This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCTTGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 167.56 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 177,131 (5.1%) Reads that were too short: 23,476 (0.7%) Reads written (passing filters): 153,655 (4.4%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 37,602,830 bp (3.6%) === Adapter 1 === Sequence: TCTTGG; Type: regular 5'; Length: 6; Trimmed: 177131 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4673 847.3 0 4673 7 3625 847.3 0 3625 8 37561 847.3 0 37561 9 42013 847.3 0 42013 10 142 847.3 0 142 11 98 847.3 0 98 12 82 847.3 0 82 13 86 847.3 0 86 14 82 847.3 0 82 15 73 847.3 0 73 16 86 847.3 0 86 17 91 847.3 0 91 18 109 847.3 0 109 19 123 847.3 0 123 20 96 847.3 0 96 21 107 847.3 0 107 22 92 847.3 0 92 23 95 847.3 0 95 24 119 847.3 0 119 25 110 847.3 0 110 26 86 847.3 0 86 27 105 847.3 0 105 28 86 847.3 0 86 29 77 847.3 0 77 30 111 847.3 0 111 31 114 847.3 0 114 32 108 847.3 0 108 33 137 847.3 0 137 34 130 847.3 0 130 35 154 847.3 0 154 36 155 847.3 0 155 37 1944 847.3 0 1944 38 1048 847.3 0 1048 39 1426 847.3 0 1426 40 114 847.3 0 114 41 75 847.3 0 75 42 114 847.3 0 114 43 109 847.3 0 109 44 134 847.3 0 134 45 120 847.3 0 120 46 101 847.3 0 101 47 131 847.3 0 131 48 105 847.3 0 105 49 119 847.3 0 119 50 101 847.3 0 101 51 101 847.3 0 101 52 93 847.3 0 93 53 81 847.3 0 81 54 108 847.3 0 108 55 87 847.3 0 87 56 98 847.3 0 98 57 86 847.3 0 86 58 91 847.3 0 91 59 98 847.3 0 98 60 81 847.3 0 81 61 94 847.3 0 94 62 98 847.3 0 98 63 92 847.3 0 92 64 76 847.3 0 76 65 89 847.3 0 89 66 90 847.3 0 90 67 88 847.3 0 88 68 90 847.3 0 90 69 72 847.3 0 72 70 120 847.3 0 120 71 121 847.3 0 121 72 76 847.3 0 76 73 93 847.3 0 93 74 111 847.3 0 111 75 119 847.3 0 119 76 136 847.3 0 136 77 283 847.3 0 283 78 271 847.3 0 271 79 132 847.3 0 132 80 149 847.3 0 149 81 80 847.3 0 80 82 84 847.3 0 84 83 89 847.3 0 89 84 101 847.3 0 101 85 87 847.3 0 87 86 89 847.3 0 89 87 109 847.3 0 109 88 176 847.3 0 176 89 144 847.3 0 144 90 131 847.3 0 131 91 338 847.3 0 338 92 600 847.3 0 600 93 1358 847.3 0 1358 94 188 847.3 0 188 95 351 847.3 0 351 96 97 847.3 0 97 97 99 847.3 0 99 98 90 847.3 0 90 99 84 847.3 0 84 100 91 847.3 0 91 101 83 847.3 0 83 102 74 847.3 0 74 103 88 847.3 0 88 104 199 847.3 0 199 105 322 847.3 0 322 106 257 847.3 0 257 107 113 847.3 0 113 108 107 847.3 0 107 109 110 847.3 0 110 110 106 847.3 0 106 111 90 847.3 0 90 112 252 847.3 0 252 113 197 847.3 0 197 114 186 847.3 0 186 115 227 847.3 0 227 116 257 847.3 0 257 117 130 847.3 0 130 118 138 847.3 0 138 119 108 847.3 0 108 120 137 847.3 0 137 121 126 847.3 0 126 122 135 847.3 0 135 123 112 847.3 0 112 124 122 847.3 