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 174.65 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 371,635 (10.2%) Reads that were too short: 28,504 (0.8%) Reads written (passing filters): 343,131 (9.4%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 82,607,761 bp (7.6%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 371635 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 6574 887.3 0 6574 7 60276 887.3 0 60276 8 1961 887.3 0 1961 9 66521 887.3 0 66521 10 127 887.3 0 127 11 99 887.3 0 99 12 104 887.3 0 104 13 86 887.3 0 86 14 77 887.3 0 77 15 97 887.3 0 97 16 94 887.3 0 94 17 106 887.3 0 106 18 101 887.3 0 101 19 99 887.3 0 99 20 127 887.3 0 127 21 123 887.3 0 123 22 80 887.3 0 80 23 90 887.3 0 90 24 94 887.3 0 94 25 79 887.3 0 79 26 59 887.3 0 59 27 87 887.3 0 87 28 83 887.3 0 83 29 68 887.3 0 68 30 84 887.3 0 84 31 75 887.3 0 75 32 78 887.3 0 78 33 82 887.3 0 82 34 71 887.3 0 71 35 107 887.3 0 107 36 119 887.3 0 119 37 100 887.3 0 100 38 67 887.3 0 67 39 87 887.3 0 87 40 112 887.3 0 112 41 99 887.3 0 99 42 153 887.3 0 153 43 131 887.3 0 131 44 89 887.3 0 89 45 103 887.3 0 103 46 115 887.3 0 115 47 86 887.3 0 86 48 78 887.3 0 78 49 90 887.3 0 90 50 52 887.3 0 52 51 83 887.3 0 83 52 76 887.3 0 76 53 172 887.3 0 172 54 130 887.3 0 130 55 140 887.3 0 140 56 174 887.3 0 174 57 125 887.3 0 125 58 63 887.3 0 63 59 77 887.3 0 77 60 100 887.3 0 100 61 100 887.3 0 100 62 212 887.3 0 212 63 140 887.3 0 140 64 108 887.3 0 108 65 79 887.3 0 79 66 139 887.3 0 139 67 68 887.3 0 68 68 100 887.3 0 100 69 155 887.3 0 155 70 159 887.3 0 159 71 160 887.3 0 160 72 261 887.3 0 261 73 706 887.3 0 706 74 324 887.3 0 324 75 267 887.3 0 267 76 417 887.3 0 417 77 270 887.3 0 270 78 326 887.3 0 326 79 496 887.3 0 496 80 660 887.3 0 660 81 763 887.3 0 763 82 841 887.3 0 841 83 1498 887.3 0 1498 84 1661 887.3 0 1661 85 2923 887.3 0 2923 86 58716 887.3 0 58716 87 76727 887.3 0 76727 88 23636 887.3 0 23636 89 144 887.3 0 144 90 85 887.3 0 85 91 73 887.3 0 73 92 58 887.3 0 58 93 61 887.3 0 61 94 66 887.3 0 66 95 73 887.3 0 73 96 92 887.3 0 92 97 74 887.3 0 74 98 66 887.3 0 66 99 53 887.3 0 53 100 68 887.3 0 68 101 63 887.3 0 63 102 75 887.3 0 75 103 197 887.3 0 197 104 120 887.3 0 120 105 126 887.3 0 126 106 44 887.3 0 44 107 56 887.3 0 56 108 70 887.3 0 70 109 52 887.3 0 52 110 73 887.3 0 73 111 70 887.3 0 70 112 56 887.3 0 56 113 55 887.3 0 55 114 74 887.3 0 74 115 79 887.3 0 79 116 68 887.3 0 68 117 75 887.3 0 75 118 63 887.3 0 63 119 81 887.3 0 81 120 100 887.3 0 100 121 75 887.3 0 75 122 112 887.3 0 112 123 348 887.3 0 348 124 909 887.3 0 909 125 997 887.3 0 997 126 581 887.3 0 581 127 207 887.3 0 207 128 93 887.3 0 93 129 115 887.3 0 115 130 130 887.3 0 130 131 158 887.3 0 158 132 114 887.3 0 114 133 101 887.3 0 101 134 137 887.3 0 137 135 121 887.3 0 121 136 113 887.3 0 113 137 129 887.3 0 129 138 289 887.3 0 289 139 137 887.3 0 137 140 147 887.3 0 147 141 279 887.3 0 279 142 343 887.3 0 343 143 399 887.3 0 399 144 4901 887.3 0 4901 145 4784 887.3 0 