This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GCGAGA -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 176.50 s (49 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 198,175 (5.5%) Reads that were too short: 24,878 (0.7%) Reads written (passing filters): 173,297 (4.8%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 46,711,891 bp (4.3%) === Adapter 1 === Sequence: GCGAGA; Type: regular 5'; Length: 6; Trimmed: 198175 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 5118 887.3 0 5118 7 68267 887.3 0 68267 8 61125 887.3 0 61125 9 90 887.3 0 90 10 45 887.3 0 45 11 43 887.3 0 43 12 29 887.3 0 29 13 33 887.3 0 33 14 41 887.3 0 41 15 43 887.3 0 43 16 27 887.3 0 27 17 28 887.3 0 28 18 20 887.3 0 20 19 28 887.3 0 28 20 39 887.3 0 39 21 27 887.3 0 27 22 27 887.3 0 27 23 28 887.3 0 28 24 29 887.3 0 29 25 33 887.3 0 33 26 35 887.3 0 35 27 39 887.3 0 39 28 39 887.3 0 39 29 40 887.3 0 40 30 136 887.3 0 136 31 86 887.3 0 86 32 46 887.3 0 46 33 36 887.3 0 36 34 73 887.3 0 73 35 28 887.3 0 28 36 30 887.3 0 30 37 52 887.3 0 52 38 21 887.3 0 21 39 33 887.3 0 33 40 35 887.3 0 35 41 52 887.3 0 52 42 51 887.3 0 51 43 58 887.3 0 58 44 47 887.3 0 47 45 61 887.3 0 61 46 69 887.3 0 69 47 110 887.3 0 110 48 139 887.3 0 139 49 184 887.3 0 184 50 2963 887.3 0 2963 51 3042 887.3 0 3042 52 3590 887.3 0 3590 53 57 887.3 0 57 54 65 887.3 0 65 55 31 887.3 0 31 56 16 887.3 0 16 57 43 887.3 0 43 58 61 887.3 0 61 59 28 887.3 0 28 60 41 887.3 0 41 61 54 887.3 0 54 62 37 887.3 0 37 63 50 887.3 0 50 64 82 887.3 0 82 65 63 887.3 0 63 66 68 887.3 0 68 67 72 887.3 0 72 68 52 887.3 0 52 69 54 887.3 0 54 70 31 887.3 0 31 71 54 887.3 0 54 72 61 887.3 0 61 73 117 887.3 0 117 74 741 887.3 0 741 75 777 887.3 0 777 76 1565 887.3 0 1565 77 130 887.3 0 130 78 314 887.3 0 314 79 75 887.3 0 75 80 91 887.3 0 91 81 50 887.3 0 50 82 116 887.3 0 116 83 40 887.3 0 40 84 44 887.3 0 44 85 56 887.3 0 56 86 53 887.3 0 53 87 58 887.3 0 58 88 33 887.3 0 33 89 64 887.3 0 64 90 52 887.3 0 52 91 78 887.3 0 78 92 47 887.3 0 47 93 107 887.3 0 107 94 86 887.3 0 86 95 39 887.3 0 39 96 81 887.3 0 81 97 28 887.3 0 28 98 43 887.3 0 43 99 57 887.3 0 57 100 45 887.3 0 45 101 37 887.3 0 37 102 30 887.3 0 30 103 37 887.3 0 37 104 36 887.3 0 36 105 35 887.3 0 35 106 31 887.3 0 31 107 41 887.3 0 41 108 35 887.3 0 35 109 35 887.3 0 35 110 36 887.3 0 36 111 39 887.3 0 39 112 50 887.3 0 50 113 46 887.3 0 46 114 113 887.3 0 113 115 135 887.3 0 135 116 159 887.3 0 159 117 85 887.3 0 85 118 111 887.3 0 111 119 96 887.3 0 96 120 91 887.3 0 91 121 59 887.3 0 59 122 98 887.3 0 98 123 105 887.3 0 105 124 161 887.3 0 161 125 1150 887.3 0 1150 126 1197 887.3 0 1197 127 924 887.3 0 924 128 88 887.3 0 88 129 96 887.3 0 96 130 356 887.3 0 356 131 358 887.3 0 358 132 231 887.3 0 231 133 90 887.3 0 90 134 83 887.3 0 83 135 178 887.3 0 178 136 528 887.3 0 528 137 131 887.3 0 131 138 107 887.3 0 107 139 33 887.3 0 33 140 