This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGTAA -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 142.68 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 178,065 (6.0%) Reads that were too short: 23,910 (0.8%) Reads written (passing filters): 154,155 (5.2%) Total basepairs processed: 887,907,860 bp Total written (filtered): 40,236,104 bp (4.5%) === Adapter 1 === Sequence: AGGTAA; Type: regular 5'; Length: 6; Trimmed: 178065 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 970 720.2 0 970 7 54011 720.2 0 54011 8 1137 720.2 0 1137 9 59480 720.2 0 59480 10 135 720.2 0 135 11 59 720.2 0 59 12 66 720.2 0 66 13 67 720.2 0 67 14 65 720.2 0 65 15 53 720.2 0 53 16 54 720.2 0 54 17 42 720.2 0 42 18 43 720.2 0 43 19 41 720.2 0 41 20 51 720.2 0 51 21 41 720.2 0 41 22 65 720.2 0 65 23 47 720.2 0 47 24 73 720.2 0 73 25 62 720.2 0 62 26 74 720.2 0 74 27 58 720.2 0 58 28 60 720.2 0 60 29 92 720.2 0 92 30 66 720.2 0 66 31 338 720.2 0 338 32 233 720.2 0 233 33 252 720.2 0 252 34 62 720.2 0 62 35 42 720.2 0 42 36 58 720.2 0 58 37 81 720.2 0 81 38 44 720.2 0 44 39 56 720.2 0 56 40 51 720.2 0 51 41 56 720.2 0 56 42 60 720.2 0 60 43 42 720.2 0 42 44 69 720.2 0 69 45 48 720.2 0 48 46 68 720.2 0 68 47 54 720.2 0 54 48 53 720.2 0 53 49 57 720.2 0 57 50 172 720.2 0 172 51 77 720.2 0 77 52 53 720.2 0 53 53 52 720.2 0 52 54 48 720.2 0 48 55 53 720.2 0 53 56 68 720.2 0 68 57 54 720.2 0 54 58 52 720.2 0 52 59 62 720.2 0 62 60 57 720.2 0 57 61 61 720.2 0 61 62 74 720.2 0 74 63 48 720.2 0 48 64 70 720.2 0 70 65 80 720.2 0 80 66 89 720.2 0 89 67 147 720.2 0 147 68 753 720.2 0 753 69 1426 720.2 0 1426 70 1422 720.2 0 1422 71 62 720.2 0 62 72 50 720.2 0 50 73 37 720.2 0 37 74 51 720.2 0 51 75 115 720.2 0 115 76 85 720.2 0 85 77 53 720.2 0 53 78 59 720.2 0 59 79 177 720.2 0 177 80 114 720.2 0 114 81 154 720.2 0 154 82 70 720.2 0 70 83 59 720.2 0 59 84 59 720.2 0 59 85 54 720.2 0 54 86 47 720.2 0 47 87 62 720.2 0 62 88 86 720.2 0 86 89 67 720.2 0 67 90 43 720.2 0 43 91 84 720.2 0 84 92 59 720.2 0 59 93 63 720.2 0 63 94 78 720.2 0 78 95 73 720.2 0 73 96 91 720.2 0 91 97 78 720.2 0 78 98 118 720.2 0 118 99 130 720.2 0 130 100 100 720.2 0 100 101 73 720.2 0 73 102 66 720.2 0 66 103 84 720.2 0 84 104 53 720.2 0 53 105 69 720.2 0 69 106 51 720.2 0 51 107 82 720.2 0 82 108 62 720.2 0 62 109 106 720.2 0 106 110 72 720.2 0 72 111 89 720.2 0 89 112 84 720.2 0 84 113 277 720.2 0 277 114 66 720.2 0 66 115 69 720.2 0 69 116 334 720.2 0 334 117 260 720.2 0 260 118 164 720.2 0 164 119 105 720.2 0 105 120 120 720.2 0 120 121 116 720.2 0 116 122 137 720.2 0 137 123 104 720.2 0 104 124 107 720.2 0 107 125 95 720.2 0 95 126 106 720.2 0 106 127 114 720.2 0 114 128 87 720.2 0 87 129 107 720.2 0 107 130 144 720.2 0 144 131 204 720.2 0 204 132 172 720.2 0 172 133 633 720.2 0 633 134 3321 720.2 0 3321 135 1154 720.2 0 1154 136 444 720.2 0 444 137 214 720.2 0 214 138 92 