This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -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 64.50 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 345,202 (14.1%) Reads that were too short: 7,929 (0.3%) Reads written (passing filters): 337,273 (13.8%) Total basepairs processed: 735,190,694 bp Total written (filtered): 75,604,765 bp (10.3%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 345202 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 172 596.3 0 172 7 11979 596.3 0 11979 8 9926 596.3 0 9926 9 20 596.3 0 20 10 46 596.3 0 46 11 11 596.3 0 11 12 13 596.3 0 13 13 14 596.3 0 14 14 8 596.3 0 8 15 6 596.3 0 6 16 10 596.3 0 10 17 5 596.3 0 5 18 12 596.3 0 12 19 21 596.3 0 21 20 18 596.3 0 18 21 45 596.3 0 45 22 35 596.3 0 35 23 24 596.3 0 24 24 5 596.3 0 5 25 6 596.3 0 6 26 13 596.3 0 13 27 28 596.3 0 28 28 11 596.3 0 11 29 20 596.3 0 20 30 18 596.3 0 18 31 16 596.3 0 16 32 12 596.3 0 12 33 34 596.3 0 34 34 17 596.3 0 17 35 57 596.3 0 57 36 16 596.3 0 16 37 10 596.3 0 10 38 10 596.3 0 10 39 32 596.3 0 32 40 35 596.3 0 35 41 26 596.3 0 26 42 108 596.3 0 108 43 67 596.3 0 67 44 77 596.3 0 77 45 60 596.3 0 60 46 57 596.3 0 57 47 46 596.3 0 46 48 28 596.3 0 28 49 137 596.3 0 137 50 38 596.3 0 38 51 88 596.3 0 88 52 781 596.3 0 781 53 97 596.3 0 97 54 94 596.3 0 94 55 206 596.3 0 206 56 19 596.3 0 19 57 25 596.3 0 25 58 17 596.3 0 17 59 102 596.3 0 102 60 78 596.3 0 78 61 299 596.3 0 299 62 980 596.3 0 980 63 131 596.3 0 131 64 315 596.3 0 315 65 400 596.3 0 400 66 890 596.3 0 890 67 1683 596.3 0 1683 68 279 596.3 0 279 69 331 596.3 0 331 70 116 596.3 0 116 71 191 596.3 0 191 72 451 596.3 0 451 73 536 596.3 0 536 74 860 596.3 0 860 75 1365 596.3 0 1365 76 1506 596.3 0 1506 77 3143 596.3 0 3143 78 7356 596.3 0 7356 79 117535 596.3 0 117535 80 48857 596.3 0 48857 81 113115 596.3 0 113115 82 613 596.3 0 613 83 219 596.3 0 219 84 38 596.3 0 38 85 23 596.3 0 23 86 13 596.3 0 13 87 27 596.3 0 27 88 25 596.3 0 25 89 14 596.3 0 14 90 16 596.3 0 16 91 11 596.3 0 11 92 29 596.3 0 29 93 20 596.3 0 20 94 8 596.3 0 8 95 11 596.3 0 11 96 12 596.3 0 12 97 19 596.3 0 19 98 17 596.3 0 17 99 12 596.3 0 12 100 18 596.3 0 18 101 22 596.3 0 22 102 17 596.3 0 17 103 23 596.3 0 23 104 15 596.3 0 15 105 13 596.3 0 13 106 15 596.3 0 15 107 11 596.3 0 11 108 12 596.3 0 12 109 12 596.3 0 12 110 26 596.3 0 26 111 24 596.3 0 24 112 15 596.3 0 15 113 22 596.3 0 22 114 25 596.3 0 25 115 27 596.3 0 27 116 155 596.3 0 155 117 269 596.3 0 269 118 487 596.3 0 487 119 88 596.3 0 88 120 49 596.3 0 49 121 45 596.3 0 45 122 47 596.3 0 47 123 44 596.3 0 44 124 69 596.3 0 69 125 86 596.3 0 86 126 107 596.3 0 107 127 44 596.3 0 44 128 32 596.3 0 32 129 32 596.3 0 32 130 112 596.3 0 112 131 204 596.3 0 204 132 269 596.3 0 269 133 47 596.3 0 47 134 35 596.3 0 35 135 42 596.3 0 42 136 54 596.3 0 54 137 60 596.3 0 60 138 48 596.3 0 48 139 59 596.3 0 59 140 209 596.3 0 209 141 515 596.3 0 515 142 119 596.3 0 119 143 67 596.3 0 67 144 51 596.3 0 51 145 62 596.3 0 62 146 69 596.3 0 69 147 87 596.3 0 87 148 86 596.3 0 86 149 160 596.3 0 160 150 1696 596.3 0 1696 151 1277 596.3 0 1277 152 1051 596.3 0 1051 153 44 596.3 0 44 154 32 596.3 0 32 155 37 596.3 0 37 156 28 596.3 0 28 157 34 596.3 0 34 158 59 596.3 0 59 159 21 596.3 0 21 160 25 596.3 0 25 161 36 596.3 0 36 162 31 596.3 0 31 163 30 596.3 0 30 164 21 596.3 0 21 165 40 596.3 0 40 166 28 596.3 0 28 167 52 596.3 0 52 168 57 596.3 0 57 169 61 596.3 0 61 170 106 596.3 0 106 171 228 596.3 0 228 172 269 596.3 0 269 173 94 596.3 0 94 174 69 596.3 0 69 175 30 596.3 0 30 176 19 596.3 0 19 177 25 596.3 0 25 178 33 596.3 0 33 179 27 596.3 0 27 180 21 596.3 0 21 181 35 596.3 0 35 182 36 596.3 0 36 183 33 596.3 0 33 184 48 596.3 0 48 185 91 596.3 0 91 186 147 596.3 0 147 187 114 596.3 0 114 188 71 596.3 0 71 189 142 596.3 0 142 190 33 596.3 0 33 191 24 596.3 0 24 192 28 596.3 0 28 193 23 596.3 0 23 194 36 