This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGGTC -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 173.36 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 339,213 (9.3%) Reads that were too short: 23,517 (0.6%) Reads written (passing filters): 315,696 (8.7%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 77,097,247 bp (7.0%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 339213 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4234 887.3 0 4234 7 71595 887.3 0 71595 8 1390 887.3 0 1390 9 62575 887.3 0 62575 10 132 887.3 0 132 11 83 887.3 0 83 12 102 887.3 0 102 13 73 887.3 0 73 14 80 887.3 0 80 15 87 887.3 0 87 16 99 887.3 0 99 17 80 887.3 0 80 18 109 887.3 0 109 19 97 887.3 0 97 20 88 887.3 0 88 21 104 887.3 0 104 22 107 887.3 0 107 23 94 887.3 0 94 24 103 887.3 0 103 25 95 887.3 0 95 26 92 887.3 0 92 27 84 887.3 0 84 28 82 887.3 0 82 29 79 887.3 0 79 30 96 887.3 0 96 31 61 887.3 0 61 32 79 887.3 0 79 33 77 887.3 0 77 34 84 887.3 0 84 35 129 887.3 0 129 36 117 887.3 0 117 37 101 887.3 0 101 38 75 887.3 0 75 39 97 887.3 0 97 40 98 887.3 0 98 41 109 887.3 0 109 42 151 887.3 0 151 43 132 887.3 0 132 44 107 887.3 0 107 45 90 887.3 0 90 46 109 887.3 0 109 47 105 887.3 0 105 48 75 887.3 0 75 49 84 887.3 0 84 50 78 887.3 0 78 51 70 887.3 0 70 52 71 887.3 0 71 53 174 887.3 0 174 54 134 887.3 0 134 55 118 887.3 0 118 56 156 887.3 0 156 57 114 887.3 0 114 58 72 887.3 0 72 59 64 887.3 0 64 60 103 887.3 0 103 61 94 887.3 0 94 62 201 887.3 0 201 63 110 887.3 0 110 64 75 887.3 0 75 65 83 887.3 0 83 66 116 887.3 0 116 67 76 887.3 0 76 68 112 887.3 0 112 69 138 887.3 0 138 70 126 887.3 0 126 71 155 887.3 0 155 72 236 887.3 0 236 73 626 887.3 0 626 74 267 887.3 0 267 75 219 887.3 0 219 76 347 887.3 0 347 77 235 887.3 0 235 78 255 887.3 0 255 79 427 887.3 0 427 80 571 887.3 0 571 81 637 887.3 0 637 82 607 887.3 0 607 83 1073 887.3 0 1073 84 1051 887.3 0 1051 85 2176 887.3 0 2176 86 46940 887.3 0 46940 87 63616 887.3 0 63616 88 20019 887.3 0 20019 89 156 887.3 0 156 90 74 887.3 0 74 91 53 887.3 0 53 92 70 887.3 0 70 93 49 887.3 0 49 94 69 887.3 0 69 95 71 887.3 0 71 96 71 887.3 0 71 97 75 887.3 0 75 98 66 887.3 0 66 99 64 887.3 0 64 100 77 887.3 0 77 101 94 887.3 0 94 102 92 887.3 0 92 103 126 887.3 0 126 104 108 887.3 0 108 105 94 887.3 0 94 106 59 887.3 0 59 107 60 887.3 0 60 108 72 887.3 0 72 109 67 887.3 0 67 110 85 887.3 0 85 111 68 887.3 0 68 112 85 887.3 0 85 113 74 887.3 0 74 114 56 887.3 0 56 115 61 887.3 0 61 116 59 887.3 0 59 117 81 887.3 0 81 118 72 887.3 0 72 119 63 887.3 0 63 120 84 887.3 0 84 121 95 887.3 0 95 122 96 887.3 0 96 123 281 887.3 0 281 124 948 887.3 0 948 125 1040 887.3 0 1040 126 625 887.3 0 625 127 227 887.3 0 227 128 86 887.3 0 86 129 93 887.3 0 93 130 134 887.3 0 134 131 116 887.3 0 116 132 94 887.3 