52 887.3 0 52 141 53 887.3 0 53 142 52 887.3 0 52 143 61 887.3 0 61 144 59 887.3 0 59 145 77 887.3 0 77 146 59 887.3 0 59 147 55 887.3 0 55 148 42 887.3 0 42 149 45 887.3 0 45 150 54 887.3 0 54 151 60 887.3 0 60 152 37 887.3 0 37 153 57 887.3 0 57 154 50 887.3 0 50 155 48 887.3 0 48 156 52 887.3 0 52 157 70 887.3 0 70 158 64 887.3 0 64 159 64 887.3 0 64 160 60 887.3 0 60 161 71 887.3 0 71 162 64 887.3 0 64 163 111 887.3 0 111 164 1485 887.3 0 1485 165 738 887.3 0 738 166 858 887.3 0 858 167 71 887.3 0 71 168 78 887.3 0 78 169 101 887.3 0 101 170 61 887.3 0 61 171 69 887.3 0 69 172 53 887.3 0 53 173 31 887.3 0 31 174 51 887.3 0 51 175 56 887.3 0 56 176 55 887.3 0 55 177 57 887.3 0 57 178 65 887.3 0 65 179 118 887.3 0 118 180 102 887.3 0 102 181 116 887.3 0 116 182 76 887.3 0 76 183 101 887.3 0 101 184 67 887.3 0 67 185 69 887.3 0 69 186 67 887.3 0 67 187 74 887.3 0 74 188 59 887.3 0 59 189 102 887.3 0 102 190 147 887.3 0 147 191 372 887.3 0 372 192 239 887.3 0 239 193 213 887.3 0 213 194 274 887.3 0 274 195 284 887.3 0 284 196 2170 887.3 0 2170 197 1970 887.3 0 1970 198 1379 887.3 0 1379 199 289 887.3 0 289 200 160 887.3 0 160 201 130 887.3 0 130 202 135 887.3 0 135 203 88 887.3 0 88 204 314 887.3 0 314 205 256 887.3 0 256 206 183 887.3 0 183 207 95 887.3 0 95 208 127 887.3 0 127 209 115 887.3 0 115 210 121 887.3 0 121 211 142 887.3 0 142 212 117 887.3 0 117 213 109 887.3 0 109 214 127 887.3 0 127 215 163 887.3 0 163 216 1031 887.3 0 1031 217 1544 887.3 0 1544 218 842 887.3 0 842 219 437 887.3 0 437 220 176 887.3 0 176 221 160 887.3 0 160 222 157 887.3 0 157 223 150 887.3 0 150 224 116 887.3 0 116 225 107 887.3 0 107 226 96 887.3 0 96 227 88 887.3 0 88 228 84 887.3 0 84 229 89 887.3 0 89 230 83 887.3 0 83 231 72 887.3 0 72 232 71 887.3 0 71 233 74 887.3 0 74 234 94 887.3 0 94 235 85 887.3 0 85 236 90 887.3 0 90 237 78 887.3 0 78 238 195 887.3 0 195 239 184 887.3 0 184 240 244 887.3 0 244 241 236 887.3 0 236 242 152 887.3 0 152 243 108 887.3 0 108 244 104 887.3 0 104 245 138 887.3 0 138 246 174 887.3 0 174 247 1065 887.3 0 1065 248 1537 887.3 0 1537 249 2109 887.3 0 2109 250 1126 887.3 0 1126 251 250 887.3 0 250 252 173 887.3 0 173 253 136 887.3 0 136 254 213 887.3 0 213 255 150 887.3 0 150 256 166 887.3 0 166 257 100 887.3 0 100 258 130 887.3 0 130 259 91 887.3 0 91 260 70 887.3 0 70 261 72 887.3 0 72 262 118 887.3 0 118 263 121 887.3 0 121 264 100 887.3 0 100 265 91 887.3 0 91 266 77 887.3 0 77 267 74 887.3 0 74 268 83 887.3 0 83 269 183 887.3 0 183 270 324 887.3 0 324 271 162 887.3 0 162 272 85 887.3 0 85 273 76 887.3 0 76 274 61 887.3 0 61 275 68 887.3 0 68 276 107 887.3 0 107 277 122 887.3 0 122 278 132 887.3 0 132 279 98 887.3 0 98 280 71 887.3 0 71 281 64 887.3 0 64 282 76 887.3 0 76 283 95 887.3 0 95 284 98 887.3 0 98 285 109 887.3 0 109 286 126 887.3 0 126 287 111 887.3 0 111 288 103 887.3 0 103 289 455 887.3 0 455 290 755 887.3 0 755 291 833 887.3 