This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGGAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 74.71 s (25 us/read; 2.42 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 1,039,820 (34.5%) Reads that were too short: 979,195 (32.5%) Reads written (passing filters): 60,625 (2.0%) Total basepairs processed: 905,907,359 bp Total written (filtered): 11,016,987 bp (1.2%) === Adapter 1 === Sequence: CCGGAA; Type: regular 5'; Length: 6; Trimmed: 1039820 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 168 734.8 0 168 7 479 734.8 0 479 8 393 734.8 0 393 9 13278 734.8 0 13278 10 38 734.8 0 38 11 13 734.8 0 13 12 26 734.8 0 26 13 21 734.8 0 21 14 23 734.8 0 23 15 14 734.8 0 14 16 25 734.8 0 25 17 24 734.8 0 24 18 20 734.8 0 20 19 28 734.8 0 28 20 25 734.8 0 25 21 22 734.8 0 22 22 23 734.8 0 23 23 21 734.8 0 21 24 29 734.8 0 29 25 24 734.8 0 24 26 9 734.8 0 9 27 20 734.8 0 20 28 19 734.8 0 19 29 15 734.8 0 15 30 29 734.8 0 29 31 26 734.8 0 26 32 20 734.8 0 20 33 25 734.8 0 25 34 31 734.8 0 31 35 35 734.8 0 35 36 61 734.8 0 61 37 55 734.8 0 55 38 32 734.8 0 32 39 27 734.8 0 27 40 28 734.8 0 28 41 27 734.8 0 27 42 24 734.8 0 24 43 35 734.8 0 35 44 28 734.8 0 28 45 47 734.8 0 47 46 19 734.8 0 19 47 70 734.8 0 70 48 19 734.8 0 19 49 18 734.8 0 18 50 236 734.8 0 236 51 252 734.8 0 252 52 2590 734.8 0 2590 53 46 734.8 0 46 54 28 734.8 0 28 55 19 734.8 0 19 56 16 734.8 0 16 57 31 734.8 0 31 58 56 734.8 0 56 59 60 734.8 0 60 60 93 734.8 0 93 61 53 734.8 0 53 62 25 734.8 0 25 63 20 734.8 0 20 64 20 734.8 0 20 65 20 734.8 0 20 66 26 734.8 0 26 67 31 734.8 0 31 68 26 734.8 0 26 69 25 734.8 0 25 70 18 734.8 0 18 71 26 734.8 0 26 72 22 734.8 0 22 73 40 734.8 0 40 74 38 734.8 0 38 75 36 734.8 0 36 76 29 734.8 0 29 77 166 734.8 0 166 78 213 734.8 0 213 79 115 734.8 0 115 80 38 734.8 0 38 81 28 734.8 0 28 82 37 734.8 0 37 83 49 734.8 0 49 84 35 734.8 0 35 85 65 734.8 0 65 86 81 734.8 0 81 87 25 734.8 0 25 88 35 734.8 0 35 89 27 734.8 0 27 90 37 734.8 0 37 91 56 734.8 0 56 92 84 734.8 0 84 93 65 734.8 0 65 94 188 734.8 0 188 95 135 734.8 0 135 96 73 734.8 0 73 97 146 734.8 0 146 98 75 734.8 0 75 99 33 734.8 0 33 100 24 734.8 0 24 101 17 734.8 0 17 102 36 734.8 0 36 103 23 734.8 0 23 104 44 734.8 0 44 105 34 734.8 0 34 106 32 734.8 0 32 107 26 734.8 0 26 108 26 734.8 0 26 109 39 734.8 0 39 110 45 734.8 0 45 111 23 734.8 0 23 112 27 734.8 0 27 113 28 734.8 0 28 114 33 734.8 0 33 115 113 734.8 0 113 116 354 734.8 0 354 117 174 734.8 0 174 118 75 734.8 0 75 119 51 734.8 0 51 120 36 734.8 0 36 121 30 734.8 0 30 122 33 734.8 0 33 123 55 734.8 0 55 124 61 734.8 0 61 125 59 734.8 0 59 126 58 734.8 0 58 127 49 734.8 0 49 128 50 734.8 0 50 129 41 734.8 0 41 130 49 734.8 0 49 131 57 734.8 0 57 132 75 734.8 0 75 133 92 734.8 0 92 134 197 734.8 0 197 135 486 734.8 0 486 136 3402 734.8 0 3402 137 5255 734.8 0 5255 138 2090 734.8 0 2090 139 267 734.8 0 267 140 66 734.8 0 66 141 91 734.8 0 91 142 76 734.8 0 76 143 58 