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 102.46 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 77,023 (2.4%) Reads that were too short: 26,023 (0.8%) Reads written (passing filters): 51,000 (1.6%) Total basepairs processed: 961,105,341 bp Total written (filtered): 10,939,347 bp (1.1%) === Adapter 1 === Sequence: GCGAGA; Type: regular 5'; Length: 6; Trimmed: 77023 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 256 779.6 0 256 7 14428 779.6 0 14428 8 4651 779.6 0 4651 9 17 779.6 0 17 10 16 779.6 0 16 11 189 779.6 0 189 12 12 779.6 0 12 13 8 779.6 0 8 14 13 779.6 0 13 15 12 779.6 0 12 16 6 779.6 0 6 17 9 779.6 0 9 18 7 779.6 0 7 19 11 779.6 0 11 20 7 779.6 0 7 21 8 779.6 0 8 22 9 779.6 0 9 23 9 779.6 0 9 24 8 779.6 0 8 25 9 779.6 0 9 26 13 779.6 0 13 27 10 779.6 0 10 28 12 779.6 0 12 29 10 779.6 0 10 30 53 779.6 0 53 31 101 779.6 0 101 32 32 779.6 0 32 33 9 779.6 0 9 34 30 779.6 0 30 35 17 779.6 0 17 36 24 779.6 0 24 37 44 779.6 0 44 38 20 779.6 0 20 39 15 779.6 0 15 40 42 779.6 0 42 41 20 779.6 0 20 42 28 779.6 0 28 43 30 779.6 0 30 44 39 779.6 0 39 45 29 779.6 0 29 46 28 779.6 0 28 47 41 779.6 0 41 48 46 779.6 0 46 49 72 779.6 0 72 50 899 779.6 0 899 51 1241 779.6 0 1241 52 1758 779.6 0 1758 53 21 779.6 0 21 54 19 779.6 0 19 55 9 779.6 0 9 56 48 779.6 0 48 57 20 779.6 0 20 58 15 779.6 0 15 59 21 779.6 0 21 60 45 779.6 0 45 61 43 779.6 0 43 62 18 779.6 0 18 63 30 779.6 0 30 64 39 779.6 0 39 65 32 779.6 0 32 66 21 779.6 0 21 67 40 779.6 0 40 68 43 779.6 0 43 69 66 779.6 0 66 70 117 779.6 0 117 71 47 779.6 0 47 72 151 779.6 0 151 73 101 779.6 0 101 74 2134 779.6 0 2134 75 2043 779.6 0 2043 76 312 779.6 0 312 77 15 779.6 0 15 78 36 779.6 0 36 79 22 779.6 0 22 80 75 779.6 0 75 81 31 779.6 0 31 82 44 779.6 0 44 83 38 779.6 0 38 84 38 779.6 0 38 85 96 779.6 0 96 86 48 779.6 0 48 87 64 779.6 0 64 88 25 779.6 0 25 89 17 779.6 0 17 90 20 779.6 0 20 91 18 779.6 0 18 92 34 779.6 0 34 93 21 779.6 0 21 94 39 779.6 0 39 95 36 779.6 0 36 96 22 779.6 0 22 97 23 779.6 0 23 98 17 779.6 0 17 99 8 779.6 0 8 100 7 779.6 0 7 101 10 779.6 0 10 102 25 779.6 0 25 103 19 779.6 0 19 104 15 779.6 0 15 105 25 779.6 0 25 106 16 779.6 0 16 107 9 779.6 0 9 108 8 779.6 0 8 109 17 779.6 0 17 110 9 779.6 0 9 111 16 779.6 0 16 112 36 779.6 0 36 113 26 779.6 0 26 114 438 779.6 0 438 115 96 779.6 0 96 116 70 779.6 0 70 117 27 779.6 0 27 118 49 779.6 0 49 119 49 779.6 0 49 120 47 779.6 0 47 121 40 779.6 0 40 122 45 779.6 0 45 123 79 779.6 0 79 124 64 779.6 0 64 125 408 779.6 0 408 126 245 779.6 0 245 127 929 779.6 0 929 128 40 779.6 0 40 129 49 779.6 0 49 130 133 779.6 0 133 131 47 779.6 0 47 132 83 779.6 0 83 133 38 779.6 0 38 134 54 779.6 0 54 135 297 779.6 0 297 136 232 779.6 0 232 137 128 779.6 0 128 138 49 779.6 0 49 139 33 779.6 0 33 140 50 779.6 0 50 141 33 779.6 0 33 142 53 779.6 0 53 143 41 779.6 0 41 144 92 779.6 0 92 145 39 779.6 0 39 146 135 779.6 0 135 147 48 779.6 0 48 148 38 779.6 0 38 149 24 779.6 0 24 150 51 779.6 0 51 151 48 779.6 0 48 152 22 779.6 0 22 153 20 779.6 0 20 154 28 779.6 0 28 155 31 779.6 0 31 156 36 779.6 0 36 157 89 779.6 0 89 158 43 779.6 0 43 159 48 779.6 0 48 160 50 779.6 0 50 161 61 779.6 0 61 162 44 779.6 0 44 163 70 779.6 0 70 164 1265 779.6 0 1265 165 929 779.6 0 929 166 504 779.6 0 504 167 50 779.6 0 50 168 41 779.6 0 41 169 69 779.6 0 69 170 60 779.6 0 60 171 67 779.6 0 67 172 26 779.6 0 26 173 32 779.6 0 32 174 27 779.6 0 27 175 74 779.6 0 74 176 42 779.6 0 42 177 38 779.6 0 38 178 23 779.6 0 23 179 29 779.6 0 29 180 41 779.6 0 41 181 53 779.6 0 53 182 82 779.6 0 82 183 53 779.6 0 53 184 47 779.6 0 47 185 64 779.6 0 64 186 93 779.6 0 93 187 105 779.6 0 105 188 36 779.6 0 36 189 38 779.6 0 38 190 35 779.6 0 35 191 126 779.6 0 126 192 215 779.6 0 215 193 1908 