This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAGGT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 90.77 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 52,714 (1.5%) Reads that were too short: 13,282 (0.4%) Reads written (passing filters): 39,432 (1.1%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 9,014,494 bp (0.9%) === Adapter 1 === Sequence: ACAGGT; Type: regular 5'; Length: 6; Trimmed: 52714 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 167 846.0 0 167 7 15492 846.0 0 15492 8 40 846.0 0 40 9 17 846.0 0 17 10 16 846.0 0 16 11 19 846.0 0 19 12 11 846.0 0 11 13 16 846.0 0 16 14 29 846.0 0 29 15 13 846.0 0 13 16 18 846.0 0 18 17 59 846.0 0 59 18 41 846.0 0 41 19 40 846.0 0 40 20 26 846.0 0 26 21 25 846.0 0 25 22 29 846.0 0 29 23 20 846.0 0 20 24 15 846.0 0 15 25 14 846.0 0 14 26 18 846.0 0 18 27 19 846.0 0 19 28 20 846.0 0 20 29 11 846.0 0 11 30 32 846.0 0 32 31 25 846.0 0 25 32 25 846.0 0 25 33 23 846.0 0 23 34 29 846.0 0 29 35 28 846.0 0 28 36 32 846.0 0 32 37 24 846.0 0 24 38 24 846.0 0 24 39 24 846.0 0 24 40 18 846.0 0 18 41 30 846.0 0 30 42 27 846.0 0 27 43 23 846.0 0 23 44 39 846.0 0 39 45 22 846.0 0 22 46 24 846.0 0 24 47 26 846.0 0 26 48 14 846.0 0 14 49 16 846.0 0 16 50 24 846.0 0 24 51 22 846.0 0 22 52 40 846.0 0 40 53 33 846.0 0 33 54 32 846.0 0 32 55 20 846.0 0 20 56 27 846.0 0 27 57 30 846.0 0 30 58 23 846.0 0 23 59 30 846.0 0 30 60 22 846.0 0 22 61 39 846.0 0 39 62 19 846.0 0 19 63 16 846.0 0 16 64 21 846.0 0 21 65 42 846.0 0 42 66 47 846.0 0 47 67 41 846.0 0 41 68 58 846.0 0 58 69 87 846.0 0 87 70 99 846.0 0 99 71 2241 846.0 0 2241 72 3167 846.0 0 3167 73 1660 846.0 0 1660 74 24 846.0 0 24 75 19 846.0 0 19 76 21 846.0 0 21 77 21 846.0 0 21 78 69 846.0 0 69 79 42 846.0 0 42 80 36 846.0 0 36 81 19 846.0 0 19 82 15 846.0 0 15 83 28 846.0 0 28 84 40 846.0 0 40 85 35 846.0 0 35 86 29 846.0 0 29 87 40 846.0 0 40 88 22 846.0 0 22 89 34 846.0 0 34 90 57 846.0 0 57 91 61 846.0 0 61 92 71 846.0 0 71 93 675 846.0 0 675 94 167 846.0 0 167 95 155 846.0 0 155 96 755 846.0 0 755 97 305 846.0 0 305 98 798 846.0 0 798 99 116 846.0 0 116 100 50 846.0 0 50 101 37 846.0 0 37 102 30 846.0 0 30 103 25 846.0 0 25 104 21 846.0 0 21 105 26 846.0 0 26 106 19 846.0 0 19 107 36 846.0 0 36 108 72 846.0 0 72 109 64 846.0 0 64 110 35 846.0 0 35 111 39 846.0 0 39 112 32 846.0 0 32 113 46 846.0 0 46 114 98 846.0 0 98 115 129 846.0 0 129 116 94 846.0 0 94 117 53 846.0 0 53 118 61 846.0 0 61 119 49 846.0 0 49 120 70 846.0 0 70 121 76 846.0 0 76 122 63 846.0 0 63 123 57 846.0 0 57 124 135 846.0 0 135 125 203 846.0 0 203 126 253 846.0 0 253 127 87 846.0 0 87 128 104 846.0 0 104 129 94 846.0 0 94 130 123 846.0 0 123 131 107 846.0 0 107 132 110 846.0 0 110 133 94 846.0 0 94 134 116 846.0 0 116 135 264 846.0 0 264 136 124 846.0 0 124 137 101 846.0 0 101 138 68 846.0 0 68 139 61 846.0 0 61 140 70 846.0 0 70 141 55 846.0 0 55 142 65 846.0 0 65 143 83 846.0 0 83 144 114 846.0 0 114 145 108 846.0 0 108 146 77 846.0 0 77 147 46 846.0 0 46 148 47 846.0 0 47 149 49 846.0 0 49 150 80 846.0 0 80 151 63 846.0 0 63 152 57 846.0 0 57 153 97 846.0 0 97 154 132 846.0 0 132 155 168 846.0 0 168 156 123 846.0 0 123 157 92 846.0 0 92 158 74 846.0 0 74 159 79 846.0 0 79 160 74 846.0 0 74 161 63 846.0 0 63 162 65 846.0 0 65 163 76 846.0 0 76 164 102 846.0 0 102 165 166 846.0 0 166 166 114 846.0 0 114 167 74 846.0 0 74 168 82 846.0 0 82 169 65 846.0 0 65 170 81 846.0 0 81 171 85 846.0 0 85 172 141 846.0 0 141 173 191 846.0 0 191 174 189 846.0 0 189 175 156 846.0 0 156 176 77 846.0 0 77 177 75 846.0 0 75 178 114 846.0 0 114 179 116 846.0 0 116 180 109 846.0 0 109 181 94 846.0 0 94 182 103 846.0 0 103 183 94 846.0 0 94 184 97 