This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCATG -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 164.58 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 264,820 (7.6%) Reads that were too short: 16,255 (0.5%) Reads written (passing filters): 248,565 (7.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 69,669,380 bp (6.7%) === Adapter 1 === Sequence: CTCATG; Type: regular 5'; Length: 6; Trimmed: 264820 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3392 847.3 0 3392 7 111874 847.3 0 111874 8 2976 847.3 0 2976 9 102204 847.3 0 102204 10 137 847.3 0 137 11 43 847.3 0 43 12 70 847.3 0 70 13 61 847.3 0 61 14 31 847.3 0 31 15 47 847.3 0 47 16 48 847.3 0 48 17 70 847.3 0 70 18 63 847.3 0 63 19 31 847.3 0 31 20 43 847.3 0 43 21 40 847.3 0 40 22 38 847.3 0 38 23 38 847.3 0 38 24 32 847.3 0 32 25 44 847.3 0 44 26 38 847.3 0 38 27 56 847.3 0 56 28 69 847.3 0 69 29 61 847.3 0 61 30 57 847.3 0 57 31 50 847.3 0 50 32 57 847.3 0 57 33 78 847.3 0 78 34 56 847.3 0 56 35 47 847.3 0 47 36 53 847.3 0 53 37 70 847.3 0 70 38 57 847.3 0 57 39 68 847.3 0 68 40 94 847.3 0 94 41 70 847.3 0 70 42 68 847.3 0 68 43 77 847.3 0 77 44 141 847.3 0 141 45 202 847.3 0 202 46 379 847.3 0 379 47 48 847.3 0 48 48 50 847.3 0 50 49 38 847.3 0 38 50 72 847.3 0 72 51 90 847.3 0 90 52 59 847.3 0 59 53 81 847.3 0 81 54 54 847.3 0 54 55 35 847.3 0 35 56 69 847.3 0 69 57 109 847.3 0 109 58 494 847.3 0 494 59 286 847.3 0 286 60 198 847.3 0 198 61 50 847.3 0 50 62 39 847.3 0 39 63 40 847.3 0 40 64 34 847.3 0 34 65 43 847.3 0 43 66 55 847.3 0 55 67 60 847.3 0 60 68 42 847.3 0 42 69 50 847.3 0 50 70 33 847.3 0 33 71 38 847.3 0 38 72 44 847.3 0 44 73 64 847.3 0 64 74 68 847.3 0 68 75 83 847.3 0 83 76 47 847.3 0 47 77 63 847.3 0 63 78 49 847.3 0 49 79 58 847.3 0 58 80 61 847.3 0 61 81 78 847.3 0 78 82 63 847.3 0 63 83 83 847.3 0 83 84 63 847.3 0 63 85 58 847.3 0 58 86 58 847.3 0 58 87 48 847.3 0 48 88 61 847.3 0 61 89 87 847.3 0 87 90 91 847.3 0 91 91 129 847.3 0 129 92 100 847.3 0 100 93 130 847.3 0 130 94 102 847.3 0 102 95 71 847.3 0 71 96 101 847.3 0 101 97 103 847.3 0 103 98 68 847.3 0 68 99 86 847.3 0 86 100 60 847.3 0 60 101 88 847.3 0 88 102 65 847.3 0 65 103 73 847.3 0 73 104 68 847.3 0 68 105 126 847.3 0 126 106 562 847.3 0 562 107 1071 847.3 0 1071 108 873 847.3 0 873 109 86 847.3 0 86 110 72 847.3 0 72 111 74 847.3 0 74 112 66 847.3 0 66 113 84 847.3 0 84 114 666 847.3 0 666 115 430 847.3 0 430 116 352 847.3 0 352 117 52 847.3 0 52 118 69 847.3 0 69 119 64 847.3 0 64 120 52 847.3 0 52 121 78 847.3 0 78 122 65 847.3 0 65 123 83 847.3 0 83 124 92 847.3 0 92 125 80 847.3 0 80 126 107 847.3 0 107 127 138 847.3 0 138 128 393 847.3 0 393 129 453 847.3 0 453 130 130 847.3 0 130 131 75 847.3 0 75 132 88 847.3 0 88 133 77 847.3 0 77 134 230 847.3 0 230 135 219 847.3 0 219 136 410 847.3 0 410 137 247 847.3 0 247 138 208 847.3 0 208 139 263 847.3 0 263 140 520 847.3 0 520 141 