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 174.18 s (50 us/read; 1.20 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 626,458 (18.1%) Reads that were too short: 11,953 (0.3%) Reads written (passing filters): 614,505 (17.7%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 147,166,162 bp (14.1%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 626458 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1259 847.3 0 1259 7 83462 847.3 0 83462 8 82725 847.3 0 82725 9 82 847.3 0 82 10 85 847.3 0 85 11 41 847.3 0 41 12 39 847.3 0 39 13 30 847.3 0 30 14 8 847.3 0 8 15 15 847.3 0 15 16 9 847.3 0 9 17 5 847.3 0 5 18 13 847.3 0 13 19 14 847.3 0 14 20 13 847.3 0 13 21 44 847.3 0 44 22 24 847.3 0 24 23 13 847.3 0 13 24 11 847.3 0 11 25 20 847.3 0 20 26 18 847.3 0 18 27 63 847.3 0 63 28 25 847.3 0 25 29 46 847.3 0 46 30 28 847.3 0 28 31 13 847.3 0 13 32 12 847.3 0 12 33 14 847.3 0 14 34 22 847.3 0 22 35 28 847.3 0 28 36 41 847.3 0 41 37 14 847.3 0 14 38 10 847.3 0 10 39 39 847.3 0 39 40 27 847.3 0 27 41 33 847.3 0 33 42 127 847.3 0 127 43 104 847.3 0 104 44 117 847.3 0 117 45 171 847.3 0 171 46 221 847.3 0 221 47 110 847.3 0 110 48 79 847.3 0 79 49 259 847.3 0 259 50 69 847.3 0 69 51 148 847.3 0 148 52 1213 847.3 0 1213 53 235 847.3 0 235 54 60 847.3 0 60 55 83 847.3 0 83 56 47 847.3 0 47 57 30 847.3 0 30 58 49 847.3 0 49 59 389 847.3 0 389 60 247 847.3 0 247 61 609 847.3 0 609 62 1431 847.3 0 1431 63 220 847.3 0 220 64 437 847.3 0 437 65 793 847.3 0 793 66 1173 847.3 0 1173 67 2490 847.3 0 2490 68 1080 847.3 0 1080 69 988 847.3 0 988 70 255 847.3 0 255 71 400 847.3 0 400 72 1025 847.3 0 1025 73 1074 847.3 0 1074 74 1643 847.3 0 1643 75 2702 847.3 0 2702 76 2973 847.3 0 2973 77 5905 847.3 0 5905 78 7528 847.3 0 7528 79 113009 847.3 0 113009 80 74344 847.3 0 74344 81 204628 847.3 0 204628 82 951 847.3 0 951 83 552 847.3 0 552 84 121 847.3 0 121 85 52 847.3 0 52 86 56 847.3 0 56 87 74 847.3 0 74 88 44 847.3 0 44 89 28 847.3 0 28 90 52 847.3 0 52 91 21 847.3 0 21 92 45 847.3 0 45 93 49 847.3 0 49 94 40 847.3 0 40 95 33 847.3 0 33 96 58 847.3 0 58 97 37 847.3 0 37 98 38 847.3 0 38 99 37 847.3 0 37 100 43 847.3 0 43 101 49 847.3 0 49 102 42 847.3 0 42 103 55 847.3 0 55 104 43 847.3 0 43 105 35 847.3 0 35 106 33 847.3 0 33 107 34 847.3 0 34 108 35 847.3 0 35 109 40 847.3 0 40 110 47 847.3 0 47 111 37 847.3 0 37 112 43 847.3 0 43 113 56 847.3 0 56 114 63 847.3 0 63 115 91 847.3 0 91 116 450 847.3 0 450 117 364 847.3 0 364 118 265 847.3 0 265 119 175 847.3 0 175 120 96 847.3 0 96 121 103 847.3 0 103 122 69 847.3 0 69 123 149 847.3 0 149 124 209 847.3 0 209 125 102 847.3 0 102 126 93 847.3 0 93 127 60 847.3 0 60 128 54 847.3 0 54 129 98 847.3 0 98 