111 bp (7.3%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 318074 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2155 734.8 0 2155 7 3493 734.8 0 3493 8 56 734.8 0 56 9 85 734.8 0 85 10 42 734.8 0 42 11 44 734.8 0 44 12 46 734.8 0 46 13 41 734.8 0 41 14 45 734.8 0 45 15 52 734.8 0 52 16 49 734.8 0 49 17 48 734.8 0 48 18 38 734.8 0 38 19 58 734.8 0 58 20 67 734.8 0 67 21 55 734.8 0 55 22 52 734.8 0 52 23 39 734.8 0 39 24 55 734.8 0 55 25 51 734.8 0 51 26 46 734.8 0 46 27 46 734.8 0 46 28 34 734.8 0 34 29 40 734.8 0 40 30 41 734.8 0 41 31 49 734.8 0 49 32 49 734.8 0 49 33 48 734.8 0 48 34 39 734.8 0 39 35 60 734.8 0 60 36 53 734.8 0 53 37 33 734.8 0 33 38 43 734.8 0 43 39 32 734.8 0 32 40 49 734.8 0 49 41 56 734.8 0 56 42 71 734.8 0 71 43 47 734.8 0 47 44 45 734.8 0 45 45 60 734.8 0 60 46 41 734.8 0 41 47 42 734.8 0 42 48 36 734.8 0 36 49 44 734.8 0 44 50 41 734.8 0 41 51 56 734.8 0 56 52 50 734.8 0 50 53 94 734.8 0 94 54 103 734.8 0 103 55 48 734.8 0 48 56 59 734.8 0 59 57 70 734.8 0 70 58 30 734.8 0 30 59 55 734.8 0 55 60 60 734.8 0 60 61 40 734.8 0 40 62 117 734.8 0 117 63 39 734.8 0 39 64 61 734.8 0 61 65 67 734.8 0 67 66 83 734.8 0 83 67 67 734.8 0 67 68 142 734.8 0 142 69 152 734.8 0 152 70 188 734.8 0 188 71 207 734.8 0 207 72 543 734.8 0 543 73 1340 734.8 0 1340 74 421 734.8 0 421 75 580 734.8 0 580 76 815 734.8 0 815 77 617 734.8 0 617 78 639 734.8 0 639 79 1116 734.8 0 1116 80 958 734.8 0 958 81 1602 734.8 0 1602 82 1482 734.8 0 1482 83 1911 734.8 0 1911 84 2173 734.8 0 2173 85 4252 734.8 0 4252 86 126716 734.8 0 126716 87 106073 734.8 0 106073 88 26819 734.8 0 26819 89 159 734.8 0 159 90 53 734.8 0 53 91 42 734.8 0 42 92 34 734.8 0 34 93 56 734.8 0 56 94 63 734.8 0 63 95 34 734.8 0 34 96 48 734.8 0 48 97 51 734.8 0 51 98 29 734.8 0 29 99 49 734.8 0 49 100 153 734.8 0 153 101 88 734.8 0 88 102 29 734.8 0 29 103 43 734.8 0 43 104 39 734.8 0 39 105 39 734.8 0 39 106 33 734.8 0 33 107 28 734.8 0 28 108 43 734.8 0 43 109 35 734.8 0 35 110 46 734.8 0 46 111 35 734.8 0 35 112 52 734.8 0 52 113 34 734.8 0 34 114 31 734.8 0 31 115 49 734.8 0 49 116 42 734.8 0 42 117 52 734.8 0 52 118 37 734.8 0 37 119 31 734.8 0 31 120 50 734.8 0 50 121 50 734.8 0 50 122 61 734.8 0 61 123 120 734.8 0 120 124 182 734.8 0 182 125 522 734.8 0 522 126 269 734.8 0 269 127 205 734.8 0 205 128 170 734.8 0 170 129 122 734.8 0 122 130 67 734.8 0 67 131 165 734.8 0 165 132 58 734.8 0 58 133 63 734.8 0 63 134 78 734.8 0 78 135 80 734.8 0 80 136 77 734.8 0 77 137 92 734.8 0 92 138 82 734.8 0 82 139 111 734.8 0 111 140 100 734.8 0 100 141 105 734.8 0 105 142 109 734.8 0 109 143 193 734.8 0 193 144 1097 734.8 0 1097 145 9065 734.8 0 9065 146 556 734.8 0 556 147 76 734.8 0 76 148 28 734.8 0 28 149 47 734.8 0 47 150 58 734.8 0 58 151 57 734.8 0 57 152 46 734.8 0 46 153 62 734.8 0 62 154 72 734.8 0 72 155 58 734.8 0 58 156 71 734.8 0 71 157 69 734.8 0 69 158 65 734.8 0 65 159 51 734.8 0 51 160 55 734.8 0 55 161 48 734.8 0 48 162 39 734.8 0 39 163 50 734.8 0 50 164 49 734.8 0 49 165 61 734.8 0 61 166 260 734.8 0 260 167 1920 734.8 0 1920 168 116 734.8 0 116 169 56 734.8 0 56 170 52 734.8 0 52 171 47 734.8 0 47 172 46 734.8 0 46 173 49 734.8 0 49 174 57 734.8 0 57 175 70 734.8 0 70 176 58 734.8 0 58 177 42 734.8 0 42 178 62 734.8 0 62 179 45 734.8 0 45 180 86 734.8 0 86 181 53 734.8 0 53 182 65 734.8 0 65 183 71 734.8 0 71 184 85 734.8 0 85 185 325 734.8 0 325 186 1078 734.8 0 1078 187 122 734.8 0 122 188 75 734.8 0 75 189 63 734.8 0 63 190 40 734.8 0 40 191 63 734.8 0 63 192 58 734.8 0 58 193 61 734.8 0 61 194 58 734.8 0 58 195 