This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGTTCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 158.06 s (46 us/read; 1.32 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 59,877 (1.7%) Reads that were too short: 10,830 (0.3%) Reads written (passing filters): 49,047 (1.4%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 12,784,568 bp (1.2%) === Adapter 1 === Sequence: GGTTCT; Type: regular 5'; Length: 6; Trimmed: 59877 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1662 847.3 0 1662 7 16005 847.3 0 16005 8 296 847.3 0 296 9 13887 847.3 0 13887 10 75 847.3 0 75 11 52 847.3 0 52 12 33 847.3 0 33 13 41 847.3 0 41 14 35 847.3 0 35 15 23 847.3 0 23 16 39 847.3 0 39 17 37 847.3 0 37 18 34 847.3 0 34 19 39 847.3 0 39 20 47 847.3 0 47 21 44 847.3 0 44 22 64 847.3 0 64 23 425 847.3 0 425 24 566 847.3 0 566 25 1191 847.3 0 1191 26 34 847.3 0 34 27 35 847.3 0 35 28 34 847.3 0 34 29 37 847.3 0 37 30 32 847.3 0 32 31 28 847.3 0 28 32 25 847.3 0 25 33 26 847.3 0 26 34 27 847.3 0 27 35 34 847.3 0 34 36 18 847.3 0 18 37 31 847.3 0 31 38 33 847.3 0 33 39 42 847.3 0 42 40 34 847.3 0 34 41 36 847.3 0 36 42 29 847.3 0 29 43 26 847.3 0 26 44 20 847.3 0 20 45 21 847.3 0 21 46 28 847.3 0 28 47 27 847.3 0 27 48 30 847.3 0 30 49 29 847.3 0 29 50 27 847.3 0 27 51 20 847.3 0 20 52 33 847.3 0 33 53 23 847.3 0 23 54 31 847.3 0 31 55 26 847.3 0 26 56 22 847.3 0 22 57 40 847.3 0 40 58 29 847.3 0 29 59 22 847.3 0 22 60 23 847.3 0 23 61 32 847.3 0 32 62 13 847.3 0 13 63 27 847.3 0 27 64 22 847.3 0 22 65 29 847.3 0 29 66 30 847.3 0 30 67 29 847.3 0 29 68 27 847.3 0 27 69 21 847.3 0 21 70 28 847.3 0 28 71 31 847.3 0 31 72 28 847.3 0 28 73 26 847.3 0 26 74 72 847.3 0 72 75 209 847.3 0 209 76 17 847.3 0 17 77 20 847.3 0 20 78 34 847.3 0 34 79 20 847.3 0 20 80 20 847.3 0 20 81 37 847.3 0 37 82 30 847.3 0 30 83 47 847.3 0 47 84 51 847.3 0 51 85 87 847.3 0 87 86 66 847.3 0 66 87 48 847.3 0 48 88 250 847.3 0 250 89 355 847.3 0 355 90 278 847.3 0 278 91 34 847.3 0 34 92 38 847.3 0 38 93 36 847.3 0 36 94 34 847.3 0 34 95 55 847.3 0 55 96 132 847.3 0 132 97 78 847.3 0 78 98 57 847.3 0 57 99 64 847.3 0 64 100 79 847.3 0 79 101 390 847.3 0 390 102 923 847.3 0 923 103 1363 847.3 0 1363 104 106 847.3 0 106 105 47 847.3 0 47 106 44 847.3 0 44 107 20 847.3 0 20 108 17 847.3 0 17 109 30 847.3 0 30 110 26 847.3 0 26 111 34 847.3 0 34 112 59 847.3 0 59 113 91 847.3 0 91 114 118 847.3 0 118 115 45 847.3 0 45 116 33 847.3 0 33 117 69 847.3 0 69 118 123 847.3 0 123 119 41 847.3 0 41 120 47 847.3 0 47 121 42 847.3 0 42 122 42 847.3 0 42 123 55 847.3 0 55 124 74 847.3 0 74 125 71 847.3 0 