720.2 0 92 139 109 720.2 0 109 140 79 720.2 0 79 141 109 720.2 0 109 142 89 720.2 0 89 143 139 720.2 0 139 144 124 720.2 0 124 145 113 720.2 0 113 146 96 720.2 0 96 147 154 720.2 0 154 148 80 720.2 0 80 149 71 720.2 0 71 150 162 720.2 0 162 151 311 720.2 0 311 152 173 720.2 0 173 153 256 720.2 0 256 154 174 720.2 0 174 155 170 720.2 0 170 156 322 720.2 0 322 157 313 720.2 0 313 158 112 720.2 0 112 159 146 720.2 0 146 160 122 720.2 0 122 161 74 720.2 0 74 162 88 720.2 0 88 163 91 720.2 0 91 164 146 720.2 0 146 165 241 720.2 0 241 166 167 720.2 0 167 167 216 720.2 0 216 168 200 720.2 0 200 169 254 720.2 0 254 170 87 720.2 0 87 171 78 720.2 0 78 172 75 720.2 0 75 173 73 720.2 0 73 174 107 720.2 0 107 175 235 720.2 0 235 176 418 720.2 0 418 177 441 720.2 0 441 178 494 720.2 0 494 179 276 720.2 0 276 180 386 720.2 0 386 181 659 720.2 0 659 182 836 720.2 0 836 183 453 720.2 0 453 184 190 720.2 0 190 185 157 720.2 0 157 186 97 720.2 0 97 187 144 720.2 0 144 188 116 720.2 0 116 189 77 720.2 0 77 190 114 720.2 0 114 191 106 720.2 0 106 192 99 720.2 0 99 193 132 720.2 0 132 194 229 720.2 0 229 195 518 720.2 0 518 196 763 720.2 0 763 197 688 720.2 0 688 198 235 720.2 0 235 199 146 720.2 0 146 200 1469 720.2 0 1469 201 3787 720.2 0 3787 202 3039 720.2 0 3039 203 895 720.2 0 895 204 59 720.2 0 59 205 72 720.2 0 72 206 55 720.2 0 55 207 104 720.2 0 104 208 67 720.2 0 67 209 78 720.2 0 78 210 59 720.2 0 59 211 63 720.2 0 63 212 91 720.2 0 91 213 99 720.2 0 99 214 148 720.2 0 148 215 72 720.2 0 72 216 72 720.2 0 72 217 82 720.2 0 82 218 58 720.2 0 58 219 79 720.2 0 79 220 80 720.2 0 80 221 204 720.2 0 204 222 245 720.2 0 245 223 169 720.2 0 169 224 122 720.2 0 122 225 60 720.2 0 60 226 121 720.2 0 121 227 123 720.2 0 123 228 56 720.2 0 56 229 51 720.2 0 51 230 83 720.2 0 83 231 86 720.2 0 86 232 67 720.2 0 67 233 77 720.2 0 77 234 78 720.2 0 78 235 81 720.2 0 81 236 112 720.2 0 112 237 75 720.2 0 75 238 75 720.2 0 75 239 101 720.2 0 101 240 129 720.2 0 129 241 158 720.2 0 158 242 204 720.2 0 204 243 165 720.2 0 165 244 133 720.2 0 133 245 64 720.2 0 64 246 71 720.2 0 71 247 70 720.2 0 70 248 72 720.2 0 72 249 113 720.2 0 113 250 175 720.2 0 175 251 240 720.2 0 240 252 119 720.2 0 119 253 250 720.2 0 250 254 242 720.2 0 242 255 465 720.2 0 465 256 180 720.2 0 180 257 156 720.2 0 156 258 370 720.2 0 370 259 689 720.2 0 689 260 347 720.2 0 347 261 172 720.2 0 172 262 161 720.2 0 161 263 301 720.2 0 301 264 1393 720.2 0 1393 265 1856 720.2 0 1856 266 791 720.2 0 791 267 90 720.2 0 90 268 118 720.2 0 118 269 145 720.2 0 145 270 161 720.2 0 161 271 111 720.2 0 111 272 96 720.2 0 96 273 83 720.2 0 83 274 194 720.2 0 194 275 235 720.2 0 235 276 1302 720.2 0 1302 277 1900 720.2 0 1900 278 918 720.2 0 918 279 64 720.2 0 64 280 67 720.2 0 67 281 57 720.2 0 57 282 76 720.2 0 76 283 85 720.2 0 85 284 68 720.2 0 68 285 68 720.2 0 68 286 55 720.2 0 55 287 64 720.2 0 64 288 