0 94 133 102 887.3 0 102 134 114 887.3 0 114 135 94 887.3 0 94 136 104 887.3 0 104 137 105 887.3 0 105 138 264 887.3 0 264 139 105 887.3 0 105 140 134 887.3 0 134 141 176 887.3 0 176 142 200 887.3 0 200 143 294 887.3 0 294 144 4794 887.3 0 4794 145 4731 887.3 0 4731 146 2139 887.3 0 2139 147 371 887.3 0 371 148 65 887.3 0 65 149 120 887.3 0 120 150 141 887.3 0 141 151 107 887.3 0 107 152 82 887.3 0 82 153 101 887.3 0 101 154 108 887.3 0 108 155 97 887.3 0 97 156 92 887.3 0 92 157 92 887.3 0 92 158 97 887.3 0 97 159 83 887.3 0 83 160 93 887.3 0 93 161 91 887.3 0 91 162 82 887.3 0 82 163 106 887.3 0 106 164 106 887.3 0 106 165 118 887.3 0 118 166 452 887.3 0 452 167 1408 887.3 0 1408 168 951 887.3 0 951 169 107 887.3 0 107 170 91 887.3 0 91 171 104 887.3 0 104 172 117 887.3 0 117 173 87 887.3 0 87 174 98 887.3 0 98 175 108 887.3 0 108 176 102 887.3 0 102 177 81 887.3 0 81 178 101 887.3 0 101 179 92 887.3 0 92 180 94 887.3 0 94 181 101 887.3 0 101 182 108 887.3 0 108 183 124 887.3 0 124 184 119 887.3 0 119 185 614 887.3 0 614 186 740 887.3 0 740 187 1142 887.3 0 1142 188 119 887.3 0 119 189 84 887.3 0 84 190 79 887.3 0 79 191 89 887.3 0 89 192 95 887.3 0 95 193 166 887.3 0 166 194 111 887.3 0 111 195 107 887.3 0 107 196 110 887.3 0 110 197 98 887.3 0 98 198 93 887.3 0 93 199 143 887.3 0 143 200 146 887.3 0 146 201 135 887.3 0 135 202 136 887.3 0 136 203 172 887.3 0 172 204 167 887.3 0 167 205 248 887.3 0 248 206 3977 887.3 0 3977 207 4994 887.3 0 4994 208 2640 887.3 0 2640 209 144 887.3 0 144 210 96 887.3 0 96 211 297 887.3 0 297 212 546 887.3 0 546 213 409 887.3 0 409 214 90 887.3 0 90 215 79 887.3 0 79 216 70 887.3 0 70 217 56 887.3 0 56 218 77 887.3 0 77 219 72 887.3 0 72 220 77 887.3 0 77 221 68 887.3 0 68 222 73 887.3 0 73 223 71 887.3 0 71 224 78 887.3 0 78 225 95 887.3 0 95 226 75 887.3 0 75 227 116 887.3 0 116 228 117 887.3 0 117 229 95 887.3 0 95 230 56 887.3 0 56 231 100 887.3 0 100 232 73 887.3 0 73 233 70 887.3 0 70 234 81 887.3 0 81 235 77 887.3 0 77 236 64 887.3 0 64 237 72 887.3 0 72 238 76 887.3 0 76 239 77 887.3 0 77 240 90 887.3 0 90 241 126 887.3 0 126 242 107 887.3 0 107 243 149 887.3 0 149 244 78 887.3 0 78 245 91 887.3 0 91 246 94 887.3 0 94 247 77 887.3 0 77 248 99 887.3 0 99 249 78 887.3 0 78 250 66 887.3 0 66 251 102 887.3 0 102 252 80 887.3 0 80 253 57 887.3 0 57 254 53 887.3 0 53 255 87 887.3 0 87 256 84 887.3 0 84 257 111 887.3 0 111 258 131 887.3 0 131 259 585 887.3 0 585 260 483 887.3 0 483 261 433 887.3 0 433 262 128 887.3 0 128 263 69 887.3 0 69 264 89 887.3 0 89 265 57 887.3 0 57 266 92 887.3 0 92 267 128 887.3 0 128 268 135 887.3 0 135 269 111 887.3 0 111 270 84 887.3 0 84 271 66 887.3 0 66 272 71 887.3 0 71 273 69 887.3 0 69 274 99 887.3 0 99 275 94 887.3 0 94 276 178 887.3 0 178 277 106 887.3 0 106 278 67 887.3 