4784 146 2070 887.3 0 2070 147 502 887.3 0 502 148 105 887.3 0 105 149 212 887.3 0 212 150 216 887.3 0 216 151 158 887.3 0 158 152 79 887.3 0 79 153 93 887.3 0 93 154 102 887.3 0 102 155 103 887.3 0 103 156 101 887.3 0 101 157 70 887.3 0 70 158 84 887.3 0 84 159 80 887.3 0 80 160 78 887.3 0 78 161 88 887.3 0 88 162 85 887.3 0 85 163 88 887.3 0 88 164 94 887.3 0 94 165 113 887.3 0 113 166 462 887.3 0 462 167 1168 887.3 0 1168 168 779 887.3 0 779 169 87 887.3 0 87 170 91 887.3 0 91 171 132 887.3 0 132 172 160 887.3 0 160 173 82 887.3 0 82 174 86 887.3 0 86 175 107 887.3 0 107 176 89 887.3 0 89 177 85 887.3 0 85 178 77 887.3 0 77 179 78 887.3 0 78 180 99 887.3 0 99 181 116 887.3 0 116 182 119 887.3 0 119 183 102 887.3 0 102 184 127 887.3 0 127 185 582 887.3 0 582 186 711 887.3 0 711 187 1083 887.3 0 1083 188 192 887.3 0 192 189 86 887.3 0 86 190 71 887.3 0 71 191 97 887.3 0 97 192 107 887.3 0 107 193 180 887.3 0 180 194 147 887.3 0 147 195 171 887.3 0 171 196 116 887.3 0 116 197 94 887.3 0 94 198 100 887.3 0 100 199 113 887.3 0 113 200 119 887.3 0 119 201 124 887.3 0 124 202 128 887.3 0 128 203 151 887.3 0 151 204 185 887.3 0 185 205 223 887.3 0 223 206 3533 887.3 0 3533 207 4377 887.3 0 4377 208 2182 887.3 0 2182 209 127 887.3 0 127 210 121 887.3 0 121 211 480 887.3 0 480 212 909 887.3 0 909 213 585 887.3 0 585 214 104 887.3 0 104 215 67 887.3 0 67 216 71 887.3 0 71 217 63 887.3 0 63 218 60 887.3 0 60 219 82 887.3 0 82 220 120 887.3 0 120 221 91 887.3 0 91 222 83 887.3 0 83 223 72 887.3 0 72 224 107 887.3 0 107 225 98 887.3 0 98 226 140 887.3 0 140 227 163 887.3 0 163 228 107 887.3 0 107 229 93 887.3 0 93 230 59 887.3 0 59 231 92 887.3 0 92 232 86 887.3 0 86 233 82 887.3 0 82 234 67 887.3 0 67 235 73 887.3 0 73 236 71 887.3 0 71 237 76 887.3 0 76 238 92 887.3 0 92 239 108 887.3 0 108 240 106 887.3 0 106 241 207 887.3 0 207 242 196 887.3 0 196 243 213 887.3 0 213 244 132 887.3 0 132 245 173 887.3 0 173 246 222 887.3 0 222 247 91 887.3 0 91 248 101 887.3 0 101 249 70 887.3 0 70 250 87 887.3 0 87 251 125 887.3 0 125 252 81 887.3 0 81 253 74 887.3 0 74 254 69 887.3 0 69 255 170 887.3 0 170 256 163 887.3 0 163 257 175 887.3 0 175 258 240 887.3 0 240 259 1701 887.3 0 1701 260 1885 887.3 0 1885 261 1528 887.3 0 1528 262 249 887.3 0 249 263 83 887.3 0 83 264 103 887.3 0 103 265 88 887.3 0 88 266 121 887.3 0 121 267 208 887.3 0 208 268 203 887.3 0 203 269 162 887.3 0 162 270 82 887.3 0 82 271 58 887.3 0 58 272 81 887.3 0 81 273 88 887.3 0 88 274 125 887.3 0 125 275 162 887.3 0 162 276 250 887.3 0 250 277 120 887.3 0 120 278 76 887.3 0 76 279 129 887.3 0 129 280 130 887.3 0 130 281 208 887.3 0 208 282 225 887.3 0 225 283 111 887.3 0 111 284 75 887.3 0 75 285 55 887.3 0 55 286 64 887.3 0 64 287 61 887.3 0 61 288 80 887.3 0 80 289 83 887.3 0 83 290 71 887.3 0 71 291 78 887.3 0 78 292 55 887.3 0 55 293 94 887.3 0 94 294 173 887.3 0 173 295 157 887.3 0 157 296 109 887.3 0 109 297 89 887.3 0 89 298 113 887.3 0 113 299 106 887.3 0 106 300 161 887.3 0 161 301 681 887.3 0 681 Finished in 24.49 s (71 us/read; 0.84 M reads/minute). === Summary === Total reads processed: 343,131 Reads with adapters: 65,943 (19.2%) Reads that were too short: 110 (0.0%) Reads written (passing filters): 65,833 (19.2%) Total basepairs processed: 82,607,761 bp Total written (filtered): 17,838,905 bp (21.