This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCCAGC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 77.66 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 279,179 (9.5%) Reads that were too short: 17,940 (0.6%) Reads written (passing filters): 261,239 (8.9%) Total basepairs processed: 881,011,047 bp Total written (filtered): 59,875,861 bp (6.8%) === Adapter 1 === Sequence: TCCAGC; Type: regular 5'; Length: 6; Trimmed: 279179 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 869 714.6 0 869 7 1669 714.6 0 1669 8 60311 714.6 0 60311 9 4279 714.6 0 4279 10 68 714.6 0 68 11 49 714.6 0 49 12 71 714.6 0 71 13 53 714.6 0 53 14 59 714.6 0 59 15 60 714.6 0 60 16 53 714.6 0 53 17 66 714.6 0 66 18 79 714.6 0 79 19 56 714.6 0 56 20 77 714.6 0 77 21 65 714.6 0 65 22 71 714.6 0 71 23 92 714.6 0 92 24 83 714.6 0 83 25 74 714.6 0 74 26 80 714.6 0 80 27 62 714.6 0 62 28 85 714.6 0 85 29 81 714.6 0 81 30 79 714.6 0 79 31 91 714.6 0 91 32 88 714.6 0 88 33 61 714.6 0 61 34 101 714.6 0 101 35 86 714.6 0 86 36 123 714.6 0 123 37 98 714.6 0 98 38 148 714.6 0 148 39 83 714.6 0 83 40 90 714.6 0 90 41 78 714.6 0 78 42 114 714.6 0 114 43 125 714.6 0 125 44 117 714.6 0 117 45 169 714.6 0 169 46 218 714.6 0 218 47 317 714.6 0 317 48 630 714.6 0 630 49 1638 714.6 0 1638 50 387 714.6 0 387 51 585 714.6 0 585 52 1189 714.6 0 1189 53 554 714.6 0 554 54 455 714.6 0 455 55 701 714.6 0 701 56 738 714.6 0 738 57 771 714.6 0 771 58 792 714.6 0 792 59 1123 714.6 0 1123 60 1110 714.6 0 1110 61 1809 714.6 0 1809 62 32968 714.6 0 32968 63 29786 714.6 0 29786 64 47867 714.6 0 47867 65 531 714.6 0 531 66 64 714.6 0 64 67 61 714.6 0 61 68 60 714.6 0 60 69 64 714.6 0 64 70 65 714.6 0 65 71 90 714.6 0 90 72 162 714.6 0 162 73 202 714.6 0 202 74 88 714.6 0 88 75 93 714.6 0 93 76 834 714.6 0 834 77 1001 714.6 0 1001 78 356 714.6 0 356 79 69 714.6 0 69 80 75 714.6 0 75 81 88 714.6 0 88 82 81 714.6 0 81 83 117 714.6 0 117 84 107 714.6 0 107 85 182 714.6 0 182 86 106 714.6 0 106 87 126 714.6 0 126 88 74 714.6 0 74 89 90 714.6 0 90 90 85 714.6 0 85 91 97 714.6 0 97 92 108 714.6 0 108 93 268 714.6 0 268 94 186 714.6 0 186 95 81 714.6 0 81 96 49 714.6 0 49 97 65 714.6 0 65 98 57 714.6 0 57 99 52 714.6 0 52 100 55 714.6 0 55 101 106 714.6 0 106 102 131 714.6 0 131 103 78 714.6 0 78 104 89 714.6 0 89 105 193 714.6 0 193 106 111 714.6 0 111 107 176 714.6 0 176 108 216 714.6 0 216 109 110 714.6 0 110 110 67 714.6 0 67 111 123 714.6 0 123 112 104 714.6 0 104 113 62 714.6 0 62 114 85 714.6 0 85 115 99 714.6 0 99 116 104 714.6 0 104 117 101 714.6 0 101 118 98 714.6 0 98 119 88 714.6 0 88 120 93 714.6 0 93 121 71 714.6 0 71 122 80 714.6 0 80 123 97 714.6 0 97 124 115 714.6 0 115 125 119 714.6 0 119 126 134 714.6 0 134 127 150 714.6 0 150 128 130 714.6 0 130 129 122 714.6 0 122 130 88 714.6 0 88 131 98 714.6 0 98 132 131 714.6 0 131 133 154 714.6 0 154 134 162 714.6 0 162 135 125 714.6 0 125 136 111 714.6 0 111 137 136 714.6 0 136 138 134 714.6 0 134 139 113 