This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGATCC -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 109.18 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 565,613 (17.8%) Reads that were too short: 6,409 (0.2%) Reads written (passing filters): 559,204 (17.6%) Total basepairs processed: 958,672,960 bp Total written (filtered): 138,620,179 bp (14.5%) === Adapter 1 === Sequence: TGATCC; Type: regular 5'; Length: 6; Trimmed: 565613 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 925 777.6 0 925 7 13543 777.6 0 13543 8 1909 777.6 0 1909 9 9213 777.6 0 9213 10 53 777.6 0 53 11 54 777.6 0 54 12 247 777.6 0 247 13 22 777.6 0 22 14 16 777.6 0 16 15 32 777.6 0 32 16 22 777.6 0 22 17 70 777.6 0 70 18 38 777.6 0 38 19 96 777.6 0 96 20 58 777.6 0 58 21 115 777.6 0 115 22 275 777.6 0 275 23 67 777.6 0 67 24 147 777.6 0 147 25 134 777.6 0 134 26 111 777.6 0 111 27 256 777.6 0 256 28 144 777.6 0 144 29 267 777.6 0 267 30 329 777.6 0 329 31 216 777.6 0 216 32 262 777.6 0 262 33 401 777.6 0 401 34 622 777.6 0 622 35 1095 777.6 0 1095 36 1132 777.6 0 1132 37 1759 777.6 0 1759 38 2008 777.6 0 2008 39 51969 777.6 0 51969 40 42382 777.6 0 42382 41 38887 777.6 0 38887 42 653 777.6 0 653 43 837 777.6 0 837 44 1189 777.6 0 1189 45 2040 777.6 0 2040 46 4992 777.6 0 4992 47 800 777.6 0 800 48 1050 777.6 0 1050 49 2492 777.6 0 2492 50 1284 777.6 0 1284 51 968 777.6 0 968 52 2132 777.6 0 2132 53 1519 777.6 0 1519 54 3247 777.6 0 3247 55 1809 777.6 0 1809 56 2931 777.6 0 2931 57 3173 777.6 0 3173 58 4907 777.6 0 4907 59 72991 777.6 0 72991 60 144427 777.6 0 144427 61 127915 777.6 0 127915 62 670 777.6 0 670 63 25 777.6 0 25 64 19 777.6 0 19 65 8 777.6 0 8 66 2 777.6 0 2 67 4 777.6 0 4 68 2 777.6 0 2 69 3 777.6 0 3 70 7 777.6 0 7 71 10 777.6 0 10 72 88 777.6 0 88 73 402 777.6 0 402 74 126 777.6 0 126 75 69 777.6 0 69 76 4 777.6 0 4 77 4 777.6 0 4 78 10 777.6 0 10 79 20 777.6 0 20 80 8 777.6 0 8 81 29 777.6 0 29 82 46 777.6 0 46 83 51 777.6 0 51 84 31 777.6 0 31 85 10 777.6 0 10 86 15 777.6 0 15 87 12 777.6 0 12 88 33 777.6 0 33 89 14 777.6 0 14 90 19 777.6 0 19 91 31 777.6 0 31 92 54 777.6 0 54 93 10 777.6 0 10 94 8 777.6 0 8 95 33 777.6 0 33 96 10 777.6 0 10 97 24 777.6 0 24 98 63 777.6 0 63 99 96 777.6 0 96 100 18 777.6 0 18 101 122 777.6 0 122 102 200 777.6 0 200 103 241 777.6 0 241 104 22 777.6 0 22 105 24 777.6 0 24 106 14 777.6 0 14 107 5 777.6 0 5 108 12 777.6 0 12 109 16 777.6 0 16 110 14 777.6 0 14 111 138 777.6 0 138 112 86 777.6 0 86 113 418 777.6 0 418 114 11 777.6 0 11 115 11 777.6 0 11 116 11 777.6 0 11 117 162 777.6 0 162 118 37 777.6 0 37 119 47 777.6 0 47 120 44 777.6 0 44 121 23 777.6 0 23 122 28 777.6 0 28 123 18 777.6 0 18 124 35 777.6 0 35 125 255 777.6 0 255 126 71 777.6 0 71 127 78 777.6 0 78 128 49 777.6 0 49 129 