130 231 847.3 0 231 131 269 847.3 0 269 132 185 847.3 0 185 133 57 847.3 0 57 134 78 847.3 0 78 135 77 847.3 0 77 136 173 847.3 0 173 137 117 847.3 0 117 138 144 847.3 0 144 139 231 847.3 0 231 140 118 847.3 0 118 141 229 847.3 0 229 142 262 847.3 0 262 143 113 847.3 0 113 144 89 847.3 0 89 145 117 847.3 0 117 146 148 847.3 0 148 147 198 847.3 0 198 148 147 847.3 0 147 149 180 847.3 0 180 150 2488 847.3 0 2488 151 1639 847.3 0 1639 152 1054 847.3 0 1054 153 106 847.3 0 106 154 59 847.3 0 59 155 69 847.3 0 69 156 72 847.3 0 72 157 81 847.3 0 81 158 72 847.3 0 72 159 65 847.3 0 65 160 41 847.3 0 41 161 70 847.3 0 70 162 68 847.3 0 68 163 59 847.3 0 59 164 69 847.3 0 69 165 56 847.3 0 56 166 72 847.3 0 72 167 90 847.3 0 90 168 70 847.3 0 70 169 116 847.3 0 116 170 69 847.3 0 69 171 271 847.3 0 271 172 217 847.3 0 217 173 148 847.3 0 148 174 95 847.3 0 95 175 67 847.3 0 67 176 60 847.3 0 60 177 58 847.3 0 58 178 64 847.3 0 64 179 60 847.3 0 60 180 53 847.3 0 53 181 48 847.3 0 48 182 66 847.3 0 66 183 63 847.3 0 63 184 53 847.3 0 53 185 63 847.3 0 63 186 170 847.3 0 170 187 95 847.3 0 95 188 88 847.3 0 88 189 66 847.3 0 66 190 53 847.3 0 53 191 56 847.3 0 56 192 73 847.3 0 73 193 74 847.3 0 74 194 82 847.3 0 82 195 68 847.3 0 68 196 75 847.3 0 75 197 64 847.3 0 64 198 85 847.3 0 85 199 122 847.3 0 122 200 104 847.3 0 104 201 65 847.3 0 65 202 47 847.3 0 47 203 53 847.3 0 53 204 63 847.3 0 63 205 82 847.3 0 82 206 62 847.3 0 62 207 86 847.3 0 86 208 74 847.3 0 74 209 67 847.3 0 67 210 78 847.3 0 78 211 69 847.3 0 69 212 92 847.3 0 92 213 83 847.3 0 83 214 81 847.3 0 81 215 70 847.3 0 70 216 89 847.3 0 89 217 129 847.3 0 129 218 331 847.3 0 331 219 446 847.3 0 446 220 140 847.3 0 140 221 123 847.3 0 123 222 77 847.3 0 77 223 116 847.3 0 116 224 161 847.3 0 161 225 184 847.3 0 184 226 722 847.3 0 722 227 583 847.3 0 583 228 911 847.3 0 911 229 155 847.3 0 155 230 85 847.3 0 85 231 60 847.3 0 60 232 78 847.3 0 78 233 70 847.3 0 70 234 57 847.3 0 57 235 53 847.3 0 53 236 64 847.3 0 64 237 59 847.3 0 59 238 81 847.3 0 81 239 96 847.3 0 96 240 106 847.3 0 106 241 119 847.3 0 119 242 64 847.3 0 64 243 64 847.3 0 64 244 74 847.3 0 74 245 55 847.3 0 55 246 86 847.3 0 86 247 121 847.3 0 121 248 61 847.3 0 61 249 80 847.3 0 80 250 87 847.3 0 87 251 91 847.3 0 91 252 104 847.3 0 104 253 78 847.3 0 78 254 60 847.3 0 60 255 73 847.3 0 73 256 87 847.3 0 87 257 71 847.3 0 71 258 75 847.3 0 75 259 76 847.3 0 76 260 68 847.3 0 68 261 83 847.3 0 83 262 82 847.3 0 82 263 65 847.3 0 65 264 91 847.3 0 91 265 74 847.3 0 74 266 69 847.3 0 69 267 80 847.3 0 80 268 81 847.3 0 81 269 84 847.3 0 84 270 65 847.3 0 65 271 60 847.3 0 60 272 93 847.3 0 93 273 77 847.3 0 77 274 150 847.3 