This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGTATA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 92.12 s (30 us/read; 2.02 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 231,464 (7.5%) Reads that were too short: 14,747 (0.5%) Reads written (passing filters): 216,717 (7.0%) Total basepairs processed: 931,490,553 bp Total written (filtered): 58,687,640 bp (6.3%) === Adapter 1 === Sequence: TGTATA; Type: regular 5'; Length: 6; Trimmed: 231464 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 10753 755.5 0 10753 7 155223 755.5 0 155223 8 241 755.5 0 241 9 6143 755.5 0 6143 10 16 755.5 0 16 11 3 755.5 0 3 12 1 755.5 0 1 13 3 755.5 0 3 14 4 755.5 0 4 15 3 755.5 0 3 16 2 755.5 0 2 17 2 755.5 0 2 18 2 755.5 0 2 19 3 755.5 0 3 20 4 755.5 0 4 22 4 755.5 0 4 23 1 755.5 0 1 24 2 755.5 0 2 25 1 755.5 0 1 27 1 755.5 0 1 28 2 755.5 0 2 29 3 755.5 0 3 30 2 755.5 0 2 33 2 755.5 0 2 34 3 755.5 0 3 35 8 755.5 0 8 36 2 755.5 0 2 40 3 755.5 0 3 41 2 755.5 0 2 42 3 755.5 0 3 43 2 755.5 0 2 44 5 755.5 0 5 45 3 755.5 0 3 46 3 755.5 0 3 47 2 755.5 0 2 48 3 755.5 0 3 50 8 755.5 0 8 51 1 755.5 0 1 52 3 755.5 0 3 53 3 755.5 0 3 54 2 755.5 0 2 55 2 755.5 0 2 56 3 755.5 0 3 57 1 755.5 0 1 58 4 755.5 0 4 59 7 755.5 0 7 60 1 755.5 0 1 61 4 755.5 0 4 62 23 755.5 0 23 63 3 755.5 0 3 64 1 755.5 0 1 65 1 755.5 0 1 66 7 755.5 0 7 67 10 755.5 0 10 68 9 755.5 0 9 69 20 755.5 0 20 70 2 755.5 0 2 71 2 755.5 0 2 72 6 755.5 0 6 73 4 755.5 0 4 74 2 755.5 0 2 75 1 755.5 0 1 76 7 755.5 0 7 77 6 755.5 0 6 78 8 755.5 0 8 79 15 755.5 0 15 80 8 755.5 0 8 81 33 755.5 0 33 82 34 755.5 0 34 83 22 755.5 0 22 84 21 755.5 0 21 85 18 755.5 0 18 86 10 755.5 0 10 87 18 755.5 0 18 88 27 755.5 0 27 89 5 755.5 0 5 90 18 755.5 0 18 91 12 755.5 0 12 92 15 755.5 0 15 93 14 755.5 0 14 94 40 755.5 0 40 95 77 755.5 0 77 96 186 755.5 0 186 97 107 755.5 0 107 98 364 755.5 0 364 99 183 755.5 0 183 100 168 755.5 0 168 101 491 755.5 0 491 102 179 755.5 0 179 103 97 755.5 0 97 104 172 755.5 0 172 105 117 755.5 0 117 106 109 755.5 0 109 107 147 755.5 0 147 108 218 755.5 0 218 109 333 755.5 0 333 110 345 755.5 0 345 111 8567 755.5 0 8567 112 4441 755.5 0 4441 113 16979 755.5 0 16979 114 1077 755.5 0 1077 115 329 755.5 0 329 116 33 755.5 0 33 117 28 755.5 0 28 118 17 755.5 0 17 119 38 755.5 0 38 120 89 755.5 0 89 121 45 755.5 0 45 122 33 755.5 0 33 123 37 755.5 0 37 124 39 755.5 0 39 125 57 755.5 0 57 126 54 755.5 0 54 127 48 755.5 0 48 128 66 755.5 0 66 129 162 755.5 0 162 130 91 755.5 0 91 131 276 755.5 0 276 132 86 755.5 0 86 133 137 755.5 0 137 134 111 755.5 0 111 135 66 755.5 0 66 136 62 755.5 0 62 137 81 755.5 0 81 138 99 755.5 0 99 139 118 755.5 0 118 140 125 755.5 0 125 141 83 755.5 0 83 142 103 755.5 0 103 143 205 755.5 0 205 144 1450 755.5 0 1450 145 758 755.5 0 758 146 68 755.5 0 68 147 264 755.5 0 264 148 97 755.5 0 97 149 69 755.5 0 69 150 42 755.5 0 42 151 24 755.5 0 24 152 19 755.5 0 19 153 18 755.5 0 18 154 21 755.5 0 21 155 40 755.5 0 40 156 39 755.5 0 39 157 59 755.5 0 59 158 65 755.5 0 65 159 92 755.5 0 92 160 85 755.5 0 85 161 71 755.5 0 71 162 59 755.5 0 59 163 46 755.5 0 46 164 51 755.5 0 51 165 76 755.5 0 76 166 74 755.5 0 74 167 110 755.5 0 110 168 108 755.5 0 108 169 105 755.5 0 105 170 38 755.5 0 38 171 101 755.5 0 101 172 42 755.5 0 42 173 42 755.5 0 42 174 52 755.5 0 52 175 101 755.5 0 101 176 60 755.5 0 60 177 75 755.5 0 75 178 28 755.5 0 28 179 30 755.5 0 30 180 42 755.5 0 42 181 71 755.5 0 71 182 97 755.5 0 97 183 98 755.5 0 98 184 94 755.5 0 94 185 130 755.5 0 130 186 212 755.5 0 212 187 137 755.5 0 137 188 84 755.5 0 84 189 101 755.5 0 101 190 39 755.5 0 39 191 30 755.5 0 30 192 61 755.5 0 61 193 219 755.5 0 