557 847.3 0 557 142 142 847.3 0 142 143 152 847.3 0 152 144 138 847.3 0 138 145 105 847.3 0 105 146 110 847.3 0 110 147 186 847.3 0 186 148 2456 847.3 0 2456 149 1328 847.3 0 1328 150 1392 847.3 0 1392 151 64 847.3 0 64 152 73 847.3 0 73 153 65 847.3 0 65 154 86 847.3 0 86 155 202 847.3 0 202 156 367 847.3 0 367 157 274 847.3 0 274 158 92 847.3 0 92 159 56 847.3 0 56 160 69 847.3 0 69 161 96 847.3 0 96 162 196 847.3 0 196 163 301 847.3 0 301 164 346 847.3 0 346 165 586 847.3 0 586 166 72 847.3 0 72 167 63 847.3 0 63 168 59 847.3 0 59 169 62 847.3 0 62 170 83 847.3 0 83 171 41 847.3 0 41 172 40 847.3 0 40 173 61 847.3 0 61 174 57 847.3 0 57 175 58 847.3 0 58 176 51 847.3 0 51 177 61 847.3 0 61 178 55 847.3 0 55 179 75 847.3 0 75 180 136 847.3 0 136 181 148 847.3 0 148 182 172 847.3 0 172 183 110 847.3 0 110 184 92 847.3 0 92 185 98 847.3 0 98 186 76 847.3 0 76 187 51 847.3 0 51 188 60 847.3 0 60 189 64 847.3 0 64 190 81 847.3 0 81 191 83 847.3 0 83 192 76 847.3 0 76 193 87 847.3 0 87 194 79 847.3 0 79 195 57 847.3 0 57 196 65 847.3 0 65 197 80 847.3 0 80 198 69 847.3 0 69 199 66 847.3 0 66 200 62 847.3 0 62 201 53 847.3 0 53 202 109 847.3 0 109 203 198 847.3 0 198 204 227 847.3 0 227 205 74 847.3 0 74 206 66 847.3 0 66 207 59 847.3 0 59 208 68 847.3 0 68 209 94 847.3 0 94 210 63 847.3 0 63 211 51 847.3 0 51 212 58 847.3 0 58 213 87 847.3 0 87 214 106 847.3 0 106 215 141 847.3 0 141 216 130 847.3 0 130 217 84 847.3 0 84 218 63 847.3 0 63 219 58 847.3 0 58 220 65 847.3 0 65 221 54 847.3 0 54 222 71 847.3 0 71 223 73 847.3 0 73 224 79 847.3 0 79 225 78 847.3 0 78 226 67 847.3 0 67 227 69 847.3 0 69 228 84 847.3 0 84 229 69 847.3 0 69 230 43 847.3 0 43 231 82 847.3 0 82 232 142 847.3 0 142 233 184 847.3 0 184 234 198 847.3 0 198 235 110 847.3 0 110 236 95 847.3 0 95 237 86 847.3 0 86 238 73 847.3 0 73 239 70 847.3 0 70 240 79 847.3 0 79 241 58 847.3 0 58 242 107 847.3 0 107 243 122 847.3 0 122 244 104 847.3 0 104 245 89 847.3 0 89 246 84 847.3 0 84 247 92 847.3 0 92 248 122 847.3 0 122 249 66 847.3 0 66 250 61 847.3 0 61 251 98 847.3 0 98 252 142 847.3 0 142 253 220 847.3 0 220 254 131 847.3 0 131 255 113 847.3 0 113 256 112 847.3 0 112 257 118 847.3 0 118 258 104 847.3 0 104 259 101 847.3 0 101 260 113 847.3 0 113 261 298 847.3 0 298 262 284 847.3 0 284 263 145 847.3 0 145 264 85 847.3 0 85 265 110 847.3 0 110 266 103 847.3 0 103 267 106 847.3 0 106 268 87 847.3 0 87 269 141 847.3 0 141 270 201 847.3 0 201 271 878 847.3 0 878 272 608 847.3 0 608 273 324 847.3 0 324 274 176 847.3 0 176 275 260 847.3 0 260 276 93 847.3 0 93 277 119 847.3 0 119 278 148 847.3 0 148 279 140 847.3 0 140 280 156 847.3 0 156 281 140 847.3 0 140 282 95 847.3 0 95 283 151 847.3 0 151 284 168 847.3 0 168 285 137 847.3 0 137 286 100 847.3 0 100 287 91 847.3 0 91 288 101 847.3 0 101 289 78 847.3 0 78 290 147 847.3 0 147 291 197 847.3 0 197 292 211 847.3 0 211 293 204 847.3 0 204 294 279 847.3 0 