779.6 0 1908 194 177 779.6 0 177 195 200 779.6 0 200 196 736 779.6 0 736 197 1143 779.6 0 1143 198 4162 779.6 0 4162 199 2185 779.6 0 2185 200 277 779.6 0 277 201 177 779.6 0 177 202 29 779.6 0 29 203 25 779.6 0 25 204 64 779.6 0 64 205 86 779.6 0 86 206 67 779.6 0 67 207 76 779.6 0 76 208 51 779.6 0 51 209 48 779.6 0 48 210 63 779.6 0 63 211 108 779.6 0 108 212 105 779.6 0 105 213 170 779.6 0 170 214 97 779.6 0 97 215 110 779.6 0 110 216 187 779.6 0 187 217 327 779.6 0 327 218 1335 779.6 0 1335 219 568 779.6 0 568 220 130 779.6 0 130 221 166 779.6 0 166 222 44 779.6 0 44 223 25 779.6 0 25 224 23 779.6 0 23 225 50 779.6 0 50 226 59 779.6 0 59 227 58 779.6 0 58 228 52 779.6 0 52 229 84 779.6 0 84 230 61 779.6 0 61 231 68 779.6 0 68 232 45 779.6 0 45 233 40 779.6 0 40 234 47 779.6 0 47 235 74 779.6 0 74 236 114 779.6 0 114 237 200 779.6 0 200 238 194 779.6 0 194 239 501 779.6 0 501 240 689 779.6 0 689 241 176 779.6 0 176 242 39 779.6 0 39 243 25 779.6 0 25 244 40 779.6 0 40 245 80 779.6 0 80 246 317 779.6 0 317 247 2538 779.6 0 2538 248 8418 779.6 0 8418 249 2905 779.6 0 2905 250 791 779.6 0 791 251 147 779.6 0 147 252 16 779.6 0 16 253 17 779.6 0 17 254 37 779.6 0 37 255 72 779.6 0 72 256 114 779.6 0 114 257 121 779.6 0 121 258 207 779.6 0 207 259 118 779.6 0 118 260 60 779.6 0 60 261 21 779.6 0 21 262 15 779.6 0 15 263 18 779.6 0 18 264 14 779.6 0 14 265 30 779.6 0 30 266 41 779.6 0 41 267 63 779.6 0 63 268 74 779.6 0 74 269 69 779.6 0 69 270 90 779.6 0 90 271 85 779.6 0 85 272 33 779.6 0 33 273 29 779.6 0 29 274 52 779.6 0 52 275 60 779.6 0 60 276 62 779.6 0 62 277 66 779.6 0 66 278 49 779.6 0 49 279 62 779.6 0 62 280 158 779.6 0 158 281 207 779.6 0 207 282 128 779.6 0 128 283 112 779.6 0 112 284 153 779.6 0 153 285 89 779.6 0 89 286 76 779.6 0 76 287 116 779.6 0 116 288 59 779.6 0 59 289 93 779.6 0 93 290 150 779.6 0 150 291 247 779.6 0 247 292 288 779.6 0 288 293 77 779.6 0 77 294 112 779.6 0 112 295 84 779.6 0 84 296 99 779.6 0 99 297 89 779.6 0 89 298 93 779.6 0 93 299 66 779.6 0 66 300 73 779.6 0 73 301 43 779.6 0 43 Finished in 2.71 s (53 us/read; 1.13 M reads/minute). === Summary === Total reads processed: 51,000 Reads with adapters: 4,814 (9.4%) Reads that were too short: 22 (0.0%) Reads written (passing filters): 4,792 (9.4%) Total basepairs processed: 10,939,347 bp Total written (filtered): 1,303,677 bp (11.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4814 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 3 0.0 3 0 0 2 1 19 49 0.0 3 0 42 1 4 2 20 4686 0.0 4 4507 137 22 5 15 21 15 0.0 4 5 10 22 1 0.0 4 1 23 8 0.0 4 0 0 0 5 3 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 0 0 0 0 1 27 1 0.0 4 0 0 0 1 34 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 1 82 1 0.0 4 0 0 0 0 1 84 4 0.0 4 0 0 0 0 4 86 10 0.0 4 0 0 0 0 10 92 7 0.0 4 0 0 0 0 7 95 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 127 4 0.0 4 0 0 0 0 4 133 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 185 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 1 228 2 0.0 4 0 0 0 0 2 257 2 0.0 4 0 0 0 0 2 282 1 0.0 4 0 0 0 1 286 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 0.21 s (44 us/read; 1.37 M reads/minute). === Summary === Total reads processed: 4,792 Reads with adapters: 805 (16.8%) Reads written (passing filters): 4,792 (100.0%) Total basepairs processed: 1,303,677 bp Total written (filtered): 1,293,261 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 805 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.5% C: 2.4% G: 93.4% T: 1.7% 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 74.9 0 1 9 5 0.0 0 0 5 10 22 0.0 1 1 21 11 768 0.0 1 6 762 151 4 0.0 1 4 153 2 0.0 1 2 259 1 0.0 1 1 263 1 0.0 1 1 268 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.