49 777.6 0 49 130 67 777.6 0 67 131 31 777.6 0 31 132 47 777.6 0 47 133 35 777.6 0 35 134 31 777.6 0 31 135 26 777.6 0 26 136 39 777.6 0 39 137 36 777.6 0 36 138 34 777.6 0 34 139 29 777.6 0 29 140 11 777.6 0 11 141 16 777.6 0 16 142 24 777.6 0 24 143 67 777.6 0 67 144 12 777.6 0 12 145 14 777.6 0 14 146 21 777.6 0 21 147 21 777.6 0 21 148 34 777.6 0 34 149 15 777.6 0 15 150 16 777.6 0 16 151 20 777.6 0 20 152 23 777.6 0 23 153 20 777.6 0 20 154 12 777.6 0 12 155 31 777.6 0 31 156 61 777.6 0 61 157 94 777.6 0 94 158 94 777.6 0 94 159 204 777.6 0 204 160 78 777.6 0 78 161 128 777.6 0 128 162 105 777.6 0 105 163 69 777.6 0 69 164 83 777.6 0 83 165 26 777.6 0 26 166 23 777.6 0 23 167 24 777.6 0 24 168 58 777.6 0 58 169 210 777.6 0 210 170 108 777.6 0 108 171 66 777.6 0 66 172 50 777.6 0 50 173 13 777.6 0 13 174 5 777.6 0 5 175 11 777.6 0 11 176 42 777.6 0 42 177 43 777.6 0 43 178 59 777.6 0 59 179 48 777.6 0 48 180 14 777.6 0 14 181 45 777.6 0 45 182 27 777.6 0 27 183 143 777.6 0 143 184 67 777.6 0 67 185 61 777.6 0 61 186 29 777.6 0 29 187 38 777.6 0 38 188 110 777.6 0 110 189 65 777.6 0 65 190 34 777.6 0 34 191 17 777.6 0 17 192 23 777.6 0 23 193 41 777.6 0 41 194 43 777.6 0 43 195 50 777.6 0 50 196 74 777.6 0 74 197 112 777.6 0 112 198 314 777.6 0 314 199 246 777.6 0 246 200 608 777.6 0 608 201 48 777.6 0 48 202 40 777.6 0 40 203 39 777.6 0 39 204 65 777.6 0 65 205 165 777.6 0 165 206 32 777.6 0 32 207 31 777.6 0 31 208 49 777.6 0 49 209 44 777.6 0 44 210 14 777.6 0 14 211 17 777.6 0 17 212 30 777.6 0 30 213 48 777.6 0 48 214 54 777.6 0 54 215 57 777.6 0 57 216 55 777.6 0 55 217 54 777.6 0 54 218 34 777.6 0 34 219 31 777.6 0 31 220 34 777.6 0 34 221 51 777.6 0 51 222 86 777.6 0 86 223 105 777.6 0 105 224 130 777.6 0 130 225 190 777.6 0 190 226 623 777.6 0 623 227 157 777.6 0 157 228 860 777.6 0 860 229 247 777.6 0 247 230 103 777.6 0 103 231 9 777.6 0 9 232 23 777.6 0 23 233 23 777.6 0 23 234 24 777.6 0 24 235 11 777.6 0 11 236 17 777.6 0 17 237 23 777.6 0 23 238 17 777.6 0 17 239 19 777.6 0 19 240 14 777.6 0 14 241 22 777.6 0 22 242 38 777.6 0 38 243 45 777.6 0 45 244 25 777.6 0 25 245 21 777.6 0 21 246 21 777.6 0 21 247 21 777.6 0 21 248 37 777.6 0 37 249 26 777.6 0 26 250 51 777.6 0 51 251 46 777.6 0 46 252 65 777.6 0 65 253 49 777.6 0 49 254 78 777.6 0 78 255 52 777.6 0 52 256 51 777.6 0 51 257 38 777.6 0 38 258 29 777.6 0 29 259 26 777.6 0 26 260 23 777.6 0 23 261 28 777.6 0 28 262 15 777.6 0 15 263 50 777.6 0 50 264 41 777.6 0 41 265 26 777.6 0 26 266 19 777.6 0 19 267 18 777.6 0 18 268 10 777.6 0 10 269 26 777.6 0 26 270 42 777.6 0 42 271 33 777.6 0 33 272 36 777.6 0 36 273 63 777.6 0 63 274 74 777.6 0 74 275 126 777.6 0 126 276 75 777.6 0 75 277 34 777.6 0 34 278 32 777.6 0 32 279 31 777.6 0 31 280 26 777.6 0 26 281 45 777.6 0 45 