75 720.2 0 75 289 111 720.2 0 111 290 106 720.2 0 106 291 78 720.2 0 78 292 100 720.2 0 100 293 93 720.2 0 93 294 67 720.2 0 67 295 77 720.2 0 77 296 86 720.2 0 86 297 106 720.2 0 106 298 148 720.2 0 148 299 182 720.2 0 182 300 121 720.2 0 121 301 259 720.2 0 259 Finished in 11.88 s (77 us/read; 0.78 M reads/minute). === Summary === Total reads processed: 154,155 Reads with adapters: 55,765 (36.2%) Reads that were too short: 79 (0.1%) Reads written (passing filters): 55,686 (36.1%) Total basepairs processed: 40,236,104 bp Total written (filtered): 15,040,081 bp (37.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 55765 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 15 0.0 3 0 0 6 4 5 19 233 0.0 3 0 172 33 17 11 20 53174 0.0 4 50452 2252 355 94 21 21 136 0.0 4 23 105 6 0 2 22 34 0.0 4 13 3 9 6 3 23 95 0.0 4 4 1 0 68 22 24 1 0.0 4 0 0 0 0 1 31 1 0.0 4 0 0 0 0 1 33 1 0.0 4 0 0 1 34 2 0.0 4 0 0 1 0 1 36 2 0.0 4 0 0 0 0 2 37 1 0.0 4 0 0 0 0 1 40 2 0.0 4 0 0 0 0 2 41 2 0.0 4 0 0 0 0 2 42 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 44 2 0.0 4 0 0 0 0 2 70 2 0.0 4 0 0 1 0 1 84 1 0.0 4 0 0 0 0 1 85 2 0.0 4 0 0 0 0 2 86 2 0.0 4 0 0 0 0 2 89 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 125 5 0.0 4 0 0 0 0 5 126 15 0.0 4 0 0 0 0 15 127 1958 0.0 4 0 0 0 0 1958 129 4 0.0 4 0 0 0 0 4 130 3 0.0 4 0 0 0 0 3 131 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 0 0 0 1 147 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 153 3 0.0 4 0 0 0 0 3 160 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 183 2 0.0 4 0 0 0 0 2 189 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 207 1 0.0 4 1 208 1 0.0 4 0 0 0 0 1 214 2 0.0 4 0 0 0 0 2 221 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 1 225 1 0.0 4 0 0 0 0 1 226 2 0.0 4 0 0 0 0 2 228 6 0.0 4 0 0 0 0 6 229 8 0.0 4 0 0 0 1 7 230 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 2 256 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 3 0.0 4 0 0 0 0 3 262 1 0.0 4 0 0 0 0 1 266 1 0.0 4 0 0 0 0 1 267 3 0.0 4 0 0 0 0 3 281 2 0.0 4 0 0 0 0 2 288 1 0.0 4 0 0 0 0 1 290 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 3.21 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 55,686 Reads with adapters: 5,046 (9.1%) Reads written (passing filters): 55,686 (100.0%) Total basepairs processed: 15,040,081 bp Total written (filtered): 14,976,373 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5046 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.2% C: 7.6% G: 85.8% T: 2.4% 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 3 194 870.1 0 194 4 20 217.5 0 20 6 1 13.6 0 1 8 1 0.8 0 1 9 13 0.2 0 1 12 10 64 0.1 1 3 61 11 4177 0.0 1 103 4074 12 514 0.0 1 16 498 13 4 0.0 1 0 4 14 1 0.0 1 0 1 15 7 0.0 1 0 7 74 1 0.0 1 1 152 13 0.0 1 10 3 179 1 0.0 1 0 1 210 10 0.0 1 9 1 225 23 0.0 1 19 4 228 1 0.0 1 1 257 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.