This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GACGGC -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 71.29 s (27 us/read; 2.21 M reads/minute). === Summary === Total reads processed: 2,630,299 Reads with adapters: 758,796 (28.8%) Reads that were too short: 65,167 (2.5%) Reads written (passing filters): 693,629 (26.4%) Total basepairs processed: 791,719,999 bp Total written (filtered): 178,928,386 bp (22.6%) === Adapter 1 === Sequence: GACGGC; Type: regular 5'; Length: 6; Trimmed: 758796 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 21934 642.2 0 21934 7 199702 642.2 0 199702 8 2499 642.2 0 2499 9 194968 642.2 0 194968 10 241 642.2 0 241 11 91 642.2 0 91 12 96 642.2 0 96 13 80 642.2 0 80 14 61 642.2 0 61 15 92 642.2 0 92 16 106 642.2 0 106 17 96 642.2 0 96 18 104 642.2 0 104 19 123 642.2 0 123 20 121 642.2 0 121 21 104 642.2 0 104 22 104 642.2 0 104 23 91 642.2 0 91 24 123 642.2 0 123 25 80 642.2 0 80 26 93 642.2 0 93 27 104 642.2 0 104 28 106 642.2 0 106 29 109 642.2 0 109 30 98 642.2 0 98 31 89 642.2 0 89 32 101 642.2 0 101 33 111 642.2 0 111 34 121 642.2 0 121 35 149 642.2 0 149 36 129 642.2 0 129 37 91 642.2 0 91 38 85 642.2 0 85 39 86 642.2 0 86 40 100 642.2 0 100 41 188 642.2 0 188 42 157 642.2 0 157 43 136 642.2 0 136 44 119 642.2 0 119 45 139 642.2 0 139 46 118 642.2 0 118 47 126 642.2 0 126 48 83 642.2 0 83 49 130 642.2 0 130 50 170 642.2 0 170 51 147 642.2 0 147 52 130 642.2 0 130 53 227 642.2 0 227 54 93 642.2 0 93 55 118 642.2 0 118 56 106 642.2 0 106 57 132 642.2 0 132 58 126 642.2 0 126 59 172 642.2 0 172 60 511 642.2 0 511 61 695 642.2 0 695 62 401 642.2 0 401 63 153 642.2 0 153 64 99 642.2 0 99 65 183 642.2 0 183 66 165 642.2 0 165 67 211 642.2 0 211 68 232 642.2 0 232 69 274 642.2 0 274 70 325 642.2 0 325 71 493 642.2 0 493 72 1267 642.2 0 1267 73 450 642.2 0 450 74 400 642.2 0 400 75 626 642.2 0 626 76 345 642.2 0 345 77 384 642.2 0 384 78 677 642.2 0 677 79 634 642.2 0 634 80 856 642.2 0 856 81 1061 642.2 0 1061 82 1516 642.2 0 1516 83 1735 642.2 0 1735 84 3161 642.2 0 3161 85 100080 642.2 0 100080 86 38740 642.2 0 38740 87 69090 642.2 0 69090 88 370 642.2 0 370 89 81 642.2 0 81 90 153 642.2 0 153 91 105 642.2 0 105 92 86 642.2 0 86 93 114 642.2 0 114 94 112 642.2 0 112 95 115 642.2 0 115 96 128 642.2 0 128 97 127 642.2 0 127 98 130 642.2 0 130 99 111 642.2 0 111 100 102 642.2 0 102 101 90 642.2 0 90 102 124 642.2 0 124 103 121 642.2 0 121 104 92 642.2 0 92 105 83 642.2 0 83 106 90 642.2 0 90 107 130 642.2 0 130 108 90 642.2 0 90 109 190 642.2 0 190 110 100 642.2 0 100 111 113 642.2 0 113 112 86 642.2 0 86 113 101 642.2 0 101 114 109 642.2 0 109 115 74 642.2 0 74 116 101 642.2 0 101 117 91 642.2 0 91 118 98 642.2 0 98 119 97 642.2 0 97 120 80 642.2 0 80 121 125 642.2 0 125 122 126 642.2 0 126 123 137 642.2 0 137 124 107 642.2 0 107 125 101 642.2 0 101 126 100 642.2 0 100 127 88 642.2 0 88 128 130 642.2 0 130 129 131 642.2 0 131 130 228 642.2 0 228 131 185 642.2 0 185 132 155 642.2 0 155 133 146 642.2 0 146 134 103 642.2 0 103 135 134 642.2 0 134 136 149 642.2 0 149 137 128 642.2 0 128 138 137 642.2 0 137 139 132 642.2 0 132 140 107 642.2 0 107 141 123 642.2 0 123 142 134 642.2 0 134 143 116 642.2 0 116 144 158 642.2 0 