This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTATAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 168.90 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 221,556 (6.4%) Reads that were too short: 14,203 (0.4%) Reads written (passing filters): 207,353 (6.0%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 58,852,819 bp (5.6%) === Adapter 1 === Sequence: CTATAA; Type: regular 5'; Length: 6; Trimmed: 221556 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3476 847.3 0 3476 7 100258 847.3 0 100258 8 85808 847.3 0 85808 9 132 847.3 0 132 10 55 847.3 0 55 11 37 847.3 0 37 12 39 847.3 0 39 13 69 847.3 0 69 14 40 847.3 0 40 15 56 847.3 0 56 16 72 847.3 0 72 17 61 847.3 0 61 18 55 847.3 0 55 19 40 847.3 0 40 20 36 847.3 0 36 21 25 847.3 0 25 22 43 847.3 0 43 23 39 847.3 0 39 24 55 847.3 0 55 25 50 847.3 0 50 26 52 847.3 0 52 27 60 847.3 0 60 28 195 847.3 0 195 29 30 847.3 0 30 30 35 847.3 0 35 31 52 847.3 0 52 32 49 847.3 0 49 33 39 847.3 0 39 34 34 847.3 0 34 35 38 847.3 0 38 36 46 847.3 0 46 37 52 847.3 0 52 38 49 847.3 0 49 39 44 847.3 0 44 40 33 847.3 0 33 41 28 847.3 0 28 42 50 847.3 0 50 43 41 847.3 0 41 44 39 847.3 0 39 45 34 847.3 0 34 46 41 847.3 0 41 47 48 847.3 0 48 48 39 847.3 0 39 49 28 847.3 0 28 50 37 847.3 0 37 51 50 847.3 0 50 52 35 847.3 0 35 53 28 847.3 0 28 54 34 847.3 0 34 55 35 847.3 0 35 56 34 847.3 0 34 57 27 847.3 0 27 58 50 847.3 0 50 59 47 847.3 0 47 60 39 847.3 0 39 61 36 847.3 0 36 62 31 847.3 0 31 63 45 847.3 0 45 64 36 847.3 0 36 65 48 847.3 0 48 66 44 847.3 0 44 67 45 847.3 0 45 68 33 847.3 0 33 69 35 847.3 0 35 70 31 847.3 0 31 71 40 847.3 0 40 72 37 847.3 0 37 73 55 847.3 0 55 74 66 847.3 0 66 75 127 847.3 0 127 76 83 847.3 0 83 77 61 847.3 0 61 78 59 847.3 0 59 79 76 847.3 0 76 80 69 847.3 0 69 81 60 847.3 0 60 82 54 847.3 0 54 83 60 847.3 0 60 84 43 847.3 0 43 85 48 847.3 0 48 86 80 847.3 0 80 87 44 847.3 0 44 88 28 847.3 0 28 89 54 847.3 0 54 90 51 847.3 0 51 91 92 847.3 0 92 92 81 847.3 0 81 93 66 847.3 0 66 94 111 847.3 0 111 95 70 847.3 0 70 96 71 847.3 0 71 97 101 847.3 0 101 98 265 847.3 0 265 99 236 847.3 0 236 100 260 847.3 0 260 101 105 847.3 0 105 102 80 847.3 0 80 103 62 847.3 0 62 104 82 847.3 0 82 105 105 847.3 0 105 106 119 847.3 0 119 107 142 847.3 0 142 108 396 847.3 0 396 109 313 847.3 0 313 110 310 847.3 0 310 111 143 847.3 0 143 112 169 847.3 0 169 113 139 847.3 0 139 114 200 847.3 0 200 115 177 847.3 0 177 116 242 847.3 0 242 117 127 847.3 0 127 118 76 847.3 0 76 119 74 847.3 0 74 120 97 847.3 0 97 121 81 847.3 0 81 122 138 847.3 0 138 123 131 847.3 0 131 124 118 847.3 0 118 125 80 847.3 0 80 126 108 847.3 0 108 127 81 847.3 0 81 128 105 847.3 0 105 129 139 847.3 0 139 130 147 847.3 0 147 131 205 847.3 0 205 132 122 847.3 0 122 133 112 847.3 0 112 134 113 847.3 0 113 135 146 847.3 0 146 136 122 847.3 