714.6 0 113 140 165 714.6 0 165 141 156 714.6 0 156 142 250 714.6 0 250 143 276 714.6 0 276 144 2154 714.6 0 2154 145 1834 714.6 0 1834 146 1439 714.6 0 1439 147 191 714.6 0 191 148 102 714.6 0 102 149 237 714.6 0 237 150 277 714.6 0 277 151 201 714.6 0 201 152 157 714.6 0 157 153 160 714.6 0 160 154 181 714.6 0 181 155 270 714.6 0 270 156 1245 714.6 0 1245 157 1194 714.6 0 1194 158 518 714.6 0 518 159 288 714.6 0 288 160 298 714.6 0 298 161 390 714.6 0 390 162 532 714.6 0 532 163 1050 714.6 0 1050 164 22483 714.6 0 22483 165 5518 714.6 0 5518 166 2535 714.6 0 2535 167 354 714.6 0 354 168 261 714.6 0 261 169 692 714.6 0 692 170 965 714.6 0 965 171 1000 714.6 0 1000 172 671 714.6 0 671 173 523 714.6 0 523 174 251 714.6 0 251 175 151 714.6 0 151 176 111 714.6 0 111 177 178 714.6 0 178 178 175 714.6 0 175 179 334 714.6 0 334 180 269 714.6 0 269 181 360 714.6 0 360 182 255 714.6 0 255 183 174 714.6 0 174 184 247 714.6 0 247 185 305 714.6 0 305 186 339 714.6 0 339 187 181 714.6 0 181 188 204 714.6 0 204 189 842 714.6 0 842 190 1239 714.6 0 1239 191 1284 714.6 0 1284 192 425 714.6 0 425 193 123 714.6 0 123 194 84 714.6 0 84 195 134 714.6 0 134 196 122 714.6 0 122 197 162 714.6 0 162 198 160 714.6 0 160 199 129 714.6 0 129 200 118 714.6 0 118 201 122 714.6 0 122 202 94 714.6 0 94 203 128 714.6 0 128 204 210 714.6 0 210 205 139 714.6 0 139 206 190 714.6 0 190 207 202 714.6 0 202 208 185 714.6 0 185 209 128 714.6 0 128 210 114 714.6 0 114 211 116 714.6 0 116 212 172 714.6 0 172 213 192 714.6 0 192 214 181 714.6 0 181 215 164 714.6 0 164 216 380 714.6 0 380 217 425 714.6 0 425 218 400 714.6 0 400 219 167 714.6 0 167 220 98 714.6 0 98 221 147 714.6 0 147 222 94 714.6 0 94 223 97 714.6 0 97 224 130 714.6 0 130 225 228 714.6 0 228 226 321 714.6 0 321 227 301 714.6 0 301 228 342 714.6 0 342 229 380 714.6 0 380 230 435 714.6 0 435 231 158 714.6 0 158 232 126 714.6 0 126 233 145 714.6 0 145 234 127 714.6 0 127 235 105 714.6 0 105 236 158 714.6 0 158 237 191 714.6 0 191 238 130 714.6 0 130 239 115 714.6 0 115 240 96 714.6 0 96 241 95 714.6 0 95 242 55 714.6 0 55 243 90 714.6 0 90 244 121 714.6 0 121 245 222 714.6 0 222 246 194 714.6 0 194 247 189 714.6 0 189 248 163 714.6 0 163 249 99 714.6 0 99 250 123 714.6 0 123 251 79 714.6 0 79 252 88 714.6 0 88 253 75 714.6 0 75 254 165 714.6 0 165 255 174 714.6 0 174 256 165 714.6 0 165 257 159 714.6 0 159 258 106 714.6 0 106 259 152 714.6 0 152 260 547 714.6 0 547 261 569 714.6 0 569 262 244 714.6 0 244 263 117 714.6 0 117 264 129 714.6 0 129 265 153 714.6 0 153 266 219 714.6 0 219 267 280 714.6 0 280 268 207 714.6 0 207 269 120 714.6 0 120 270 116 714.6 0 116 271 110 714.6 0 110 272 137 714.6 0 137 273 94 714.6 0 94 274 73 714.6 0 73 275 115 714.6 0 115 276 181 714.6 0 181 277 170 714.6 0 170 278 124 714.6 0 124 279 93 714.6 0 93 280 171 714.6 0 171 281 230 714.6 0 230 282 112 714.6 0 112 283 76 714.6 0 76 284 145 714.6 0 145 285 145 714.6 0 145 286 163 714.6 0 163 287 670 714.6 0 670 288 925 714.6 