279 295 779 847.3 0 779 296 1180 847.3 0 1180 297 1133 847.3 0 1133 298 611 847.3 0 611 299 91 847.3 0 91 300 76 847.3 0 76 301 60 847.3 0 60 Finished in 19.21 s (77 us/read; 0.78 M reads/minute). === Summary === Total reads processed: 248,565 Reads with adapters: 108,502 (43.7%) Reads that were too short: 62 (0.0%) Reads written (passing filters): 108,440 (43.6%) Total basepairs processed: 69,669,380 bp Total written (filtered): 29,310,481 bp (42.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 108502 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 16 2 0.0 3 0 0 0 0 2 17 7 0.0 3 0 0 0 3 4 18 72 0.0 3 0 0 48 17 7 19 1285 0.0 3 0 1118 69 69 29 20 104486 0.0 4 98984 4388 792 232 90 21 317 0.0 4 83 193 29 7 5 22 42 0.0 4 11 4 17 4 6 23 391 0.0 4 0 0 1 282 108 24 6 0.0 4 2 0 0 0 4 25 4 0.0 4 3 0 0 0 1 27 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 1 34 1 0.0 4 1 35 1 0.0 4 1 37 1 0.0 4 1 45 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 56 1 0.0 4 1 62 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 84 1 0.0 4 1 87 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 93 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 125 5 0.0 4 0 0 0 0 5 126 26 0.0 4 0 0 0 0 26 127 1768 0.0 4 0 0 0 0 1768 128 5 0.0 4 0 0 0 0 5 130 5 0.0 4 0 0 0 0 5 132 1 0.0 4 0 0 0 0 1 139 3 0.0 4 0 0 0 0 3 143 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 155 1 0.0 4 0 0 1 161 1 0.0 4 0 0 0 0 1 165 2 0.0 4 0 0 1 0 1 169 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 215 4 0.0 4 0 0 0 0 4 217 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 229 3 0.0 4 0 0 0 1 2 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 4 0.0 4 0 0 1 0 3 237 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 262 5 0.0 4 0 0 0 0 5 263 2 0.0 4 0 0 0 0 2 264 1 0.0 4 0 0 0 0 1 265 2 0.0 4 0 0 0 0 2 268 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 286 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 2 294 3 0.0 4 0 0 0 0 3 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 6.69 s (62 us/read; 0.97 M reads/minute). === Summary === Total reads processed: 108,440 Reads with adapters: 29,666 (27.4%) Reads written (passing filters): 108,440 (100.0%) Total basepairs processed: 29,310,481 bp Total written (filtered): 29,000,356 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 29666 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 5.0% G: 91.9% T: 1.4% 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 40 1694.4 0 40 4 20 423.6 0 20 5 3 105.9 0 3 6 2 26.5 0 2 7 5 6.6 0 5 8 11 1.7 0 11 9 14715 0.4 0 1020 13695 10 11714 0.1 1 662 11052 11 2936 0.0 1 68 2868 12 65 0.0 1 0 65 13 18 0.0 1 0 18 14 1 0.0 1 0 1 103 1 0.0 1 1 121 1 0.0 1 1 150 20 0.0 1 17 3 153 1 0.0 1 1 169 1 0.0 1 1 177 1 0.0 1 1 191 1 0.0 1 0 1 208 88 0.0 1 74 14 209 9 0.0 1 4 5 210 3 0.0 1 2 1 211 2 0.0 1 2 215 7 0.0 1 7 220 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.