74 734.8 0 74 196 65 734.8 0 65 197 91 734.8 0 91 198 78 734.8 0 78 199 52 734.8 0 52 200 71 734.8 0 71 201 48 734.8 0 48 202 52 734.8 0 52 203 75 734.8 0 75 204 82 734.8 0 82 205 98 734.8 0 98 206 857 734.8 0 857 207 1098 734.8 0 1098 208 354 734.8 0 354 209 45 734.8 0 45 210 86 734.8 0 86 211 231 734.8 0 231 212 295 734.8 0 295 213 102 734.8 0 102 214 60 734.8 0 60 215 59 734.8 0 59 216 56 734.8 0 56 217 47 734.8 0 47 218 30 734.8 0 30 219 44 734.8 0 44 220 46 734.8 0 46 221 56 734.8 0 56 222 50 734.8 0 50 223 57 734.8 0 57 224 53 734.8 0 53 225 45 734.8 0 45 226 56 734.8 0 56 227 90 734.8 0 90 228 89 734.8 0 89 229 46 734.8 0 46 230 25 734.8 0 25 231 65 734.8 0 65 232 56 734.8 0 56 233 47 734.8 0 47 234 46 734.8 0 46 235 56 734.8 0 56 236 55 734.8 0 55 237 41 734.8 0 41 238 48 734.8 0 48 239 49 734.8 0 49 240 34 734.8 0 34 241 64 734.8 0 64 242 129 734.8 0 129 243 100 734.8 0 100 244 48 734.8 0 48 245 52 734.8 0 52 246 50 734.8 0 50 247 31 734.8 0 31 248 25 734.8 0 25 249 27 734.8 0 27 250 30 734.8 0 30 251 61 734.8 0 61 252 68 734.8 0 68 253 61 734.8 0 61 254 47 734.8 0 47 255 50 734.8 0 50 256 68 734.8 0 68 257 66 734.8 0 66 258 45 734.8 0 45 259 109 734.8 0 109 260 95 734.8 0 95 261 56 734.8 0 56 262 68 734.8 0 68 263 55 734.8 0 55 264 52 734.8 0 52 265 41 734.8 0 41 266 41 734.8 0 41 267 58 734.8 0 58 268 29 734.8 0 29 269 31 734.8 0 31 270 30 734.8 0 30 271 50 734.8 0 50 272 48 734.8 0 48 273 57 734.8 0 57 274 41 734.8 0 41 275 46 734.8 0 46 276 35 734.8 0 35 277 38 734.8 0 38 278 53 734.8 0 53 279 55 734.8 0 55 280 44 734.8 0 44 281 32 734.8 0 32 282 46 734.8 0 46 283 44 734.8 0 44 284 48 734.8 0 48 285 49 734.8 0 49 286 31 734.8 0 31 287 42 734.8 0 42 288 37 734.8 0 37 289 29 734.8 0 29 290 33 734.8 0 33 291 72 734.8 0 72 292 49 734.8 0 49 293 35 734.8 0 35 294 41 734.8 0 41 295 41 734.8 0 41 296 71 734.8 0 71 297 71 734.8 0 71 298 104 734.8 0 104 299 123 734.8 0 123 300 148 734.8 0 148 301 302 734.8 0 302 Finished in 12.72 s (41 us/read; 1.46 M reads/minute). === Summary === Total reads processed: 309,691 Reads with adapters: 3,511 (1.1%) Reads that were too short: 10 (0.0%) Reads written (passing filters): 3,501 (1.1%) Total basepairs processed: 65,737,111 bp Total written (filtered): 953,775 bp (1.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3511 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 2 0.0 3 0 0 0 1 1 18 3 0.0 3 0 0 3 19 79 0.0 3 0 78 1 20 3157 0.0 4 3104 50 0 0 3 21 4 0.0 4 2 2 22 208 0.0 4 202 5 0 0 1 33 1 0.0 4 0 0 0 0 1 48 4 0.0 4 0 0 0 0 4 61 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 73 2 0.0 4 0 0 0 0 2 74 10 0.0 4 0 0 0 0 10 80 1 0.0 4 0 0 0 1 86 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 108 26 0.0 4 0 0 0 23 3 111 1 0.0 4 0 0 0 1 122 1 0.0 4 1 129 1 0.0 4 0 0 0 0 1 155 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 1 179 1 0.0 4 0 0 0 0 1 214 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 0.12 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 3,501 Reads with adapters: 1,105 (31.6%) Reads written (passing filters): 3,501 (100.0%) Total basepairs processed: 953,775 bp Total written (filtered): 667,872 bp (70.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1105 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 98.3% C: 0.7% G: 0.7% T: 0.3% 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 10 2 0.0 1 0 2 11 6 0.0 1 0 6 12 2 0.0 1 0 2 234 2 0.0 1 2 257 1 0.0 1 1 259 1 0.0 1 1 260 6 0.0 1 6 261 1044 0.0 1 990 54 262 37 0.0 1 34 3 263 1 0.0 1 1 266 1 0.0 1 1 271 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.