0 122 125 133 847.3 0 133 126 131 847.3 0 131 127 201 847.3 0 201 128 369 847.3 0 369 129 2876 847.3 0 2876 130 866 847.3 0 866 131 898 847.3 0 898 132 171 847.3 0 171 133 184 847.3 0 184 134 190 847.3 0 190 135 204 847.3 0 204 136 200 847.3 0 200 137 331 847.3 0 331 138 200 847.3 0 200 139 385 847.3 0 385 140 464 847.3 0 464 141 1013 847.3 0 1013 142 21558 847.3 0 21558 143 6841 847.3 0 6841 144 3889 847.3 0 3889 145 95 847.3 0 95 146 91 847.3 0 91 147 85 847.3 0 85 148 78 847.3 0 78 149 236 847.3 0 236 150 184 847.3 0 184 151 144 847.3 0 144 152 87 847.3 0 87 153 114 847.3 0 114 154 100 847.3 0 100 155 66 847.3 0 66 156 85 847.3 0 85 157 97 847.3 0 97 158 78 847.3 0 78 159 79 847.3 0 79 160 66 847.3 0 66 161 76 847.3 0 76 162 70 847.3 0 70 163 96 847.3 0 96 164 97 847.3 0 97 165 84 847.3 0 84 166 83 847.3 0 83 167 77 847.3 0 77 168 75 847.3 0 75 169 89 847.3 0 89 170 98 847.3 0 98 171 60 847.3 0 60 172 61 847.3 0 61 173 110 847.3 0 110 174 62 847.3 0 62 175 65 847.3 0 65 176 84 847.3 0 84 177 78 847.3 0 78 178 110 847.3 0 110 179 90 847.3 0 90 180 76 847.3 0 76 181 59 847.3 0 59 182 83 847.3 0 83 183 90 847.3 0 90 184 56 847.3 0 56 185 75 847.3 0 75 186 53 847.3 0 53 187 55 847.3 0 55 188 65 847.3 0 65 189 73 847.3 0 73 190 84 847.3 0 84 191 84 847.3 0 84 192 74 847.3 0 74 193 69 847.3 0 69 194 65 847.3 0 65 195 57 847.3 0 57 196 61 847.3 0 61 197 73 847.3 0 73 198 57 847.3 0 57 199 66 847.3 0 66 200 73 847.3 0 73 201 100 847.3 0 100 202 87 847.3 0 87 203 95 847.3 0 95 204 84 847.3 0 84 205 96 847.3 0 96 206 66 847.3 0 66 207 96 847.3 0 96 208 83 847.3 0 83 209 284 847.3 0 284 210 184 847.3 0 184 211 114 847.3 0 114 212 103 847.3 0 103 213 115 847.3 0 115 214 670 847.3 0 670 215 609 847.3 0 609 216 729 847.3 0 729 217 123 847.3 0 123 218 106 847.3 0 106 219 70 847.3 0 70 220 81 847.3 0 81 221 99 847.3 0 99 222 97 847.3 0 97 223 91 847.3 0 91 224 133 847.3 0 133 225 110 847.3 0 110 226 123 847.3 0 123 227 156 847.3 0 156 228 171 847.3 0 171 229 388 847.3 0 388 230 288 847.3 0 288 231 286 847.3 0 286 232 167 847.3 0 167 233 218 847.3 0 218 234 2763 847.3 0 2763 235 4056 847.3 0 4056 236 2199 847.3 0 2199 237 613 847.3 0 613 238 75 847.3 0 75 239 58 847.3 0 58 240 63 847.3 0 63 241 61 847.3 0 61 242 50 847.3 0 50 243 89 847.3 0 89 244 85 847.3 0 85 245 69 847.3 0 69 246 69 847.3 0 69 247 85 847.3 0 85 248 62 847.3 0 62 249 70 847.3 0 70 250 89 847.3 0 89 251 59 847.3 0 59 252 61 847.3 0 61 253 83 847.3 0 83 254 155 847.3 0 155 255 106 847.3 0 106 256 82 847.3 0 82 257 68 847.3 0 68 258 71 847.3 0 71 259 81 847.3 0 81 260 85 847.3 0 85 261 116 847.3 0 116 262 539 847.3 0 539 263 389 847.3 0 389 264 557 847.3 0 557 265 177 847.3 0 177 266 111 