0 833 292 372 887.3 0 372 293 152 887.3 0 152 294 102 887.3 0 102 295 117 887.3 0 117 296 140 887.3 0 140 297 469 887.3 0 469 298 554 887.3 0 554 299 610 887.3 0 610 300 439 887.3 0 439 301 206 887.3 0 206 Finished in 13.56 s (78 us/read; 0.77 M reads/minute). === Summary === Total reads processed: 173,297 Reads with adapters: 63,693 (36.8%) Reads that were too short: 83 (0.0%) Reads written (passing filters): 63,610 (36.7%) Total basepairs processed: 46,711,891 bp Total written (filtered): 17,282,140 bp (37.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 63693 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 17 8 0.0 3 0 0 0 5 3 18 23 0.0 3 0 0 18 2 3 19 732 0.0 3 0 626 54 33 19 20 61696 0.0 4 58970 2231 370 83 42 21 194 0.0 4 28 154 5 3 4 22 36 0.0 4 11 3 17 3 2 23 138 0.0 4 0 0 0 97 41 24 5 0.0 4 0 0 0 1 4 25 1 0.0 4 0 0 0 0 1 27 1 0.0 4 0 0 0 0 1 28 3 0.0 4 1 0 0 0 2 34 1 0.0 4 0 0 0 0 1 36 1 0.0 4 1 44 1 0.0 4 1 47 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 60 2 0.0 4 0 0 0 0 2 74 1 0.0 4 0 0 0 0 1 75 1 0.0 4 1 78 1 0.0 4 1 84 19 0.0 4 0 0 0 0 19 86 1 0.0 4 0 0 0 0 1 91 2 0.0 4 0 0 0 0 2 92 123 0.0 4 0 0 0 0 123 98 1 0.0 4 0 0 0 0 1 99 3 0.0 4 0 0 0 0 3 100 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 5 0.0 4 0 0 0 0 5 127 605 0.0 4 0 0 0 0 605 128 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 136 3 0.0 4 0 0 0 0 3 140 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 149 2 0.0 4 0 0 0 0 2 153 4 0.0 4 0 0 0 0 4 163 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 185 17 0.0 4 0 0 0 0 17 186 8 0.0 4 0 0 0 0 8 187 4 0.0 4 0 0 0 1 3 188 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 205 2 0.0 4 0 0 0 0 2 214 3 0.0 4 0 0 1 0 2 215 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 1 228 6 0.0 4 0 0 0 0 6 230 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 242 1 0.0 4 0 0 0 0 1 244 3 0.0 4 0 0 0 0 3 254 1 0.0 4 0 0 0 0 1 257 2 0.0 4 0 0 0 0 2 265 1 0.0 4 0 0 0 0 1 283 2 0.0 4 0 0 0 0 2 285 1 0.0 4 0 0 0 0 1 293 1 0.0 4 0 0 0 0 1 294 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 3.95 s (62 us/read; 0.97 M reads/minute). === Summary === Total reads processed: 63,610 Reads with adapters: 13,332 (21.0%) Reads written (passing filters): 63,610 (100.0%) Total basepairs processed: 17,282,140 bp Total written (filtered): 17,127,161 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 13332 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.4% C: 5.8% G: 91.2% T: 1.6% 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 85 993.9 0 85 4 16 248.5 0 16 5 1 62.1 0 1 7 1 3.9 0 1 8 3 1.0 0 3 9 165 0.2 0 1 164 10 1205 0.1 1 57 1148 11 11662 0.0 1 209 11453 12 97 0.0 1 1 96 13 5 0.0 1 0 5 14 6 0.0 1 0 6 15 6 0.0 1 0 6 123 53 0.0 1 46 7 124 2 0.0 1 2 125 1 0.0 1 1 150 1 0.0 1 1 151 10 0.0 1 5 5 209 6 0.0 1 6 210 1 0.0 1 1 224 5 0.0 1 5 268 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.