0 122 137 151 847.3 0 151 138 137 847.3 0 137 139 172 847.3 0 172 140 156 847.3 0 156 141 146 847.3 0 146 142 123 847.3 0 123 143 134 847.3 0 134 144 153 847.3 0 153 145 143 847.3 0 143 146 118 847.3 0 118 147 102 847.3 0 102 148 89 847.3 0 89 149 113 847.3 0 113 150 115 847.3 0 115 151 101 847.3 0 101 152 83 847.3 0 83 153 98 847.3 0 98 154 75 847.3 0 75 155 164 847.3 0 164 156 140 847.3 0 140 157 166 847.3 0 166 158 102 847.3 0 102 159 110 847.3 0 110 160 127 847.3 0 127 161 112 847.3 0 112 162 105 847.3 0 105 163 135 847.3 0 135 164 138 847.3 0 138 165 140 847.3 0 140 166 114 847.3 0 114 167 121 847.3 0 121 168 90 847.3 0 90 169 92 847.3 0 92 170 80 847.3 0 80 171 97 847.3 0 97 172 98 847.3 0 98 173 83 847.3 0 83 174 75 847.3 0 75 175 82 847.3 0 82 176 99 847.3 0 99 177 77 847.3 0 77 178 135 847.3 0 135 179 126 847.3 0 126 180 101 847.3 0 101 181 106 847.3 0 106 182 106 847.3 0 106 183 113 847.3 0 113 184 119 847.3 0 119 185 101 847.3 0 101 186 90 847.3 0 90 187 93 847.3 0 93 188 89 847.3 0 89 189 101 847.3 0 101 190 104 847.3 0 104 191 100 847.3 0 100 192 105 847.3 0 105 193 88 847.3 0 88 194 98 847.3 0 98 195 103 847.3 0 103 196 107 847.3 0 107 197 85 847.3 0 85 198 105 847.3 0 105 199 103 847.3 0 103 200 130 847.3 0 130 201 133 847.3 0 133 202 152 847.3 0 152 203 156 847.3 0 156 204 125 847.3 0 125 205 120 847.3 0 120 206 99 847.3 0 99 207 145 847.3 0 145 208 156 847.3 0 156 209 169 847.3 0 169 210 266 847.3 0 266 211 143 847.3 0 143 212 104 847.3 0 104 213 90 847.3 0 90 214 93 847.3 0 93 215 105 847.3 0 105 216 123 847.3 0 123 217 105 847.3 0 105 218 101 847.3 0 101 219 119 847.3 0 119 220 119 847.3 0 119 221 131 847.3 0 131 222 160 847.3 0 160 223 166 847.3 0 166 224 172 847.3 0 172 225 115 847.3 0 115 226 109 847.3 0 109 227 111 847.3 0 111 228 86 847.3 0 86 229 92 847.3 0 92 230 83 847.3 0 83 231 87 847.3 0 87 232 110 847.3 0 110 233 104 847.3 0 104 234 77 847.3 0 77 235 102 847.3 0 102 236 119 847.3 0 119 237 116 847.3 0 116 238 107 847.3 0 107 239 140 847.3 0 140 240 108 847.3 0 108 241 137 847.3 0 137 242 186 847.3 0 186 243 203 847.3 0 203 244 196 847.3 0 196 245 154 847.3 0 154 246 210 847.3 0 210 247 123 847.3 0 123 248 78 847.3 0 78 249 100 847.3 0 100 250 77 847.3 0 77 251 98 847.3 0 98 252 120 847.3 0 120 253 239 847.3 0 239 254 267 847.3 0 267 255 648 847.3 0 648 256 143 847.3 0 143 257 98 847.3 0 98 258 133 847.3 0 133 259 148 847.3 0 148 260 136 847.3 0 136 261 111 847.3 0 111 262 125 847.3 0 125 263 231 847.3 0 231 264 276 847.3 0 276 265 261 847.3 0 261 266 89 847.3 0 89 267 61 847.3 0 61 268 77 847.3 0 77 269 141 847.3 0 141 270 172 847.3 0 172 271 279 847.3 0 279 272 238 847.3 0 238 273 186 847.3 0 186 274 91 847.3 0 91 275 103 847.3 0 103 276 105 847.3 0 105 277 81 847.3 0 81 278 88 847.3 0 88 279 95 847.3 0 95 280 90 847.3 0 90 281 97 847.3 0 97 