This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGTCC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 88.67 s (26 us/read; 2.34 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 46,793 (1.4%) Reads that were too short: 5,195 (0.1%) Reads written (passing filters): 41,598 (1.2%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 9,566,514 bp (0.9%) === Adapter 1 === Sequence: CCGTCC; Type: regular 5'; Length: 6; Trimmed: 46793 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 42 846.0 0 42 7 209 846.0 0 209 8 3135 846.0 0 3135 9 56 846.0 0 56 10 13 846.0 0 13 11 15 846.0 0 15 12 18 846.0 0 18 13 14 846.0 0 14 14 16 846.0 0 16 15 20 846.0 0 20 16 20 846.0 0 20 17 14 846.0 0 14 18 23 846.0 0 23 19 11 846.0 0 11 20 18 846.0 0 18 21 19 846.0 0 19 22 18 846.0 0 18 23 16 846.0 0 16 24 25 846.0 0 25 25 17 846.0 0 17 26 14 846.0 0 14 27 24 846.0 0 24 28 17 846.0 0 17 29 22 846.0 0 22 30 52 846.0 0 52 31 122 846.0 0 122 32 23 846.0 0 23 33 13 846.0 0 13 34 25 846.0 0 25 35 98 846.0 0 98 36 1212 846.0 0 1212 37 428 846.0 0 428 38 44 846.0 0 44 39 25 846.0 0 25 40 38 846.0 0 38 41 19 846.0 0 19 42 24 846.0 0 24 43 15 846.0 0 15 44 25 846.0 0 25 45 19 846.0 0 19 46 26 846.0 0 26 47 16 846.0 0 16 48 17 846.0 0 17 49 22 846.0 0 22 50 20 846.0 0 20 51 26 846.0 0 26 52 24 846.0 0 24 53 27 846.0 0 27 54 60 846.0 0 60 55 122 846.0 0 122 56 24765 846.0 0 24765 57 53 846.0 0 53 58 21 846.0 0 21 59 35 846.0 0 35 60 22 846.0 0 22 61 26 846.0 0 26 62 24 846.0 0 24 63 22 846.0 0 22 64 24 846.0 0 24 65 15 846.0 0 15 66 19 846.0 0 19 67 47 846.0 0 47 68 27 846.0 0 27 69 28 846.0 0 28 70 29 846.0 0 29 71 39 846.0 0 39 72 137 846.0 0 137 73 868 846.0 0 868 74 469 846.0 0 469 75 554 846.0 0 554 76 21 846.0 0 21 77 16 846.0 0 16 78 22 846.0 0 22 79 17 846.0 0 17 80 19 846.0 0 19 81 15 846.0 0 15 82 20 846.0 0 20 83 16 846.0 0 16 84 17 846.0 0 17 85 15 846.0 0 15 86 51 846.0 0 51 87 29 846.0 0 29 88 33 846.0 0 33 89 27 846.0 0 27 90 22 846.0 0 22 91 36 846.0 0 36 92 41 846.0 0 41 93 26 846.0 0 26 94 29 846.0 0 29 95 26 846.0 0 26 96 20 846.0 0 20 97 13 846.0 0 13 98 32 846.0 0 32 99 21 846.0 0 21 100 28 846.0 0 28 101 19 846.0 0 19 102 16 846.0 0 16 103 41 846.0 0 41 104 15 846.0 0 15 105 28 846.0 0 28 106 29 846.0 0 29 107 17 846.0 0 17 108 19 846.0 0 19 109 17 846.0 0 17 110 18 846.0 0 18 111 42 846.0 0 42 112 54 846.0 0 54 113 17 846.0 0 17 114 31 846.0 0 31 115 34 846.0 0 34 116 23 846.0 0 23 117 14 846.0 0 14 118 14 846.0 0 14 119 20 846.0 0 20 120 18 846.0 0 18 121 31 846.0 0 31 122 43 846.0 0 43 123 64 846.0 0 64 124 33 846.0 0 33 125 20 846.0 0 20 126 23 846.0 0 23 127 15 846.0 0 15 128 27 846.0 0 27 129 34 846.0 0 34 130 39 846.0 0 39 131 23 846.0 0 23 132 14 846.0 0 14 133 27 846.0 0 27 134 22 846.0 0 22 135 35 846.0 0 35 136 77 846.0 0 77 137 52 846.0 0 52 138 148 846.0 0 148 139 31 846.0 0 31 140 29 846.0 0 29 141 45 846.0 0 45 142 44 846.0 0 44 143 27 846.0 0 27 144 22 846.0 0 22 145 28 846.0 0 28 146 82 846.0 0 82 147 189 846.0 0 189 148 256 846.0 0 256 149 58 846.0 0 58 150 39 846.0 0 39 151 22 846.0 0 22 152 25 846.0 0 25 153 32 846.0 0 32 154 40 846.0 0 40 155 58 846.0 0 58 156 58 846.0 0 58 157 75 846.0 0 75 158 307 846.0 0 307 159 119 846.0 0 119 160 248 846.0 0 248 161 51 846.0 0 51 162 89 846.0 0 89 163 75 846.0 0 75 164 20 846.0 0 20 165 40 846.0 0 40 166 85 846.0 0 85 167 71 846.0 0 71 168 58 846.0 0 58 169 358 846.0 0 358 170 57 846.0 0 57 171 55 846.0 0 55 172 45 846.0 0 45 173 61 846.0 0 61 174 710 846.0 0 710 175 593 846.0 0 593 176 316 846.0 0 316 177 48 846.0 0 48 178 31 846.0 0 31 179 28 846.0 0 28 180 258 846.0 0 258 181 41 846.0 0 41 182 176 846.0 0 176 183 61 846.0 0 61 184 40 846.0 0 40 185 54 846.0 