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 65943 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 6 0.0 3 0 0 0 5 1 18 61 0.0 3 0 0 56 3 2 19 1547 0.0 3 0 1437 74 27 9 20 61067 0.0 4 58563 2147 284 49 24 21 130 0.0 4 19 100 6 4 1 22 1054 0.0 4 988 41 16 5 4 23 113 0.0 4 0 2 0 91 20 24 1 0.0 4 1 25 3 0.0 4 1 0 0 1 1 29 2 0.0 4 1 0 0 0 1 30 2 0.0 4 0 0 0 0 2 33 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 45 2 0.0 4 1 0 0 0 1 46 1 0.0 4 0 0 0 0 1 48 62 0.0 4 0 0 0 0 62 50 3 0.0 4 0 0 0 0 3 63 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 73 3 0.0 4 0 0 0 0 3 74 27 0.0 4 0 0 0 1 26 86 3 0.0 4 0 0 0 0 3 87 1 0.0 4 0 0 0 1 88 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 3 0.0 4 0 0 0 0 3 98 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 110 1 0.0 4 1 124 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 17 0.0 4 0 0 0 0 17 127 1697 0.0 4 0 0 0 0 1697 128 10 0.0 4 0 0 0 0 10 129 15 0.0 4 0 0 0 0 15 130 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 12 0.0 4 0 0 0 1 11 150 2 0.0 4 0 0 0 0 2 153 4 0.0 4 0 0 0 0 4 154 6 0.0 4 0 0 0 0 6 155 6 0.0 4 1 0 0 0 5 156 5 0.0 4 0 0 0 0 5 158 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 178 2 0.0 4 0 0 0 0 2 179 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 185 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 203 3 0.0 4 0 0 0 0 3 204 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 206 2 0.0 4 0 0 0 0 2 207 1 0.0 4 0 0 0 0 1 208 2 0.0 4 0 0 0 0 2 209 2 0.0 4 0 0 0 0 2 214 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 228 10 0.0 4 0 0 0 0 10 229 4 0.0 4 0 0 0 0 4 231 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 1 237 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 1 275 2 0.0 4 0 0 0 0 2 282 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 288 3 0.0 4 0 0 0 0 3 290 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 3.78 s (57 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 65,833 Reads with adapters: 3,236 (4.9%) Reads written (passing filters): 65,833 (100.0%) Total basepairs processed: 17,838,905 bp Total written (filtered): 17,800,822 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3236 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.8% C: 8.7% G: 82.3% T: 2.2% 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 3 253 1028.6 0 253 4 41 257.2 0 41 5 3 64.3 0 3 9 92 0.3 0 6 86 10 183 0.1 1 14 169 11 2092 0.0 1 42 2050 12 518 0.0 1 13 505 13 18 0.0 1 0 18 14 2 0.0 1 0 2 15 5 0.0 1 0 5 16 3 0.0 1 0 3 57 1 0.0 1 1 140 1 0.0 1 1 152 4 0.0 1 3 1 153 1 0.0 1 0 1 191 12 0.0 1 10 2 210 2 0.0 1 1 1 211 1 0.0 1 1 223 1 0.0 1 1 224 1 0.0 1 1 273 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.