282 119 847.3 0 119 283 143 847.3 0 143 284 151 847.3 0 151 285 196 847.3 0 196 286 194 847.3 0 194 287 112 847.3 0 112 288 91 847.3 0 91 289 96 847.3 0 96 290 254 847.3 0 254 291 279 847.3 0 279 292 188 847.3 0 188 293 126 847.3 0 126 294 111 847.3 0 111 295 91 847.3 0 91 296 114 847.3 0 114 297 123 847.3 0 123 298 128 847.3 0 128 299 130 847.3 0 130 300 128 847.3 0 128 301 153 847.3 0 153 Finished in 15.63 s (75 us/read; 0.80 M reads/minute). === Summary === Total reads processed: 207,353 Reads with adapters: 101,264 (48.8%) Reads that were too short: 59 (0.0%) Reads written (passing filters): 101,205 (48.8%) Total basepairs processed: 58,852,819 bp Total written (filtered): 28,024,767 bp (47.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 101264 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 10 0.0 2 0 0 0 10 15 64 0.0 3 0 0 52 12 16 1154 0.0 3 0 1069 61 24 17 99137 0.0 3 94355 4040 602 140 18 267 0.0 3 12 186 22 47 19 127 0.0 3 1 1 64 61 20 378 0.0 3 0 1 0 377 21 1 0.0 3 0 1 23 1 0.0 3 0 0 0 1 26 1 0.0 3 1 28 2 0.0 3 0 0 0 2 29 1 0.0 3 0 0 0 1 31 1 0.0 3 0 0 1 33 1 0.0 3 0 0 0 1 34 1 0.0 3 0 0 0 1 40 1 0.0 3 1 42 1 0.0 3 0 0 0 1 43 1 0.0 3 0 0 0 1 47 1 0.0 3 0 0 0 1 52 2 0.0 3 0 0 0 2 58 2 0.0 3 0 0 0 2 60 21 0.0 3 0 0 2 19 61 1 0.0 3 0 0 0 1 62 2 0.0 3 0 0 0 2 63 1 0.0 3 0 0 0 1 77 1 0.0 3 0 0 0 1 79 1 0.0 3 0 0 0 1 80 3 0.0 3 0 0 0 3 84 2 0.0 3 0 0 0 2 89 1 0.0 3 0 0 0 1 93 1 0.0 3 0 0 0 1 95 1 0.0 3 0 0 0 1 99 2 0.0 3 0 0 0 2 100 1 0.0 3 0 0 0 1 109 1 0.0 3 0 0 0 1 110 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 121 1 0.0 3 0 0 1 122 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 136 1 0.0 3 0 0 1 144 1 0.0 3 1 156 2 0.0 3 0 0 0 2 160 1 0.0 3 0 0 0 1 162 1 0.0 3 0 0 0 1 164 4 0.0 3 0 0 0 4 165 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 169 1 0.0 3 0 0 0 1 172 1 0.0 3 0 0 0 1 177 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 183 2 0.0 3 0 0 0 2 184 1 0.0 3 0 0 0 1 192 3 0.0 3 0 0 0 3 194 2 0.0 3 0 0 0 2 195 1 0.0 3 0 0 0 1 205 1 0.0 3 0 0 0 1 206 1 0.0 3 0 0 0 1 211 1 0.0 3 0 1 222 2 0.0 3 0 0 0 2 226 1 0.0 3 0 0 0 1 238 1 0.0 3 0 0 0 1 244 1 0.0 3 0 0 0 1 250 1 0.0 3 0 0 0 1 263 1 0.0 3 0 0 0 1 267 1 0.0 3 0 0 1 279 4 0.0 3 0 0 0 4 280 8 0.0 3 0 0 0 8 281 9 0.0 3 0 0 0 9 282 7 0.0 3 0 0 0 7 291 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 5.77 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 101,205 Reads with adapters: 705 (0.7%) Reads written (passing filters): 101,205 (100.0%) Total basepairs processed: 28,024,767 bp Total written (filtered): 28,022,556 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 705 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 31.9% C: 33.5% G: 22.7% T: 11.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 639 1581.3 0 639 4 39 395.3 0 39 5 24 98.8 0 24 6 3 24.7 0 3