0 54 186 75 846.0 0 75 187 379 846.0 0 379 188 143 846.0 0 143 189 91 846.0 0 91 190 14 846.0 0 14 191 16 846.0 0 16 192 30 846.0 0 30 193 26 846.0 0 26 194 24 846.0 0 24 195 26 846.0 0 26 196 19 846.0 0 19 197 21 846.0 0 21 198 18 846.0 0 18 199 28 846.0 0 28 200 26 846.0 0 26 201 20 846.0 0 20 202 25 846.0 0 25 203 34 846.0 0 34 204 85 846.0 0 85 205 66 846.0 0 66 206 31 846.0 0 31 207 35 846.0 0 35 208 31 846.0 0 31 209 29 846.0 0 29 210 25 846.0 0 25 211 29 846.0 0 29 212 29 846.0 0 29 213 18 846.0 0 18 214 50 846.0 0 50 215 66 846.0 0 66 216 26 846.0 0 26 217 34 846.0 0 34 218 35 846.0 0 35 219 31 846.0 0 31 220 22 846.0 0 22 221 31 846.0 0 31 222 39 846.0 0 39 223 41 846.0 0 41 224 28 846.0 0 28 225 28 846.0 0 28 226 36 846.0 0 36 227 87 846.0 0 87 228 81 846.0 0 81 229 56 846.0 0 56 230 38 846.0 0 38 231 70 846.0 0 70 232 53 846.0 0 53 233 29 846.0 0 29 234 45 846.0 0 45 235 34 846.0 0 34 236 26 846.0 0 26 237 44 846.0 0 44 238 172 846.0 0 172 239 34 846.0 0 34 240 23 846.0 0 23 241 19 846.0 0 19 242 28 846.0 0 28 243 18 846.0 0 18 244 27 846.0 0 27 245 33 846.0 0 33 246 43 846.0 0 43 247 28 846.0 0 28 248 45 846.0 0 45 249 34 846.0 0 34 250 37 846.0 0 37 251 242 846.0 0 242 252 119 846.0 0 119 253 323 846.0 0 323 254 182 846.0 0 182 255 78 846.0 0 78 256 26 846.0 0 26 257 38 846.0 0 38 258 32 846.0 0 32 259 32 846.0 0 32 260 62 846.0 0 62 261 67 846.0 0 67 262 198 846.0 0 198 263 111 846.0 0 111 264 92 846.0 0 92 265 33 846.0 0 33 266 26 846.0 0 26 267 43 846.0 0 43 268 29 846.0 0 29 269 22 846.0 0 22 270 22 846.0 0 22 271 14 846.0 0 14 272 39 846.0 0 39 273 48 846.0 0 48 274 38 846.0 0 38 275 38 846.0 0 38 276 41 846.0 0 41 277 45 846.0 0 45 278 70 846.0 0 70 279 55 846.0 0 55 280 30 846.0 0 30 281 82 846.0 0 82 282 69 846.0 0 69 283 34 846.0 0 34 284 20 846.0 0 20 285 88 846.0 0 88 286 66 846.0 0 66 287 28 846.0 0 28 288 25 846.0 0 25 289 25 846.0 0 25 290 28 846.0 0 28 291 50 846.0 0 50 292 42 846.0 0 42 293 13 846.0 0 13 294 45 846.0 0 45 295 86 846.0 0 86 296 34 846.0 0 34 297 35 846.0 0 35 298 44 846.0 0 44 299 54 846.0 0 54 300 67 846.0 0 67 301 57 846.0 0 57 Finished in 1.61 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 41,598 Reads with adapters: 3,342 (8.0%) Reads that were too short: 19 (0.0%) Reads written (passing filters): 3,323 (8.0%) Total basepairs processed: 9,566,514 bp Total written (filtered): 915,398 bp (9.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 3342 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 6 0.0 3 0 0 6 16 31 0.0 3 0 31 17 3112 0.0 3 3074 37 0 1 18 9 0.0 3 0 7 2 19 149 0.0 3 145 2 1 1 20 5 0.0 3 0 1 1 3 23 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 0 1 54 1 0.0 3 0 0 0 1 84 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 124 1 0.0 3 0 0 0 1 134 2 0.0 3 0 0 0 2 139 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 146 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 176 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 200 1 0.0 3 0 0 0 1 218 1 0.0 3 0 0 0 1 219 1 0.0 3 0 0 0 1 220 1 0.0 3 0 0 0 1 221 2 0.0 3 0 0 0 2 232 3 0.0 3 0 0 0 3 234 1 0.0 3 0 0 0 1 236 1 0.0 3 0 0 0 1 241 1 0.0 3 0 0 0 1 244 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 0.12 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 3,323 Reads with adapters: 62 (1.9%) Reads written (passing filters): 3,323 (100.0%) Total basepairs processed: 915,398 bp Total written (filtered): 915,211 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 62 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 82.3% C: 9.7% G: 8.1% T: 0.0% 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 61 51.9 0 61 4 1 13.0 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.