This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCTGG -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 138.12 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 531,609 (18.0%) Reads that were too short: 78,104 (2.6%) Reads written (passing filters): 453,505 (15.4%) Total basepairs processed: 887,907,860 bp Total written (filtered): 126,542,948 bp (14.3%) === Adapter 1 === Sequence: AGCTGG; Type: regular 5'; Length: 6; Trimmed: 531609 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3654 720.2 0 3654 7 68752 720.2 0 68752 8 3729 720.2 0 3729 9 53793 720.2 0 53793 10 7504 720.2 0 7504 11 265794 720.2 0 265794 12 431 720.2 0 431 13 83 720.2 0 83 14 60 720.2 0 60 15 70 720.2 0 70 16 53 720.2 0 53 17 35 720.2 0 35 18 48 720.2 0 48 19 64 720.2 0 64 20 68 720.2 0 68 21 47 720.2 0 47 22 61 720.2 0 61 23 67 720.2 0 67 24 61 720.2 0 61 25 58 720.2 0 58 26 86 720.2 0 86 27 69 720.2 0 69 28 153 720.2 0 153 29 177 720.2 0 177 30 84 720.2 0 84 31 61 720.2 0 61 32 71 720.2 0 71 33 57 720.2 0 57 34 70 720.2 0 70 35 54 720.2 0 54 36 55 720.2 0 55 37 75 720.2 0 75 38 72 720.2 0 72 39 93 720.2 0 93 40 131 720.2 0 131 41 101 720.2 0 101 42 68 720.2 0 68 43 56 720.2 0 56 44 83 720.2 0 83 45 72 720.2 0 72 46 62 720.2 0 62 47 62 720.2 0 62 48 100 720.2 0 100 49 203 720.2 0 203 50 82 720.2 0 82 51 52 720.2 0 52 52 64 720.2 0 64 53 64 720.2 0 64 54 88 720.2 0 88 55 76 720.2 0 76 56 87 720.2 0 87 57 76 720.2 0 76 58 56 720.2 0 56 59 67 720.2 0 67 60 65 720.2 0 65 61 79 720.2 0 79 62 61 720.2 0 61 63 60 720.2 0 60 64 77 720.2 0 77 65 65 720.2 0 65 66 49 720.2 0 49 67 78 720.2 0 78 68 56 720.2 0 56 69 75 720.2 0 75 70 198 720.2 0 198 71 161 720.2 0 161 72 78 720.2 0 78 73 57 720.2 0 57 74 49 720.2 0 49 75 69 720.2 0 69 76 88 720.2 0 88 77 67 720.2 0 67 78 106 720.2 0 106 79 446 720.2 0 446 80 211 720.2 0 211 81 278 720.2 0 278 82 136 720.2 0 136 83 1079 720.2 0 1079 84 1187 720.2 0 1187 85 338 720.2 0 338 86 83 720.2 0 83 87 56 720.2 0 56 88 59 720.2 0 59 89 95 720.2 0 95 90 81 720.2 0 81 91 54 720.2 0 54 92 58 720.2 0 58 93 58 720.2 0 58 94 63 720.2 0 63 95 66 720.2 0 66 96 88 720.2 0 88 97 170 720.2 0 170 98 584 720.2 0 584 99 167 720.2 0 167 100 185 720.2 0 185 101 176 720.2 0 176 102 113 720.2 0 113 103 111 720.2 0 111 104 76 720.2 0 76 105 99 720.2 0 99 106 135 720.2 0 135 107 128 720.2 0 128 108 127 720.2 0 127 109 125 720.2 0 125 110 136 720.2 0 136 111 177 720.2 0 177 112 371 720.2 0 371 113 2267 720.2 0 2267 114 6465 720.2 0 6465 115 3482 720.2 0 3482 116 200 720.2 0 200 117 75 720.2 0 75 118 73 720.2 0 73 119 110 720.2 0 110 120 99 720.2 0 99 121 78 720.2 0 78 122 113 720.2 0 113 123 109 720.2 0 109 124 155 720.2 0 155 125 106 720.2 0 106 126 174 720.2 0 174 127 176 720.2 0 176 128 189 720.2 0 189 129 2067 720.2 0 2067 130 3071 720.2 0 3071 131 5764 720.2 0 5764 132 177 720.2 0 177 133 178 720.2 0 178 134 343 720.2 0 343 135 110 720.2 0 110 136 106 720.2 0 106 137 322 720.2 0 322 138 177 720.2 0 177 139 161 720.2 0 161 140 155 720.2 0 155 141 206 720.2 0 206 142 120 720.2 0 120 