219 194 143 755.5 0 143 195 245 755.5 0 245 196 80 755.5 0 80 197 43 755.5 0 43 198 53 755.5 0 53 199 96 755.5 0 96 200 100 755.5 0 100 201 67 755.5 0 67 202 30 755.5 0 30 203 22 755.5 0 22 204 58 755.5 0 58 205 132 755.5 0 132 206 190 755.5 0 190 207 251 755.5 0 251 208 125 755.5 0 125 209 61 755.5 0 61 210 56 755.5 0 56 211 62 755.5 0 62 212 99 755.5 0 99 213 115 755.5 0 115 214 164 755.5 0 164 215 136 755.5 0 136 216 125 755.5 0 125 217 107 755.5 0 107 218 127 755.5 0 127 219 170 755.5 0 170 220 139 755.5 0 139 221 130 755.5 0 130 222 43 755.5 0 43 223 52 755.5 0 52 224 91 755.5 0 91 225 144 755.5 0 144 226 195 755.5 0 195 227 140 755.5 0 140 228 169 755.5 0 169 229 224 755.5 0 224 230 235 755.5 0 235 231 146 755.5 0 146 232 131 755.5 0 131 233 71 755.5 0 71 234 71 755.5 0 71 235 85 755.5 0 85 236 209 755.5 0 209 237 190 755.5 0 190 238 157 755.5 0 157 239 227 755.5 0 227 240 206 755.5 0 206 241 140 755.5 0 140 242 39 755.5 0 39 243 56 755.5 0 56 244 74 755.5 0 74 245 156 755.5 0 156 246 234 755.5 0 234 247 145 755.5 0 145 248 205 755.5 0 205 249 76 755.5 0 76 250 57 755.5 0 57 251 21 755.5 0 21 252 62 755.5 0 62 253 72 755.5 0 72 254 145 755.5 0 145 255 159 755.5 0 159 256 179 755.5 0 179 257 186 755.5 0 186 258 349 755.5 0 349 259 166 755.5 0 166 260 122 755.5 0 122 261 65 755.5 0 65 262 90 755.5 0 90 263 120 755.5 0 120 264 181 755.5 0 181 265 143 755.5 0 143 266 213 755.5 0 213 267 213 755.5 0 213 268 317 755.5 0 317 269 215 755.5 0 215 270 103 755.5 0 103 271 30 755.5 0 30 272 36 755.5 0 36 273 91 755.5 0 91 274 127 755.5 0 127 275 230 755.5 0 230 276 392 755.5 0 392 277 174 755.5 0 174 278 79 755.5 0 79 279 140 755.5 0 140 280 162 755.5 0 162 281 298 755.5 0 298 282 263 755.5 0 263 283 149 755.5 0 149 284 151 755.5 0 151 285 115 755.5 0 115 286 161 755.5 0 161 287 205 755.5 0 205 288 253 755.5 0 253 289 173 755.5 0 173 290 80 755.5 0 80 291 144 755.5 0 144 292 578 755.5 0 578 293 183 755.5 0 183 294 287 755.5 0 287 295 259 755.5 0 259 296 166 755.5 0 166 297 47 755.5 0 47 298 45 755.5 0 45 299 56 755.5 0 56 300 98 755.5 0 98 301 187 755.5 0 187 Finished in 10.41 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 216,717 Reads with adapters: 6,478 (3.0%) Reads that were too short: 27 (0.0%) Reads written (passing filters): 6,451 (3.0%) Total basepairs processed: 58,687,640 bp Total written (filtered): 1,761,981 bp (3.0%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 6478 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 16 55 0.0 3 0 54 1 17 6258 0.0 3 6108 143 5 2 18 15 0.0 3 4 8 3 19 28 0.0 3 25 0 1 2 20 11 0.0 3 6 0 0 5 29 1 0.0 3 0 0 0 1 32 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 0 1 47 1 0.0 3 0 0 0 1 54 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 0 1 65 1 0.0 3 0 0 1 67 2 0.0 3 0 0 0 2 73 1 0.0 3 0 0 0 1 93 2 0.0 3 0 0 0 2 105 1 0.0 3 0 0 0 1 141 3 0.0 3 0 0 0 3 144 16 0.0 3 0 0 0 16 163 1 0.0 3 0 0 0 1 164 68 0.0 3 0 0 0 68 191 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 221 1 0.0 3 0 0 0 1 260 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 281 3 0.0 3 0 0 0 3 287 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 0.28 s (43 us/read; 1.38 M reads/minute). === Summary === Total reads processed: 6,451 Reads with adapters: 1,513 (23.5%) Reads written (passing filters): 6,451 (100.0%) Total basepairs processed: 1,761,981 bp Total written (filtered): 1,757,442 bp (99.7%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1513 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 84.9% C: 4.4% G: 10.3% T: 0.4% 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 1513 100.8 0 1513 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.