0 150 275 198 847.3 0 198 276 236 847.3 0 236 277 88 847.3 0 88 278 81 847.3 0 81 279 114 847.3 0 114 280 128 847.3 0 128 281 96 847.3 0 96 282 76 847.3 0 76 283 69 847.3 0 69 284 81 847.3 0 81 285 159 847.3 0 159 286 194 847.3 0 194 287 109 847.3 0 109 288 86 847.3 0 86 289 93 847.3 0 93 290 146 847.3 0 146 291 161 847.3 0 161 292 164 847.3 0 164 293 117 847.3 0 117 294 102 847.3 0 102 295 90 847.3 0 90 296 80 847.3 0 80 297 93 847.3 0 93 298 115 847.3 0 115 299 119 847.3 0 119 300 135 847.3 0 135 301 92 847.3 0 92 Finished in 42.79 s (70 us/read; 0.86 M reads/minute). === Summary === Total reads processed: 614,505 Reads with adapters: 97,274 (15.8%) Reads that were too short: 31 (0.0%) Reads written (passing filters): 97,243 (15.8%) Total basepairs processed: 147,166,162 bp Total written (filtered): 26,487,085 bp (18.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 97274 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 16 1 0.0 3 0 0 0 0 1 18 42 0.0 3 0 0 40 1 1 19 1064 0.0 3 0 1033 24 5 2 20 82716 0.0 4 81300 1367 45 4 21 337 0.0 4 54 273 8 1 1 22 12525 0.0 4 12306 192 23 3 1 23 82 0.0 4 8 19 1 52 2 24 4 0.0 4 0 0 1 1 2 25 6 0.0 4 0 0 0 4 2 26 3 0.0 4 0 0 0 1 2 27 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 42 1 0.0 4 1 43 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 81 1 0.0 4 1 90 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 97 1 0.0 4 1 99 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 126 7 0.0 4 0 0 0 0 7 127 439 0.0 4 0 0 0 0 439 128 2 0.0 4 0 0 0 0 2 129 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 1 152 4 0.0 4 0 0 0 0 4 153 2 0.0 4 0 0 0 0 2 170 1 0.0 4 0 0 0 0 1 175 1 0.0 4 0 0 0 1 177 1 0.0 4 1 183 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 1 220 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 285 1 0.0 4 0 0 0 0 1 293 1 0.0 4 0 0 0 0 1 294 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 5.60 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 97,243 Reads with adapters: 8,055 (8.3%) Reads written (passing filters): 97,243 (100.0%) Total basepairs processed: 26,487,085 bp Total written (filtered): 26,401,607 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 8055 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.0% C: 2.5% G: 95.7% T: 0.9% 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 48 1519.4 0 48 4 17 379.9 0 17 5 5 95.0 0 5 9 2432 0.4 0 46 2386 10 1886 0.1 1 52 1834 11 3627 0.0 1 25 3602 12 12 0.0 1 1 11 13 2 0.0 1 0 2 14 1 0.0 1 0 1 15 1 0.0 1 0 1 19 2 0.0 1 2 77 1 0.0 1 0 1 150 1 0.0 1 0 1 151 1 0.0 1 0 1 170 1 0.0 1 1 208 2 0.0 1 0 2 209 12 0.0 1 5 7 211 1 0.0 1 0 1 224 2 0.0 1 2 228 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.