143 260 720.2 0 260 144 190 720.2 0 190 145 102 720.2 0 102 146 131 720.2 0 131 147 82 720.2 0 82 148 91 720.2 0 91 149 85 720.2 0 85 150 102 720.2 0 102 151 103 720.2 0 103 152 116 720.2 0 116 153 116 720.2 0 116 154 500 720.2 0 500 155 2030 720.2 0 2030 156 1346 720.2 0 1346 157 757 720.2 0 757 158 772 720.2 0 772 159 53 720.2 0 53 160 70 720.2 0 70 161 56 720.2 0 56 162 60 720.2 0 60 163 111 720.2 0 111 164 74 720.2 0 74 165 55 720.2 0 55 166 71 720.2 0 71 167 339 720.2 0 339 168 132 720.2 0 132 169 136 720.2 0 136 170 55 720.2 0 55 171 167 720.2 0 167 172 66 720.2 0 66 173 48 720.2 0 48 174 53 720.2 0 53 175 40 720.2 0 40 176 53 720.2 0 53 177 57 720.2 0 57 178 85 720.2 0 85 179 57 720.2 0 57 180 56 720.2 0 56 181 35 720.2 0 35 182 42 720.2 0 42 183 46 720.2 0 46 184 69 720.2 0 69 185 56 720.2 0 56 186 72 720.2 0 72 187 58 720.2 0 58 188 54 720.2 0 54 189 77 720.2 0 77 190 141 720.2 0 141 191 122 720.2 0 122 192 90 720.2 0 90 193 51 720.2 0 51 194 55 720.2 0 55 195 60 720.2 0 60 196 90 720.2 0 90 197 100 720.2 0 100 198 77 720.2 0 77 199 62 720.2 0 62 200 445 720.2 0 445 201 85 720.2 0 85 202 313 720.2 0 313 203 85 720.2 0 85 204 90 720.2 0 90 205 70 720.2 0 70 206 56 720.2 0 56 207 51 720.2 0 51 208 54 720.2 0 54 209 58 720.2 0 58 210 76 720.2 0 76 211 173 720.2 0 173 212 266 720.2 0 266 213 305 720.2 0 305 214 89 720.2 0 89 215 89 720.2 0 89 216 99 720.2 0 99 217 72 720.2 0 72 218 71 720.2 0 71 219 48 720.2 0 48 220 57 720.2 0 57 221 85 720.2 0 85 222 62 720.2 0 62 223 57 720.2 0 57 224 89 720.2 0 89 225 77 720.2 0 77 226 61 720.2 0 61 227 76 720.2 0 76 228 238 720.2 0 238 229 369 720.2 0 369 230 474 720.2 0 474 231 180 720.2 0 180 232 231 720.2 0 231 233 246 720.2 0 246 234 149 720.2 0 149 235 116 720.2 0 116 236 166 720.2 0 166 237 160 720.2 0 160 238 97 720.2 0 97 239 73 720.2 0 73 240 84 720.2 0 84 241 65 720.2 0 65 242 85 720.2 0 85 243 81 720.2 0 81 244 109 720.2 0 109 245 78 720.2 0 78 246 124 720.2 0 124 247 234 720.2 0 234 248 937 720.2 0 937 249 177 720.2 0 177 250 84 720.2 0 84 251 88 720.2 0 88 252 54 720.2 0 54 253 85 720.2 0 85 254 139 720.2 0 139 255 157 720.2 0 157 256 171 720.2 0 171 257 316 720.2 0 316 258 191 720.2 0 191 259 112 720.2 0 112 260 66 720.2 0 66 261 84 720.2 0 84 262 68 720.2 0 68 263 101 720.2 0 101 264 90 720.2 0 90 265 169 720.2 0 169 266 71 720.2 0 71 267 73 720.2 0 73 268 165 720.2 0 165 269 395 720.2 0 395 270 520 720.2 0 520 271 309 720.2 0 309 272 151 720.2 0 151 273 140 720.2 0 140 274 175 720.2 0 175 275 84 720.2 0 84 276 125 720.2 0 125 277 108 720.2 0 108 278 93 720.2 0 93 279 88 720.2 0 88 280 105 720.2 0 105 281 207 720.2 0 207 282 187 720.2 0 187 283 231 720.2 0 231 284 270 720.2 0 270 285 334 720.2 0 334 286 162 720.2 0 162 287 151 720.2 0 151 288 269 720.2 0 269 289 205 720.2 0 205 290 199 720.2 0 199 291 261 720.2 0 261 292 304 720.2 0 304 293 358 720.2 0 358 294 869 720.2 0 869 295 1613 720.2 0 1613 296 4252 720.2 0 4252 297 2590 720.2 0 2590 298 15946 720.2 0 15946 299 30490 720.2 0 30490 300 7332 720.2 0 7332 301 195 720.2 0 195 Finished in 31.72 s (70 us/read; 0.86 M reads/minute). === Summary === Total reads processed: 453,505 Reads with adapters: 56,658 (12.5%) Reads that were too short: 103 (0.0%) Reads written (passing filters): 56,555 (12.5%) Total basepairs processed: 126,542,948 bp Total written (filtered): 15,128,803 bp (12.