0 925 289 282 714.6 0 282 290 92 714.6 0 92 291 59 714.6 0 59 292 54 714.6 0 54 293 108 714.6 0 108 294 178 714.6 0 178 295 140 714.6 0 140 296 150 714.6 0 150 297 131 714.6 0 131 298 106 714.6 0 106 299 59 714.6 0 59 300 52 714.6 0 52 301 69 714.6 0 69 Finished in 11.54 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 261,239 Reads with adapters: 5,745 (2.2%) Reads that were too short: 187 (0.1%) Reads written (passing filters): 5,558 (2.1%) Total basepairs processed: 59,875,861 bp Total written (filtered): 1,391,049 bp (2.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5745 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 18 2 0.0 3 0 0 2 19 45 0.0 3 0 41 3 0 1 20 4340 0.0 4 4089 212 27 9 3 21 17 0.0 4 1 13 1 0 2 22 2 0.0 4 0 0 1 1 23 7 0.0 4 0 0 0 7 24 1 0.0 4 0 0 0 1 25 1 0.0 4 0 0 0 0 1 26 2 0.0 4 0 0 0 0 2 28 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 1 34 2 0.0 4 0 0 0 0 2 35 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 51 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 72 820 0.0 4 0 0 0 0 820 77 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 85 4 0.0 4 0 0 0 0 4 86 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 1 102 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 1 124 1 0.0 4 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 296 0.0 4 0 0 0 0 296 128 2 0.0 4 0 0 0 0 2 129 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 147 2 0.0 4 0 0 0 0 2 148 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 3 0.0 4 0 0 0 0 3 166 2 0.0 4 0 0 0 0 2 168 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 170 2 0.0 4 0 0 0 0 2 172 3 0.0 4 0 0 0 0 3 173 88 0.0 4 0 0 0 3 85 174 10 0.0 4 0 0 0 1 9 175 3 0.0 4 0 0 0 0 3 177 2 0.0 4 0 0 0 0 2 178 2 0.0 4 0 0 0 0 2 179 3 0.0 4 0 0 0 1 2 181 3 0.0 4 0 0 0 0 3 183 3 0.0 4 0 0 0 0 3 184 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 194 2 0.0 4 0 0 0 0 2 201 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 227 7 0.0 4 0 0 0 0 7 228 3 0.0 4 0 0 0 0 3 229 1 0.0 4 0 0 0 0 1 231 1 0.0 4 0 0 0 0 1 233 2 0.0 4 0 0 0 0 2 234 6 0.0 4 0 0 0 0 6 243 1 0.0 4 0 0 0 0 1 251 2 0.0 4 0 0 0 1 1 257 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 264 2 0.0 4 0 0 0 0 2 265 1 0.0 4 0 0 0 0 1 267 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 292 2 0.0 4 0 0 0 0 2 293 2 0.0 4 0 0 0 0 2 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.19 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 5,558 Reads with adapters: 212 (3.8%) Reads written (passing filters): 5,558 (100.0%) Total basepairs processed: 1,391,049 bp Total written (filtered): 1,387,408 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 212 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 11.8% C: 6.6% G: 80.7% T: 0.9% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 86.8 0 1 4 3 21.7 0 3 5 1 5.4 0 1 6 3 1.4 0 3 9 18 0.0 0 0 18 10 136 0.0 1 3 133 11 43 0.0 1 0 43 223 6 0.0 1 6 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.