71 126 173 847.3 0 173 127 2061 847.3 0 2061 128 694 847.3 0 694 129 1262 847.3 0 1262 130 51 847.3 0 51 131 47 847.3 0 47 132 71 847.3 0 71 133 38 847.3 0 38 134 43 847.3 0 43 135 32 847.3 0 32 136 24 847.3 0 24 137 52 847.3 0 52 138 21 847.3 0 21 139 22 847.3 0 22 140 34 847.3 0 34 141 49 847.3 0 49 142 28 847.3 0 28 143 42 847.3 0 42 144 171 847.3 0 171 145 44 847.3 0 44 146 77 847.3 0 77 147 62 847.3 0 62 148 46 847.3 0 46 149 74 847.3 0 74 150 23 847.3 0 23 151 30 847.3 0 30 152 24 847.3 0 24 153 25 847.3 0 25 154 21 847.3 0 21 155 18 847.3 0 18 156 28 847.3 0 28 157 32 847.3 0 32 158 15 847.3 0 15 159 36 847.3 0 36 160 31 847.3 0 31 161 34 847.3 0 34 162 38 847.3 0 38 163 27 847.3 0 27 164 20 847.3 0 20 165 19 847.3 0 19 166 23 847.3 0 23 167 30 847.3 0 30 168 36 847.3 0 36 169 39 847.3 0 39 170 19 847.3 0 19 171 21 847.3 0 21 172 27 847.3 0 27 173 9 847.3 0 9 174 45 847.3 0 45 175 26 847.3 0 26 176 57 847.3 0 57 177 35 847.3 0 35 178 38 847.3 0 38 179 17 847.3 0 17 180 34 847.3 0 34 181 18 847.3 0 18 182 35 847.3 0 35 183 36 847.3 0 36 184 27 847.3 0 27 185 31 847.3 0 31 186 30 847.3 0 30 187 32 847.3 0 32 188 60 847.3 0 60 189 29 847.3 0 29 190 20 847.3 0 20 191 21 847.3 0 21 192 29 847.3 0 29 193 45 847.3 0 45 194 43 847.3 0 43 195 58 847.3 0 58 196 50 847.3 0 50 197 30 847.3 0 30 198 33 847.3 0 33 199 24 847.3 0 24 200 59 847.3 0 59 201 134 847.3 0 134 202 99 847.3 0 99 203 52 847.3 0 52 204 40 847.3 0 40 205 42 847.3 0 42 206 26 847.3 0 26 207 34 847.3 0 34 208 52 847.3 0 52 209 38 847.3 0 38 210 24 847.3 0 24 211 37 847.3 0 37 212 25 847.3 0 25 213 42 847.3 0 42 214 43 847.3 0 43 215 48 847.3 0 48 216 28 847.3 0 28 217 40 847.3 0 40 218 107 847.3 0 107 219 49 847.3 0 49 220 38 847.3 0 38 221 24 847.3 0 24 222 34 847.3 0 34 223 52 847.3 0 52 224 37 847.3 0 37 225 31 847.3 0 31 226 40 847.3 0 40 227 33 847.3 0 33 228 36 847.3 0 36 229 37 847.3 0 37 230 40 847.3 0 40 231 37 847.3 0 37 232 36 847.3 0 36 233 38 847.3 0 38 234 120 847.3 0 120 235 153 847.3 0 153 236 50 847.3 0 50 237 66 847.3 0 66 238 70 847.3 0 70 239 59 847.3 0 59 240 94 847.3 0 94 241 105 847.3 0 105 242 72 847.3 0 72 243 48 847.3 0 48 244 41 847.3 0 41 245 30 847.3 0 30 246 65 847.3 0 65 247 56 847.3 0 56 248 40 847.3 0 40 249 47 847.3 0 47 250 51 847.3 0 51 251 50 847.3 0 50 252 52 847.3 0 52 253 44 847.3 0 44 254 51 847.3 0 51 255 284 847.3 0 284 256 57 847.3 0 57 257 64 847.3 0 64 258 73 847.3 0 73 259 1128 847.3 0 1128 260 1319 847.3 0 1319 261 1002 847.3 0 1002 262 218 847.3 0 218 263 44 847.3 0 44 264 24 847.3 0 24 265 30 847.3 0 30 266 42 847.3 0 42 267 42 847.3 0 42 268 41 847.3 