596.3 0 36 195 29 596.3 0 29 196 36 596.3 0 36 197 47 596.3 0 47 198 46 596.3 0 46 199 57 596.3 0 57 200 59 596.3 0 59 201 29 596.3 0 29 202 32 596.3 0 32 203 51 596.3 0 51 204 25 596.3 0 25 205 33 596.3 0 33 206 37 596.3 0 37 207 34 596.3 0 34 208 41 596.3 0 41 209 80 596.3 0 80 210 57 596.3 0 57 211 34 596.3 0 34 212 38 596.3 0 38 213 38 596.3 0 38 214 41 596.3 0 41 215 47 596.3 0 47 216 58 596.3 0 58 217 72 596.3 0 72 218 526 596.3 0 526 219 233 596.3 0 233 220 49 596.3 0 49 221 44 596.3 0 44 222 75 596.3 0 75 223 72 596.3 0 72 224 73 596.3 0 73 225 196 596.3 0 196 226 593 596.3 0 593 227 470 596.3 0 470 228 269 596.3 0 269 229 78 596.3 0 78 230 58 596.3 0 58 231 33 596.3 0 33 232 25 596.3 0 25 233 28 596.3 0 28 234 38 596.3 0 38 235 35 596.3 0 35 236 29 596.3 0 29 237 30 596.3 0 30 238 39 596.3 0 39 239 55 596.3 0 55 240 50 596.3 0 50 241 56 596.3 0 56 242 35 596.3 0 35 243 42 596.3 0 42 244 28 596.3 0 28 245 34 596.3 0 34 246 26 596.3 0 26 247 43 596.3 0 43 248 53 596.3 0 53 249 64 596.3 0 64 250 37 596.3 0 37 251 55 596.3 0 55 252 52 596.3 0 52 253 52 596.3 0 52 254 36 596.3 0 36 255 33 596.3 0 33 256 51 596.3 0 51 257 55 596.3 0 55 258 40 596.3 0 40 259 41 596.3 0 41 260 41 596.3 0 41 261 44 596.3 0 44 262 41 596.3 0 41 263 49 596.3 0 49 264 43 596.3 0 43 265 47 596.3 0 47 266 60 596.3 0 60 267 39 596.3 0 39 268 38 596.3 0 38 269 33 596.3 0 33 270 34 596.3 0 34 271 25 596.3 0 25 272 51 596.3 0 51 273 55 596.3 0 55 274 208 596.3 0 208 275 283 596.3 0 283 276 215 596.3 0 215 277 189 596.3 0 189 278 36 596.3 0 36 279 64 596.3 0 64 280 59 596.3 0 59 281 98 596.3 0 98 282 49 596.3 0 49 283 91 596.3 0 91 284 83 596.3 0 83 285 230 596.3 0 230 286 51 596.3 0 51 287 89 596.3 0 89 288 52 596.3 0 52 289 64 596.3 0 64 290 77 596.3 0 77 291 84 596.3 0 84 292 101 596.3 0 101 293 75 596.3 0 75 294 57 596.3 0 57 295 41 596.3 0 41 296 49 596.3 0 49 297 59 596.3 0 59 298 64 596.3 0 64 299 73 596.3 0 73 300 78 596.3 0 78 301 61 596.3 0 61 Finished in 14.07 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 337,273 Reads with adapters: 13,034 (3.9%) Reads that were too short: 21 (0.0%) Reads written (passing filters): 13,013 (3.9%) Total basepairs processed: 75,604,765 bp Total written (filtered): 3,539,575 bp (4.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 13034 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 5 0.0 3 0 0 5 19 138 0.0 3 0 134 4 20 9915 0.0 4 9727 178 9 1 21 62 0.0 4 13 46 1 2 22 2775 0.0 4 2719 51 4 1 23 13 0.0 4 2 5 0 6 24 2 0.0 4 0 0 1 0 1 25 4 0.0 4 0 0 0 4 26 1 0.0 4 0 1 27 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 1 95 3 0.0 4 0 0 0 0 3 101 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 113 1 0.0 4 1 117 2 0.0 4 0 0 0 0 2 124 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 89 0.0 4 0 0 0 0 89 131 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 1 141 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 1 151 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 158 1 0.0 4 1 165 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 1 228 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 275 1 0.0 4 0 0 0 0 1 282 1 0.0 4 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 0.46 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 13,013 Reads with adapters: 1,250 (9.6%) Reads written (passing filters): 13,013 (100.0%) Total basepairs processed: 3,539,575 bp Total written (filtered): 3,524,677 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1250 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.0% C: 4.0% G: 87.4% 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 14 203.3 0 14 4 5 50.8 0 5 9 108 0.0 0 1 107 10 261 0.0 1 4 257 11 782 0.0 1 8 774 12 1 0.0 1 0 1 13 1 0.0 1 0 1 15 1 0.0 1 0 1 19 68 0.0 1 53 15 20 1 0.0 1 1 22 1 0.0 1 1 23 1 0.0 1 1 81 1 0.0 1 1 208 1 0.0 1 1 209 1 0.0 1 0 1 223 1 0.0 1 1 267 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.