158 145 109 642.2 0 109 146 117 642.2 0 117 147 119 642.2 0 119 148 125 642.2 0 125 149 316 642.2 0 316 150 260 642.2 0 260 151 395 642.2 0 395 152 413 642.2 0 413 153 1413 642.2 0 1413 154 1530 642.2 0 1530 155 294 642.2 0 294 156 165 642.2 0 165 157 144 642.2 0 144 158 123 642.2 0 123 159 85 642.2 0 85 160 134 642.2 0 134 161 155 642.2 0 155 162 231 642.2 0 231 163 131 642.2 0 131 164 174 642.2 0 174 165 220 642.2 0 220 166 109 642.2 0 109 167 118 642.2 0 118 168 212 642.2 0 212 169 161 642.2 0 161 170 195 642.2 0 195 171 229 642.2 0 229 172 287 642.2 0 287 173 301 642.2 0 301 174 550 642.2 0 550 175 6963 642.2 0 6963 176 10672 642.2 0 10672 177 6428 642.2 0 6428 178 151 642.2 0 151 179 113 642.2 0 113 180 122 642.2 0 122 181 183 642.2 0 183 182 145 642.2 0 145 183 140 642.2 0 140 184 178 642.2 0 178 185 215 642.2 0 215 186 149 642.2 0 149 187 138 642.2 0 138 188 105 642.2 0 105 189 964 642.2 0 964 190 118 642.2 0 118 191 174 642.2 0 174 192 85 642.2 0 85 193 94 642.2 0 94 194 110 642.2 0 110 195 107 642.2 0 107 196 137 642.2 0 137 197 143 642.2 0 143 198 109 642.2 0 109 199 112 642.2 0 112 200 112 642.2 0 112 201 104 642.2 0 104 202 81 642.2 0 81 203 104 642.2 0 104 204 131 642.2 0 131 205 168 642.2 0 168 206 198 642.2 0 198 207 183 642.2 0 183 208 556 642.2 0 556 209 262 642.2 0 262 210 380 642.2 0 380 211 699 642.2 0 699 212 627 642.2 0 627 213 8390 642.2 0 8390 214 32221 642.2 0 32221 215 9864 642.2 0 9864 216 123 642.2 0 123 217 158 642.2 0 158 218 191 642.2 0 191 219 115 642.2 0 115 220 111 642.2 0 111 221 130 642.2 0 130 222 144 642.2 0 144 223 64 642.2 0 64 224 92 642.2 0 92 225 90 642.2 0 90 226 82 642.2 0 82 227 91 642.2 0 91 228 134 642.2 0 134 229 106 642.2 0 106 230 133 642.2 0 133 231 316 642.2 0 316 232 200 642.2 0 200 233 186 642.2 0 186 234 97 642.2 0 97 235 84 642.2 0 84 236 110 642.2 0 110 237 112 642.2 0 112 238 88 642.2 0 88 239 83 642.2 0 83 240 121 642.2 0 121 241 108 642.2 0 108 242 102 642.2 0 102 243 116 642.2 0 116 244 325 642.2 0 325 245 110 642.2 0 110 246 124 642.2 0 124 247 117 642.2 0 117 248 107 642.2 0 107 249 133 642.2 0 133 250 131 642.2 0 131 251 109 642.2 0 109 252 105 642.2 0 105 253 304 642.2 0 304 254 354 642.2 0 354 255 266 642.2 0 266 256 141 642.2 0 141 257 198 642.2 0 198 258 142 642.2 0 142 259 112 642.2 0 112 260 71 642.2 0 71 261 110 642.2 0 110 262 67 642.2 0 67 263 59 642.2 0 59 264 69 642.2 0 69 265 131 642.2 0 131 266 78 642.2 0 78 267 76 642.2 0 76 268 105 642.2 0 105 269 71 642.2 0 71 270 92 642.2 0 92 271 89 642.2 0 89 272 84 642.2 0 84 273 70 642.2 0 70 274 114 642.2 0 114 275 83 642.2 0 83 276 114 642.2 0 114 277 70 642.2 0 70 278 124 642.2 0 124 279 120 642.2 0 120 280 105 642.2 0 105 281 116 642.2 0 116 282 90 642.2 0 90 283 94 642.2 0 94 284 89 642.2 0 89 285 185 642.2 0 185 286 228 642.2 0 228 287 240 642.2 0 240 288 109 642.2 0 109 289 88 642.2 0 88 290 145 642.2 0 145 291 104 642.2 0 104 292 79 642.2 0 79 293 139 642.2 0 139 294 128 642.2 0 128 295 113 642.2 0 113 296 164 642.2 0 164 297 206 642.2 0 206 298 312 642.2 0 312 299 182 642.2 0 182 300 193 642.2 0 193 301 132 642.2 0 132 Finished in 30.72 s (44 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 693,629 Reads with adapters: 219,309 (31.6%) Reads that were too short: 106 (0.0%) Reads written (passing filters): 219,203 (31.6%) Total basepairs processed: 178,928,386 bp Total written (filtered): 59,988,008 bp (33.