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 56.83 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 167,181 (7.6%) Reads that were too short: 13,150 (0.6%) Reads written (passing filters): 154,031 (7.0%) Total basepairs processed: 659,880,795 bp Total written (filtered): 32,400,189 bp (4.9%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 167181 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1431 535.2 0 1431 7 4127 535.2 0 4127 8 116 535.2 0 116 9 2757 535.2 0 2757 10 74 535.2 0 74 11 70 535.2 0 70 12 86 535.2 0 86 13 73 535.2 0 73 14 67 535.2 0 67 15 105 535.2 0 105 16 94 535.2 0 94 17 76 535.2 0 76 18 96 535.2 0 96 19 84 535.2 0 84 20 72 535.2 0 72 21 93 535.2 0 93 22 79 535.2 0 79 23 66 535.2 0 66 24 93 535.2 0 93 25 79 535.2 0 79 26 72 535.2 0 72 27 98 535.2 0 98 28 64 535.2 0 64 29 67 535.2 0 67 30 77 535.2 0 77 31 77 535.2 0 77 32 73 535.2 0 73 33 58 535.2 0 58 34 74 535.2 0 74 35 82 535.2 0 82 36 81 535.2 0 81 37 77 535.2 0 77 38 52 535.2 0 52 39 69 535.2 0 69 40 101 535.2 0 101 41 64 535.2 0 64 42 108 535.2 0 108 43 73 535.2 0 73 44 77 535.2 0 77 45 99 535.2 0 99 46 85 535.2 0 85 47 92 535.2 0 92 48 76 535.2 0 76 49 69 535.2 0 69 50 64 535.2 0 64 51 84 535.2 0 84 52 68 535.2 0 68 53 94 535.2 0 94 54 117 535.2 0 117 55 107 535.2 0 107 56 78 535.2 0 78 57 87 535.2 0 87 58 92 535.2 0 92 59 86 535.2 0 86 60 90 535.2 0 90 61 75 535.2 0 75 62 188 535.2 0 188 63 98 535.2 0 98 64 89 535.2 0 89 65 81 535.2 0 81 66 120 535.2 0 120 67 86 535.2 0 86 68 89 535.2 0 89 69 154 535.2 0 154 70 186 535.2 0 186 71 207 535.2 0 207 72 524 535.2 0 524 73 942 535.2 0 942 74 355 535.2 0 355 75 291 535.2 0 291 76 644 535.2 0 644 77 275 535.2 0 275 78 278 535.2 0 278 79 643 535.2 0 643 80 612 535.2 0 612 81 677 535.2 0 677 82 621 535.2 0 621 83 857 535.2 0 857 84 941 535.2 0 941 85 1520 535.2 0 1520 86 25403 535.2 0 25403 87 46471 535.2 0 46471 88 35859 535.2 0 35859 89 174 535.2 0 174 90 70 535.2 0 70 91 43 535.2 0 43 92 63 535.2 0 63 93 68 535.2 0 68 94 48 535.2 0 48 95 75 535.2 0 75 96 77 535.2 0 77 97 61 535.2 0 61 98 74 535.2 0 74 99 89 535.2 0 89 100 82 535.2 0 82 101 77 535.2 0 77 102 76 535.2 0 76 103 98 535.2 0 98 104 136 535.2 0 136 105 121 535.2 0 121 106 60 535.2 0 60 107 46 535.2 0 46 108 74 535.2 0 74 109 72 535.2 0 72 110 63 535.2 0 63 111 75 535.2 0 75 112 84 535.2 0 84 113 59 535.2 0 59 114 60 535.2 0 60 115 71 535.2 0 71 116 65 535.2 0 65 117 62 535.2 0 62 118 57 535.2 0 57 119 75 535.2 0 75 120 67 535.2 0 67 121 59 535.2 0 59 122 74 535.2 0 74 123 234 535.2 0 234 124 452 535.2 0 452 125 1007 535.2 0 1007 126 690 535.2 0 690 127 299 535.2 0 299 128 123 535.2 0 123 129 105 535.2 0 105 130 90 535.2 0 90 131 139 535.2 0 139 132 85 535.2 0 85 133 78 535.2 0 78 134 97 535.2 0 97 135 77 535.2 0 77 136 83 535.2 0 83 137 90 535.2 0 90 138 105 535.2 0 105 139 109 535.2 0 109 140 83 535.2 0 83 141 108 535.2 0 108 142 121 535.2 0 121 143 154 535.2 0 154 144 1172 535.2 0 1172 145 1287 535.2 0 1287 146 3411 535.2 0 3411 147 240 535.2 0 240 148 76 535.2 0 76 149 77 535.2 0 77 150 75 535.2 0 75 151 104 535.2 0 104 152 77 535.2 0 77 153 100 535.2 0 100 154 71 535.2 0 71 155 74 535.2 0 74 156 82 535.2 0 82 157 79 535.2 0 79 158 91 535.2 0 91 159 83 535.2 0 83 160 70 535.2 0 70 161 79 535.2 0 79 162 63 535.2 0 63 163 73 535.2 0 73 164 80 535.2 0 80 165 57 535.2 0 57 166 463 535.2 0 463 167 213 535.2 0 213 168 221 535.2 0 221 169 90 535.2 0 90 170 100 535.2 0 100 171 73 535.2 0 73 172 147 535.2 0 147 173 89 535.2 0 89 174 93 535.2 0 93 175 103 535.2 0 103 176 90 535.2 0 90 177 78 535.2 0 78 178 87 535.2 0 87 179 86 535.2 0 86 180 104 535.2 0 104 181 114 535.2 0 114 182 150 535.2 0 150 183 116 535.2 0 116 184 145 535.2 0 145 185 1039 535.2 0 1039 186 1756 535.2 0 1756 187 2098 535.2 0 2098 188 124 535.2 0 124 