846.0 0 97 185 131 846.0 0 131 186 127 846.0 0 127 187 80 846.0 0 80 188 63 846.0 0 63 189 89 846.0 0 89 190 195 846.0 0 195 191 321 846.0 0 321 192 539 846.0 0 539 193 777 846.0 0 777 194 694 846.0 0 694 195 116 846.0 0 116 196 108 846.0 0 108 197 86 846.0 0 86 198 88 846.0 0 88 199 81 846.0 0 81 200 64 846.0 0 64 201 91 846.0 0 91 202 98 846.0 0 98 203 196 846.0 0 196 204 228 846.0 0 228 205 138 846.0 0 138 206 77 846.0 0 77 207 81 846.0 0 81 208 79 846.0 0 79 209 121 846.0 0 121 210 207 846.0 0 207 211 196 846.0 0 196 212 163 846.0 0 163 213 109 846.0 0 109 214 85 846.0 0 85 215 118 846.0 0 118 216 176 846.0 0 176 217 163 846.0 0 163 218 95 846.0 0 95 219 99 846.0 0 99 220 119 846.0 0 119 221 111 846.0 0 111 222 131 846.0 0 131 223 108 846.0 0 108 224 122 846.0 0 122 225 567 846.0 0 567 226 214 846.0 0 214 227 117 846.0 0 117 228 89 846.0 0 89 229 84 846.0 0 84 230 69 846.0 0 69 231 88 846.0 0 88 232 90 846.0 0 90 233 111 846.0 0 111 234 102 846.0 0 102 235 148 846.0 0 148 236 146 846.0 0 146 237 152 846.0 0 152 238 120 846.0 0 120 239 79 846.0 0 79 240 82 846.0 0 82 241 113 846.0 0 113 242 86 846.0 0 86 243 85 846.0 0 85 244 117 846.0 0 117 245 128 846.0 0 128 246 86 846.0 0 86 247 61 846.0 0 61 248 35 846.0 0 35 249 51 846.0 0 51 250 62 846.0 0 62 251 101 846.0 0 101 252 96 846.0 0 96 253 228 846.0 0 228 254 156 846.0 0 156 255 158 846.0 0 158 256 104 846.0 0 104 257 130 846.0 0 130 258 81 846.0 0 81 259 102 846.0 0 102 260 103 846.0 0 103 261 126 846.0 0 126 262 151 846.0 0 151 263 155 846.0 0 155 264 137 846.0 0 137 265 167 846.0 0 167 266 96 846.0 0 96 267 72 846.0 0 72 268 49 846.0 0 49 269 67 846.0 0 67 270 163 846.0 0 163 271 349 846.0 0 349 272 670 846.0 0 670 273 147 846.0 0 147 274 92 846.0 0 92 275 81 846.0 0 81 276 100 846.0 0 100 277 129 846.0 0 129 278 126 846.0 0 126 279 77 846.0 0 77 280 98 846.0 0 98 281 83 846.0 0 83 282 163 846.0 0 163 283 72 846.0 0 72 284 155 846.0 0 155 285 138 846.0 0 138 286 77 846.0 0 77 287 70 846.0 0 70 288 68 846.0 0 68 289 171 846.0 0 171 290 248 846.0 0 248 291 255 846.0 0 255 292 354 846.0 0 354 293 64 846.0 0 64 294 53 846.0 0 53 295 85 846.0 0 85 296 82 846.0 0 82 297 154 846.0 0 154 298 152 846.0 0 152 299 179 846.0 0 179 300 183 846.0 0 183 301 63 846.0 0 63 Finished in 1.65 s (42 us/read; 1.43 M reads/minute). === Summary === Total reads processed: 39,432 Reads with adapters: 15,566 (39.5%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 15,558 (39.5%) Total basepairs processed: 9,014,494 bp Total written (filtered): 4,301,958 bp (47.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 15566 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 4 0.0 3 0 0 3 1 16 96 0.0 3 0 93 2 1 17 12361 0.0 3 12218 135 6 2 18 37 0.0 3 4 33 19 3036 0.0 3 2964 60 8 4 20 15 0.0 3 1 6 0 8 22 1 0.0 3 0 0 0 1 68 1 0.0 3 0 0 0 1 78 1 0.0 3 0 0 0 1 80 1 0.0 3 0 0 0 1 98 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 118 1 0.0 3 0 0 0 1 144 1 0.0 3 0 0 0 1 170 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 186 1 0.0 3 0 0 0 1 190 2 0.0 3 0 0 0 2 191 1 0.0 3 0 0 0 1 205 1 0.0 3 0 0 0 1 217 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 0.56 s (36 us/read; 1.67 M reads/minute). === Summary === Total reads processed: 15,558 Reads with adapters: 1,027 (6.6%) Reads written (passing filters): 15,558 (100.0%) Total basepairs processed: 4,301,958 bp Total written (filtered): 4,298,872 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1027 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 10.5% C: 80.7% G: 8.1% T: 0.7% 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 1025 243.1 0 1025 4 1 60.8 0 1 7 1 0.9 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.