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 ... Finished in 90.55 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 65,345 (1.9%) Reads that were too short: 9,606 (0.3%) Reads written (passing filters): 55,739 (1.6%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 12,593,853 bp (1.2%) === Adapter 1 === Sequence: TCCGCT; Type: regular 5'; Length: 6; Trimmed: 65345 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 201 846.0 0 201 7 334 846.0 0 334 8 15062 846.0 0 15062 9 41 846.0 0 41 10 9 846.0 0 9 11 8 846.0 0 8 12 8 846.0 0 8 13 5 846.0 0 5 14 11 846.0 0 11 15 4 846.0 0 4 16 50 846.0 0 50 17 52 846.0 0 52 18 43 846.0 0 43 19 6 846.0 0 6 20 7 846.0 0 7 21 8 846.0 0 8 22 14 846.0 0 14 23 4 846.0 0 4 24 11 846.0 0 11 25 9 846.0 0 9 26 8 846.0 0 8 27 9 846.0 0 9 28 10 846.0 0 10 29 10 846.0 0 10 30 12 846.0 0 12 31 17 846.0 0 17 32 40 846.0 0 40 33 18 846.0 0 18 34 99 846.0 0 99 35 14 846.0 0 14 36 6 846.0 0 6 37 109 846.0 0 109 38 151 846.0 0 151 39 1907 846.0 0 1907 40 221 846.0 0 221 41 12 846.0 0 12 42 94 846.0 0 94 43 13 846.0 0 13 44 8 846.0 0 8 45 13 846.0 0 13 46 11 846.0 0 11 47 38 846.0 0 38 48 24 846.0 0 24 49 15 846.0 0 15 50 10 846.0 0 10 51 18 846.0 0 18 52 108 846.0 0 108 53 131 846.0 0 131 54 110 846.0 0 110 55 7 846.0 0 7 56 6 846.0 0 6 57 10 846.0 0 10 58 15 846.0 0 15 59 24 846.0 0 24 60 36 846.0 0 36 61 118 846.0 0 118 62 16188 846.0 0 16188 63 42 846.0 0 42 64 27 846.0 0 27 65 15 846.0 0 15 66 6 846.0 0 6 67 10 846.0 0 10 68 11 846.0 0 11 69 6 846.0 0 6 70 14 846.0 0 14 71 56 846.0 0 56 72 48 846.0 0 48 73 103 846.0 0 103 74 11 846.0 0 11 75 4 846.0 0 4 76 12 846.0 0 12 77 10 846.0 0 10 78 14 846.0 0 14 79 15 846.0 0 15 80 7 846.0 0 7 81 22 846.0 0 22 82 19 846.0 0 19 83 18 846.0 0 18 84 251 846.0 0 251 85 25 846.0 0 25 86 39 846.0 0 39 87 19 846.0 0 19 88 8 846.0 0 8 89 17 846.0 0 17 90 15 846.0 0 15 91 23 846.0 0 23 92 13 846.0 0 13 93 45 846.0 0 45 94 102 846.0 0 102 95 89 846.0 0 89 96 24 846.0 0 24 97 25 846.0 0 25 98 16 846.0 0 16 99 12 846.0 0 12 100 18 846.0 0 18 101 9 846.0 0 9 102 18 846.0 0 18 103 37 846.0 0 37 104 39 846.0 0 39 105 22 846.0 0 22 106 60 846.0 0 60 107 22 846.0 0 22 108 65 846.0 0 65 109 32 846.0 0 32 110 50 846.0 0 50 111 228 846.0 0 228 112 37 846.0 0 37 113 39 846.0 0 39 114 19 846.0 0 19 115 25 846.0 0 25 116 18 846.0 0 18 117 70 846.0 0 70 118 119 846.0 0 119 119 43 846.0 0 43 120 29 846.0 0 29 121 24 846.0 0 24 122 18 846.0 0 18 123 24 846.0 0 24 124 38 846.0 0 38 125 52 846.0 0 52 126 58 846.0 0 58 127 188 846.0 0 188 128 175 846.0 0 175 129 97 846.0 0 97 130 25 846.0 0 25 131 30 846.0 0 30 132 42 846.0 0 42 133 71 846.0 0 71 134 36 846.0 0 36 135 19 846.0 0 19 136 21 846.0 0 21 137 28 846.0 0 28 138 33 846.0 0 33 139 53 846.0 0 53 140 69 846.0 0 69 141 183 846.0 0 183 142 133 846.0 0 133 143 191 846.0 0 191 144 6759 846.0 0 6759 145 2789 846.0 0 2789 146 3347 846.0 0 3347 147 198 846.0 0 198 148 17 846.0 0 17 149 18 846.0 0 18 150 30 846.0 0 30 151 91 846.0 0 91 152 72 846.0 0 72 153 66 846.0 0 66 154 48 846.0 0 48 155 35 846.0 0 35 156 45 846.0 0 45 157 171 846.0 0 171 158 44 846.0 0 44 159 102 846.0 0 102 160 21 846.0 0 21 161 30 846.0 0 30 162 16 846.0 0 16 163 14 846.0 0 14 164 18 846.0 0 18 165 18 846.0 0 18 166 24 846.0 0 24 167 20 846.0 0 20 168 19 846.0 0 19 169 14 846.0 0 14 170 45 846.0 0 45 171 161 846.0 0 161 172 88 846.0 0 88 173 49 846.0 0 49 174 28 846.0 0 28 175 35 846.0 0 35 176 65 846.0 0 65 177 74 846.0 0 74 178 61 846.0 0 61 179 267 846.0 0 267 180 251 846.0 0 251 181 119 846.0 0 119 182 25 846.0 0 25 183 17 846.0 0 17 184 23 846.0 0 23 185 30 846.0 0 30 186 34 846.0 0 34 187 16 846.0 0 16 188 15 846.0 0 15 189 17 846.0 0 17 190 63 846.0 0 63 191 249 846.0 0 249 192 101 846.0 0 101 