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 56658 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 4 0.0 3 0 0 0 1 3 18 16 0.0 3 0 0 14 1 1 19 541 0.0 3 0 477 30 26 8 20 53329 0.0 4 50766 2070 362 99 32 21 108 0.0 4 28 68 7 2 3 22 13 0.0 4 2 0 5 4 2 23 98 0.0 4 2 0 0 65 31 24 5 0.0 4 1 0 0 0 4 27 2 0.0 4 0 0 0 0 2 29 3 0.0 4 1 0 0 2 30 1 0.0 4 1 32 1 0.0 4 1 35 1 0.0 4 1 36 1 0.0 4 1 45 1 0.0 4 1 50 1 0.0 4 0 1 67 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 1 72 1 0.0 4 1 83 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 102 2 0.0 4 0 0 0 0 2 106 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 118 1 0.0 4 0 0 0 0 1 121 11 0.0 4 0 0 0 0 11 123 3 0.0 4 0 0 1 0 2 124 2 0.0 4 0 0 0 0 2 125 11 0.0 4 0 0 0 0 11 126 17 0.0 4 0 0 0 0 17 127 2313 0.0 4 0 0 0 0 2313 128 4 0.0 4 0 0 0 0 4 129 2 0.0 4 0 0 0 0 2 130 3 0.0 4 0 0 0 1 2 132 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 135 2 0.0 4 0 0 0 0 2 139 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 163 3 0.0 4 0 0 0 0 3 164 2 0.0 4 0 0 0 0 2 169 60 0.0 4 0 0 0 0 60 170 5 0.0 4 0 0 0 0 5 176 1 0.0 4 0 0 0 0 1 187 2 0.0 4 0 0 0 0 2 188 1 0.0 4 0 0 0 0 1 199 2 0.0 4 0 0 1 0 1 200 1 0.0 4 0 0 0 0 1 207 2 0.0 4 0 0 0 0 2 209 1 0.0 4 0 0 0 0 1 215 2 0.0 4 0 0 0 0 2 225 2 0.0 4 0 0 0 0 2 226 1 0.0 4 0 1 228 15 0.0 4 0 0 0 0 15 229 6 0.0 4 0 0 0 0 6 230 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 4 0.0 4 0 0 0 0 4 235 2 0.0 4 0 0 0 0 2 236 8 0.0 4 0 0 0 1 7 237 6 0.0 4 0 0 0 0 6 240 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 257 2 0.0 4 0 0 0 0 2 263 1 0.0 4 0 0 0 0 1 265 2 0.0 4 0 0 0 0 2 266 4 0.0 4 0 0 0 0 4 275 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 285 2 0.0 4 0 0 0 0 2 289 1 0.0 4 0 0 0 0 1 293 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 3.20 s (57 us/read; 1.06 M reads/minute). === Summary === Total reads processed: 56,555 Reads with adapters: 10,907 (19.3%) Reads written (passing filters): 56,555 (100.0%) Total basepairs processed: 15,128,803 bp Total written (filtered): 15,012,568 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 10907 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 6.0% G: 90.4% T: 1.9% 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 39 883.7 0 39 4 13 220.9 0 13 5 1 55.2 0 1 6 2 13.8 0 2 7 4 3.5 0 4 8 9 0.9 0 9 9 2162 0.2 0 135 2027 10 5802 0.1 1 337 5465 11 2806 0.0 1 53 2753 12 13 0.0 1 0 13 13 14 0.0 1 0 14 14 4 0.0 1 0 4 15 1 0.0 1 0 1 54 1 0.0 1 0 1 72 1 0.0 1 1 96 2 0.0 1 2 119 1 0.0 1 0 1 150 2 0.0 1 1 1 153 1 0.0 1 1 169 1 0.0 1 1 189 1 0.0 1 0 1 208 16 0.0 1 14 2 209 1 0.0 1 1 211 4 0.0 1 4 223 1 0.0 1 0 1 268 1 0.0 1 1 269 4 0.0 1 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.