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 219309 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 21 0.0 3 0 0 19 2 19 714 0.0 3 0 696 13 3 2 20 217076 0.0 4 213811 3154 95 14 2 21 422 0.0 4 53 366 3 22 30 0.0 4 7 1 22 23 104 0.0 4 4 0 3 90 7 24 9 0.0 4 3 0 0 0 6 25 2 0.0 4 1 1 27 1 0.0 4 1 28 1 0.0 4 1 32 1 0.0 4 1 33 2 0.0 4 1 0 0 1 36 1 0.0 4 1 39 1 0.0 4 1 40 2 0.0 4 1 0 0 0 1 41 2 0.0 4 1 0 0 0 1 43 1 0.0 4 0 0 0 0 1 49 38 0.0 4 0 0 0 0 38 56 1 0.0 4 0 0 0 0 1 57 6 0.0 4 0 0 0 0 6 60 1 0.0 4 1 68 1 0.0 4 1 72 1 0.0 4 1 78 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 91 5 0.0 4 0 0 0 1 4 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 1 96 1 0.0 4 0 0 0 0 1 100 3 0.0 4 0 0 0 0 3 114 1 0.0 4 0 0 0 0 1 115 2 0.0 4 0 0 0 0 2 124 1 0.0 4 0 0 0 0 1 126 10 0.0 4 0 0 0 0 10 127 743 0.0 4 0 0 0 0 743 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 2 0.0 4 0 0 0 0 2 137 3 0.0 4 0 0 0 0 3 139 1 0.0 4 0 0 0 0 1 150 8 0.0 4 0 0 0 0 8 151 4 0.0 4 0 0 0 0 4 152 1 0.0 4 0 0 0 0 1 153 6 0.0 4 0 0 0 0 6 158 1 0.0 4 0 0 0 1 166 1 0.0 4 0 0 1 176 2 0.0 4 0 0 0 0 2 181 1 0.0 4 0 0 0 1 184 6 0.0 4 0 0 0 0 6 185 3 0.0 4 0 0 0 0 3 186 2 0.0 4 0 0 0 0 2 187 1 0.0 4 0 0 0 1 188 2 0.0 4 1 0 0 0 1 193 1 0.0 4 1 205 1 0.0 4 0 0 1 207 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 213 2 0.0 4 0 0 0 0 2 214 2 0.0 4 1 0 0 0 1 215 2 0.0 4 0 0 0 0 2 216 3 0.0 4 0 0 0 0 3 227 1 0.0 4 0 0 0 0 1 228 2 0.0 4 1 0 0 0 1 229 2 0.0 4 0 0 0 0 2 230 2 0.0 4 0 0 0 1 1 232 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 237 4 0.0 4 0 0 0 1 3 242 1 0.0 4 1 249 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 258 3 0.0 4 0 0 0 0 3 262 8 0.0 4 0 0 0 0 8 263 2 0.0 4 0 0 0 1 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 274 2 0.0 4 0 0 0 1 1 281 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 288 1 0.0 4 0 0 0 0 1 292 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 7.59 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 219,203 Reads with adapters: 3,475 (1.6%) Reads written (passing filters): 219,203 (100.0%) Total basepairs processed: 59,988,008 bp Total written (filtered): 59,943,846 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3475 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 10.2% C: 6.4% G: 80.7% T: 2.6% 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 3 362 3425.0 0 362 4 57 856.3 0 57 5 10 214.1 0 10 6 3 53.5 0 3 7 1 13.4 0 1 8 1 3.3 0 1 9 29 0.8 0 7 22 10 68 0.2 1 4 64 11 2242 0.1 1 27 2215 12 486 0.0 1 21 465 13 117 0.0 1 39 78 14 20 0.0 1 14 6 15 12 0.0 1 1 11 16 1 0.0 1 1 19 1 0.0 1 1 20 7 0.0 1 7 21 1 0.0 1 0 1 23 2 0.0 1 2 24 2 0.0 1 2 26 1 0.0 1 1 40 2 0.0 1 0 2 60 1 0.0 1 1 71 1 0.0 1 1 76 1 0.0 1 1 84 1 0.0 1 1 85 1 0.0 1 0 1 97 1 0.0 1 1 109 1 0.0 1 0 1 111 2 0.0 1 2 112 2 0.0 1 2 114 2 0.0 1 2 132 3 0.0 1 3 144 2 0.0 1 2 152 2 0.0 1 0 2 153 1 0.0 1 0 1 157 1 0.0 1 1 162 1 0.0 1 1 191 1 0.0 1 0 1 210 12 0.0 1 5 7 211 1 0.0 1 1 230 1 0.0 1 1 257 11 0.0 1 11 258 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.