193 25 846.0 0 25 194 28 846.0 0 28 195 19 846.0 0 19 196 116 846.0 0 116 197 105 846.0 0 105 198 120 846.0 0 120 199 82 846.0 0 82 200 22 846.0 0 22 201 36 846.0 0 36 202 21 846.0 0 21 203 16 846.0 0 16 204 26 846.0 0 26 205 46 846.0 0 46 206 27 846.0 0 27 207 28 846.0 0 28 208 12 846.0 0 12 209 17 846.0 0 17 210 9 846.0 0 9 211 17 846.0 0 17 212 33 846.0 0 33 213 19 846.0 0 19 214 23 846.0 0 23 215 17 846.0 0 17 216 12 846.0 0 12 217 32 846.0 0 32 218 23 846.0 0 23 219 28 846.0 0 28 220 21 846.0 0 21 221 39 846.0 0 39 222 27 846.0 0 27 223 14 846.0 0 14 224 27 846.0 0 27 225 26 846.0 0 26 226 157 846.0 0 157 227 33 846.0 0 33 228 39 846.0 0 39 229 33 846.0 0 33 230 48 846.0 0 48 231 200 846.0 0 200 232 42 846.0 0 42 233 19 846.0 0 19 234 33 846.0 0 33 235 103 846.0 0 103 236 178 846.0 0 178 237 161 846.0 0 161 238 114 846.0 0 114 239 30 846.0 0 30 240 145 846.0 0 145 241 1176 846.0 0 1176 242 90 846.0 0 90 243 13 846.0 0 13 244 16 846.0 0 16 245 27 846.0 0 27 246 39 846.0 0 39 247 60 846.0 0 60 248 59 846.0 0 59 249 43 846.0 0 43 250 252 846.0 0 252 251 50 846.0 0 50 252 80 846.0 0 80 253 32 846.0 0 32 254 21 846.0 0 21 255 41 846.0 0 41 256 31 846.0 0 31 257 24 846.0 0 24 258 34 846.0 0 34 259 31 846.0 0 31 260 377 846.0 0 377 261 1455 846.0 0 1455 262 1543 846.0 0 1543 263 132 846.0 0 132 264 44 846.0 0 44 265 38 846.0 0 38 266 35 846.0 0 35 267 72 846.0 0 72 268 61 846.0 0 61 269 22 846.0 0 22 270 75 846.0 0 75 271 36 846.0 0 36 272 26 846.0 0 26 273 20 846.0 0 20 274 15 846.0 0 15 275 19 846.0 0 19 276 19 846.0 0 19 277 52 846.0 0 52 278 46 846.0 0 46 279 27 846.0 0 27 280 24 846.0 0 24 281 43 846.0 0 43 282 32 846.0 0 32 283 39 846.0 0 39 284 352 846.0 0 352 285 200 846.0 0 200 286 30 846.0 0 30 287 36 846.0 0 36 288 73 846.0 0 73 289 45 846.0 0 45 290 26 846.0 0 26 291 56 846.0 0 56 292 278 846.0 0 278 293 80 846.0 0 80 294 29 846.0 0 29 295 25 846.0 0 25 296 51 846.0 0 51 297 17 846.0 0 17 298 8 846.0 0 8 299 10 846.0 0 10 300 6 846.0 0 6 301 18 846.0 0 18 Finished in 2.26 s (41 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 55,739 Reads with adapters: 13,854 (24.9%) Reads that were too short: 12 (0.0%) Reads written (passing filters): 13,842 (24.8%) Total basepairs processed: 12,593,853 bp Total written (filtered): 3,817,325 bp (30.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 13854 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 14 2 0.0 2 0 0 0 2 15 7 0.0 3 0 0 6 1 16 115 0.0 3 0 112 2 1 17 13642 0.0 3 13451 188 3 18 34 0.0 3 0 29 5 19 10 0.0 3 1 0 6 3 20 7 0.0 3 0 0 0 7 25 3 0.0 3 0 0 0 3 40 1 0.0 3 0 0 0 1 42 1 0.0 3 0 0 0 1 46 1 0.0 3 0 0 0 1 48 1 0.0 3 0 0 0 1 55 1 0.0 3 0 0 0 1 74 1 0.0 3 0 0 0 1 78 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 107 1 0.0 3 0 0 0 1 109 3 0.0 3 0 0 0 3 112 1 0.0 3 0 0 0 1 121 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 131 2 0.0 3 0 0 0 2 132 1 0.0 3 0 0 0 1 134 1 0.0 3 0 0 0 1 135 1 0.0 3 0 0 0 1 137 2 0.0 3 0 0 0 2 144 1 0.0 3 0 0 0 1 151 1 0.0 3 0 0 0 1 156 1 0.0 3 0 0 0 1 157 1 0.0 3 0 0 0 1 174 1 0.0 3 0 0 0 1 177 1 0.0 3 0 0 0 1 227 1 0.0 3 0 0 0 1 228 1 0.0 3 0 0 0 1 229 1 0.0 3 0 0 0 1 231 1 0.0 3 0 0 0 1 234 1 0.0 3 0 0 0 1 251 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 0.49 s (35 us/read; 1.69 M reads/minute). === Summary === Total reads processed: 13,842 Reads with adapters: 165 (1.2%) Reads written (passing filters): 13,842 (100.0%) Total basepairs processed: 3,817,325 bp Total written (filtered): 3,816,830 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 165 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 7.9% C: 86.1% G: 3.0% T: 3.0% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 165 216.3 0 165 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.