282 44 777.6 0 44 283 38 777.6 0 38 284 41 777.6 0 41 285 22 777.6 0 22 286 9 777.6 0 9 287 15 777.6 0 15 288 18 777.6 0 18 289 23 777.6 0 23 290 108 777.6 0 108 291 191 777.6 0 191 292 74 777.6 0 74 293 49 777.6 0 49 294 40 777.6 0 40 295 92 777.6 0 92 296 82 777.6 0 82 297 50 777.6 0 50 298 17 777.6 0 17 299 155 777.6 0 155 300 71 777.6 0 71 301 31 777.6 0 31 Finished in 32.29 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 559,204 Reads with adapters: 12,106 (2.2%) Reads that were too short: 195 (0.0%) Reads written (passing filters): 11,911 (2.1%) Total basepairs processed: 138,620,179 bp Total written (filtered): 2,174,702 bp (1.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12106 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 1 0.0 3 0 0 1 19 8 0.0 3 0 5 0 0 3 20 1765 0.0 4 1700 58 3 4 21 4 0.0 4 0 4 22 4 0.0 4 0 1 1 1 1 23 5 0.0 4 1 1 0 3 24 2 0.0 4 2 40 2 0.0 4 0 0 0 0 2 63 1 0.0 4 0 0 0 0 1 72 2 0.0 4 0 0 0 0 2 73 21 0.0 4 0 0 0 0 21 74 5 0.0 4 0 0 0 0 5 75 9917 0.0 4 0 0 0 1 9916 77 8 0.0 4 0 0 0 0 8 83 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 94 30 0.0 4 0 0 0 0 30 106 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 31 0.0 4 0 0 0 0 31 127 85 0.0 4 0 0 0 0 85 128 2 0.0 4 0 0 0 0 2 130 1 0.0 4 0 0 0 0 1 131 2 0.0 4 0 0 0 0 2 139 11 0.0 4 0 0 0 1 10 150 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 170 4 0.0 4 0 0 0 0 4 173 2 0.0 4 0 0 0 0 2 176 32 0.0 4 0 0 0 1 31 177 2 0.0 4 0 0 0 0 2 181 3 0.0 4 0 0 0 0 3 182 7 0.0 4 0 0 0 0 7 183 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 191 2 0.0 4 0 0 0 0 2 194 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 205 2 0.0 4 0 0 0 0 2 206 2 0.0 4 0 0 0 0 2 213 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 230 54 0.0 4 0 0 0 0 54 231 11 0.0 4 0 0 0 2 9 232 2 0.0 4 0 0 0 0 2 233 2 0.0 4 0 0 0 0 2 234 2 0.0 4 0 0 0 1 1 237 4 0.0 4 0 0 0 0 4 238 3 0.0 4 0 0 0 0 3 239 9 0.0 4 0 0 0 0 9 240 7 0.0 4 0 0 0 0 7 242 2 0.0 4 0 0 0 0 2 243 3 0.0 4 0 0 0 0 3 244 3 0.0 4 0 0 0 0 3 245 2 0.0 4 0 0 0 0 2 255 3 0.0 4 0 0 0 0 3 262 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 283 3 0.0 4 0 0 0 0 3 284 1 0.0 4 0 0 0 0 1 286 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 0.40 s (34 us/read; 1.79 M reads/minute). === Summary === Total reads processed: 11,911 Reads with adapters: 472 (4.0%) Reads written (passing filters): 11,911 (100.0%) Total basepairs processed: 2,174,702 bp Total written (filtered): 2,144,476 bp (98.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 472 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 15.5% C: 21.6% G: 61.2% T: 1.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 5 186.1 0 5 4 55 46.5 0 55 5 7 11.6 0 7 10 3 0.0 1 0 3 11 302 0.0 1 0 302 266 97 0.0 1 90 7 267 2 0.0 1 2 268 1 0.0 1 1