0 67 279 98 887.3 0 98 280 79 887.3 0 79 281 101 887.3 0 101 282 118 887.3 0 118 283 76 887.3 0 76 284 62 887.3 0 62 285 84 887.3 0 84 286 51 887.3 0 51 287 83 887.3 0 83 288 78 887.3 0 78 289 69 887.3 0 69 290 64 887.3 0 64 291 76 887.3 0 76 292 61 887.3 0 61 293 80 887.3 0 80 294 119 887.3 0 119 295 121 887.3 0 121 296 100 887.3 0 100 297 92 887.3 0 92 298 138 887.3 0 138 299 71 887.3 0 71 300 121 887.3 0 121 301 790 887.3 0 790 Finished in 22.79 s (72 us/read; 0.83 M reads/minute). === Summary === Total reads processed: 315,696 Reads with adapters: 75,750 (24.0%) Reads that were too short: 48 (0.0%) Reads written (passing filters): 75,702 (24.0%) Total basepairs processed: 77,097,247 bp Total written (filtered): 20,513,061 bp (26.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 75750 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 45 0.0 3 0 0 43 2 19 1666 0.0 3 0 1635 28 2 1 20 70523 0.0 4 69324 1157 35 4 3 21 116 0.0 4 15 96 4 1 22 1189 0.0 4 1159 14 14 0 2 23 46 0.0 4 1 3 0 39 3 24 3 0.0 4 3 25 1 0.0 4 0 0 0 1 26 1 0.0 4 1 44 1 0.0 4 0 0 0 0 1 48 23 0.0 4 0 0 0 0 23 55 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 61 1 0.0 4 1 63 1 0.0 4 1 70 1 0.0 4 0 0 0 0 1 73 4 0.0 4 0 0 0 0 4 74 12 0.0 4 0 0 0 0 12 81 1 0.0 4 0 0 0 0 1 86 2 0.0 4 0 0 0 0 2 95 2 0.0 4 0 0 0 0 2 124 2 0.0 4 0 0 0 0 2 125 3 0.0 4 0 0 0 0 3 126 19 0.0 4 0 0 0 0 19 127 2005 0.0 4 0 0 0 0 2005 128 9 0.0 4 0 0 0 0 9 129 25 0.0 4 0 0 0 0 25 130 1 0.0 4 0 0 0 0 1 145 1 0.0 4 1 146 2 0.0 4 0 0 0 0 2 149 9 0.0 4 0 0 0 0 9 150 2 0.0 4 0 0 0 0 2 153 3 0.0 4 0 0 0 0 3 154 2 0.0 4 0 0 0 0 2 155 1 0.0 4 0 0 0 0 1 159 1 0.0 4 1 178 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 213 2 0.0 4 0 0 0 0 2 214 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 229 3 0.0 4 0 0 0 0 3 258 1 0.0 4 0 0 0 0 1 260 3 0.0 4 0 0 0 1 2 282 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 290 1 0.0 4 0 0 0 0 1 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 4.21 s (56 us/read; 1.08 M reads/minute). === Summary === Total reads processed: 75,702 Reads with adapters: 1,272 (1.7%) Reads written (passing filters): 75,702 (100.0%) Total basepairs processed: 20,513,061 bp Total written (filtered): 20,496,993 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1272 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.5% C: 5.5% G: 84.7% T: 2.4% 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 3 106 1182.8 0 106 4 16 295.7 0 16 5 6 73.9 0 6 9 42 0.3 0 0 42 10 110 0.1 1 2 108 11 883 0.0 1 6 877 12 84 0.0 1 2 82 13 2 0.0 1 1 1 14 1 0.0 1 0 1 15 2 0.0 1 0 2 22 1 0.0 1 1 46 1 0.0 1 1 73 1 0.0 1 1 85 1 0.0 1 1 152 2 0.0 1 0 2 153 1 0.0 1 0 1 171 1 0.0 1 1 191 7 0.0 1 5 2 203 1 0.0 1 1 223 1 0.0 1 1 224 1 0.0 1 0 1 273 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.