0 41 269 38 847.3 0 38 270 32 847.3 0 32 271 26 847.3 0 26 272 37 847.3 0 37 273 33 847.3 0 33 274 40 847.3 0 40 275 39 847.3 0 39 276 58 847.3 0 58 277 42 847.3 0 42 278 67 847.3 0 67 279 709 847.3 0 709 280 1562 847.3 0 1562 281 97 847.3 0 97 282 26 847.3 0 26 283 30 847.3 0 30 284 28 847.3 0 28 285 29 847.3 0 29 286 51 847.3 0 51 287 17 847.3 0 17 288 38 847.3 0 38 289 32 847.3 0 32 290 26 847.3 0 26 291 45 847.3 0 45 292 79 847.3 0 79 293 83 847.3 0 83 294 67 847.3 0 67 295 81 847.3 0 81 296 78 847.3 0 78 297 79 847.3 0 79 298 35 847.3 0 35 299 77 847.3 0 77 300 35 847.3 0 35 301 43 847.3 0 43 Finished in 3.39 s (69 us/read; 0.87 M reads/minute). === Summary === Total reads processed: 49,047 Reads with adapters: 14,373 (29.3%) Reads that were too short: 20 (0.0%) Reads written (passing filters): 14,353 (29.3%) Total basepairs processed: 12,784,568 bp Total written (filtered): 3,938,683 bp (30.8%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 14373 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 15 3 0.0 3 0 0 3 16 139 0.0 3 0 136 3 17 14084 0.0 3 13808 263 11 2 18 33 0.0 3 2 27 3 1 19 15 0.0 3 0 0 13 2 20 19 0.0 3 3 0 0 16 21 1 0.0 3 1 24 1 0.0 3 0 0 0 1 26 1 0.0 3 0 0 0 1 34 1 0.0 3 0 0 0 1 38 1 0.0 3 0 0 0 1 40 3 0.0 3 0 0 2 1 44 2 0.0 3 0 0 0 2 53 1 0.0 3 0 0 0 1 56 1 0.0 3 0 0 1 64 25 0.0 3 0 0 0 25 67 4 0.0 3 0 0 0 4 69 1 0.0 3 0 0 0 1 75 4 0.0 3 0 0 0 4 76 1 0.0 3 0 0 0 1 82 1 0.0 3 0 0 0 1 83 1 0.0 3 0 0 0 1 87 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 94 1 0.0 3 0 0 0 1 95 1 0.0 3 0 0 0 1 96 1 0.0 3 0 0 0 1 103 1 0.0 3 0 0 0 1 104 2 0.0 3 0 0 0 2 107 1 0.0 3 0 0 0 1 111 2 0.0 3 0 0 0 2 120 1 0.0 3 1 138 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 159 2 0.0 3 0 0 0 2 163 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 166 1 0.0 3 0 0 0 1 175 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 188 1 0.0 3 0 0 0 1 190 1 0.0 3 1 194 1 0.0 3 0 0 0 1 209 1 0.0 3 0 0 0 1 236 1 0.0 3 0 0 0 1 265 1 0.0 3 0 0 0 1 280 2 0.0 3 0 0 0 2 286 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.84 s (59 us/read; 1.03 M reads/minute). === Summary === Total reads processed: 14,353 Reads with adapters: 1,008 (7.0%) Reads written (passing filters): 14,353 (100.0%) Total basepairs processed: 3,938,683 bp Total written (filtered): 3,935,635 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1008 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 84.5% C: 5.2% G: 10.0% 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 3 990 224.3 0 990 4 13 56.1 0 13 5 4 14.0 0 4 6 1 3.5 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.