847.3 0 111 267 69 847.3 0 69 268 59 847.3 0 59 269 67 847.3 0 67 270 102 847.3 0 102 271 91 847.3 0 91 272 66 847.3 0 66 273 57 847.3 0 57 274 75 847.3 0 75 275 81 847.3 0 81 276 90 847.3 0 90 277 162 847.3 0 162 278 110 847.3 0 110 279 59 847.3 0 59 280 70 847.3 0 70 281 81 847.3 0 81 282 56 847.3 0 56 283 70 847.3 0 70 284 72 847.3 0 72 285 80 847.3 0 80 286 60 847.3 0 60 287 62 847.3 0 62 288 53 847.3 0 53 289 71 847.3 0 71 290 64 847.3 0 64 291 176 847.3 0 176 292 167 847.3 0 167 293 177 847.3 0 177 294 71 847.3 0 71 295 143 847.3 0 143 296 300 847.3 0 300 297 403 847.3 0 403 298 312 847.3 0 312 299 168 847.3 0 168 300 62 847.3 0 62 301 252 847.3 0 252 Finished in 10.52 s (68 us/read; 0.88 M reads/minute). === Summary === Total reads processed: 153,655 Reads with adapters: 41,254 (26.8%) Reads that were too short: 20 (0.0%) Reads written (passing filters): 41,234 (26.8%) Total basepairs processed: 37,602,830 bp Total written (filtered): 11,373,879 bp (30.2%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 41254 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 7 0.0 3 0 0 7 16 188 0.0 3 0 182 6 17 37385 0.0 3 36648 710 26 1 18 3313 0.0 3 3166 138 9 19 31 0.0 3 2 14 14 1 20 228 0.0 3 187 6 4 31 21 8 0.0 3 0 3 0 5 22 1 0.0 3 0 0 0 1 28 1 0.0 3 1 42 4 0.0 3 0 0 0 4 43 3 0.0 3 0 0 0 3 48 1 0.0 3 0 0 0 1 49 2 0.0 3 0 0 0 2 50 20 0.0 3 0 0 0 20 53 4 0.0 3 0 0 0 4 54 1 0.0 3 0 0 0 1 57 1 0.0 3 0 0 0 1 60 1 0.0 3 0 0 0 1 63 4 0.0 3 0 0 0 4 78 1 0.0 3 0 0 0 1 81 3 0.0 3 0 0 0 3 86 1 0.0 3 0 0 0 1 87 2 0.0 3 0 0 0 2 90 1 0.0 3 1 99 2 0.0 3 0 0 0 2 100 1 0.0 3 0 0 0 1 110 2 0.0 3 0 0 0 2 114 1 0.0 3 0 0 0 1 130 1 0.0 3 0 0 0 1 131 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 133 2 0.0 3 0 0 0 2 141 1 0.0 3 0 0 0 1 151 3 0.0 3 0 0 0 3 154 6 0.0 3 0 0 0 6 155 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 194 1 0.0 3 0 0 0 1 206 1 0.0 3 0 0 0 1 213 1 0.0 3 0 0 0 1 214 1 0.0 3 0 0 0 1 218 5 0.0 3 0 0 0 5 245 1 0.0 3 0 0 0 1 250 1 0.0 3 0 0 0 1 256 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 281 2 0.0 3 0 0 0 2 282 1 0.0 3 0 0 0 1 283 2 0.0 3 0 0 0 2 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 2.38 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 41,234 Reads with adapters: 1,105 (2.7%) Reads written (passing filters): 41,234 (100.0%) Total basepairs processed: 11,373,879 bp Total written (filtered): 11,370,491 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1105 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 89.0% C: 5.9% G: 2.8% T: 2.3% 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 1033 644.3 0 1033 4 71 161.1 0 71 5 1 40.3 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.