189 78 535.2 0 78 190 65 535.2 0 65 191 62 535.2 0 62 192 93 535.2 0 93 193 105 535.2 0 105 194 99 535.2 0 99 195 108 535.2 0 108 196 109 535.2 0 109 197 72 535.2 0 72 198 92 535.2 0 92 199 97 535.2 0 97 200 100 535.2 0 100 201 111 535.2 0 111 202 108 535.2 0 108 203 98 535.2 0 98 204 104 535.2 0 104 205 133 535.2 0 133 206 975 535.2 0 975 207 1206 535.2 0 1206 208 1849 535.2 0 1849 209 102 535.2 0 102 210 147 535.2 0 147 211 226 535.2 0 226 212 301 535.2 0 301 213 197 535.2 0 197 214 77 535.2 0 77 215 87 535.2 0 87 216 76 535.2 0 76 217 58 535.2 0 58 218 58 535.2 0 58 219 75 535.2 0 75 220 75 535.2 0 75 221 71 535.2 0 71 222 87 535.2 0 87 223 65 535.2 0 65 224 57 535.2 0 57 225 60 535.2 0 60 226 70 535.2 0 70 227 84 535.2 0 84 228 117 535.2 0 117 229 73 535.2 0 73 230 58 535.2 0 58 231 88 535.2 0 88 232 63 535.2 0 63 233 59 535.2 0 59 234 68 535.2 0 68 235 60 535.2 0 60 236 67 535.2 0 67 237 64 535.2 0 64 238 59 535.2 0 59 239 64 535.2 0 64 240 59 535.2 0 59 241 74 535.2 0 74 242 75 535.2 0 75 243 93 535.2 0 93 244 56 535.2 0 56 245 89 535.2 0 89 246 109 535.2 0 109 247 62 535.2 0 62 248 74 535.2 0 74 249 64 535.2 0 64 250 71 535.2 0 71 251 57 535.2 0 57 252 76 535.2 0 76 253 70 535.2 0 70 254 72 535.2 0 72 255 127 535.2 0 127 256 171 535.2 0 171 257 194 535.2 0 194 258 90 535.2 0 90 259 182 535.2 0 182 260 321 535.2 0 321 261 370 535.2 0 370 262 102 535.2 0 102 263 52 535.2 0 52 264 55 535.2 0 55 265 80 535.2 0 80 266 68 535.2 0 68 267 88 535.2 0 88 268 104 535.2 0 104 269 88 535.2 0 88 270 85 535.2 0 85 271 58 535.2 0 58 272 55 535.2 0 55 273 73 535.2 0 73 274 71 535.2 0 71 275 89 535.2 0 89 276 75 535.2 0 75 277 77 535.2 0 77 278 72 535.2 0 72 279 90 535.2 0 90 280 69 535.2 0 69 281 85 535.2 0 85 282 73 535.2 0 73 283 222 535.2 0 222 284 55 535.2 0 55 285 53 535.2 0 53 286 58 535.2 0 58 287 54 535.2 0 54 288 73 535.2 0 73 289 61 535.2 0 61 290 48 535.2 0 48 291 74 535.2 0 74 292 60 535.2 0 60 293 77 535.2 0 77 294 98 535.2 0 98 295 95 535.2 0 95 296 85 535.2 0 85 297 80 535.2 0 80 298 50 535.2 0 50 299 71 535.2 0 71 300 96 535.2 0 96 301 289 535.2 0 289 Finished in 6.62 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 154,031 Reads with adapters: 4,234 (2.7%) Reads that were too short: 28 (0.0%) Reads written (passing filters): 4,206 (2.7%) Total basepairs processed: 32,400,189 bp Total written (filtered): 1,147,818 bp (3.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4234 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 3 19 90 0.0 3 0 89 1 20 2981 0.0 4 2940 41 21 16 0.0 4 4 11 0 0 1 22 1090 0.0 4 1078 12 23 4 0.0 4 1 1 0 1 1 25 2 0.0 4 0 1 0 1 42 2 0.0 4 2 48 3 0.0 4 0 0 0 0 3 66 1 0.0 4 0 0 0 0 1 73 3 0.0 4 0 0 0 0 3 74 5 0.0 4 0 0 0 0 5 80 1 0.0 4 0 1 82 1 0.0 4 0 0 0 0 1 84 1 0.0 4 1 86 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 95 9 0.0 4 0 0 0 1 8 110 1 0.0 4 0 0 0 0 1 111 1 0.0 4 1 117 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 129 3 0.0 4 0 0 0 0 3 130 1 0.0 4 0 0 0 0 1 134 1 0.0 4 1 142 1 0.0 4 1 153 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 155 2 0.0 4 0 0 0 0 2 160 2 0.0 4 1 0 0 0 1 179 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 235 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 0.15 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 4,206 Reads with adapters: 184 (4.4%) Reads written (passing filters): 4,206 (100.0%) Total basepairs processed: 1,147,818 bp Total written (filtered): 1,145,885 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 184 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.7% C: 3.3% G: 92.4% 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 5 65.7 0 5 4 2 16.4 0 2 6 1 1.0 0 1 9 45 0.0 0 0 45 10 87 0.0 1 3 84 11 37 0.0 1 1 36 12 6 0.0 1 1 5 150 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.