734.8 0 58 144 38 734.8 0 38 145 40 734.8 0 40 146 47 734.8 0 47 147 45 734.8 0 45 148 49 734.8 0 49 149 37 734.8 0 37 150 45 734.8 0 45 151 44 734.8 0 44 152 47 734.8 0 47 153 35 734.8 0 35 154 75 734.8 0 75 155 90 734.8 0 90 156 101 734.8 0 101 157 68 734.8 0 68 158 88 734.8 0 88 159 97 734.8 0 97 160 226 734.8 0 226 161 1377 734.8 0 1377 162 1166 734.8 0 1166 163 164 734.8 0 164 164 42 734.8 0 42 165 104 734.8 0 104 166 128 734.8 0 128 167 86 734.8 0 86 168 64 734.8 0 64 169 46 734.8 0 46 170 51 734.8 0 51 171 65 734.8 0 65 172 69 734.8 0 69 173 60 734.8 0 60 174 116 734.8 0 116 175 138 734.8 0 138 176 113 734.8 0 113 177 115 734.8 0 115 178 279 734.8 0 279 179 85 734.8 0 85 180 122 734.8 0 122 181 123 734.8 0 123 182 137 734.8 0 137 183 158 734.8 0 158 184 158 734.8 0 158 185 201 734.8 0 201 186 181 734.8 0 181 187 305 734.8 0 305 188 527 734.8 0 527 189 385 734.8 0 385 190 340 734.8 0 340 191 414 734.8 0 414 192 1058 734.8 0 1058 193 2413 734.8 0 2413 194 1275 734.8 0 1275 195 1165 734.8 0 1165 196 962 734.8 0 962 197 1286 734.8 0 1286 198 1345 734.8 0 1345 199 1702 734.8 0 1702 200 2225 734.8 0 2225 201 3645 734.8 0 3645 202 17285 734.8 0 17285 203 26580 734.8 0 26580 204 22902 734.8 0 22902 205 91191 734.8 0 91191 206 63407 734.8 0 63407 207 98381 734.8 0 98381 208 121831 734.8 0 121831 209 72088 734.8 0 72088 210 36934 734.8 0 36934 211 17035 734.8 0 17035 212 8964 734.8 0 8964 213 1420 734.8 0 1420 214 2099 734.8 0 2099 215 676 734.8 0 676 216 934 734.8 0 934 217 1202 734.8 0 1202 218 789 734.8 0 789 219 1251 734.8 0 1251 220 1648 734.8 0 1648 221 1392 734.8 0 1392 222 4222 734.8 0 4222 223 5701 734.8 0 5701 224 4171 734.8 0 4171 225 3198 734.8 0 3198 226 6160 734.8 0 6160 227 174772 734.8 0 174772 228 134626 734.8 0 134626 229 29478 734.8 0 29478 230 498 734.8 0 498 231 41 734.8 0 41 232 36 734.8 0 36 233 25 734.8 0 25 234 35 734.8 0 35 235 38 734.8 0 38 236 26 734.8 0 26 237 278 734.8 0 278 238 447 734.8 0 447 239 109 734.8 0 109 240 12 734.8 0 12 241 17 734.8 0 17 242 11 734.8 0 11 243 8 734.8 0 8 244 21 734.8 0 21 245 26 734.8 0 26 246 90 734.8 0 90 247 105 734.8 0 105 248 124 734.8 0 124 249 19 734.8 0 19 250 10 734.8 0 10 251 11 734.8 0 11 252 14 734.8 0 14 253 41 734.8 0 41 254 95 734.8 0 95 255 69 734.8 0 69 256 228 734.8 0 228 257 674 734.8 0 674 258 1364 734.8 0 1364 259 1196 734.8 0 1196 260 1402 734.8 0 1402 261 8109 734.8 0 8109 262 4610 734.8 0 4610 263 1007 734.8 0 1007 264 63 734.8 0 63 265 51 734.8 0 51 266 54 734.8 0 54 267 101 734.8 0 101 268 82 734.8 0 82 269 54 734.8 0 54 270 44 734.8 0 44 271 81 734.8 0 81 272 711 734.8 0 711 273 3280 734.8 0 3280 274 379 734.8 0 379 275 47 734.8 0 47 276 41 734.8 0 41 277 268 734.8 0 268 278 344 734.8 0 344 279 110 734.8 0 110 280 88 734.8 0 88 281 68 734.8 0 68 282 50 734.8 0 50 283 26 734.8 0 26 284 47 734.8 0 47 285 63 734.8 0 63 286 313 734.8 0 313 287 204 734.8 0 204 288 74 734.8 0 74 289 46 734.8 0 46 290 25 734.8 0 25 291 31 734.8 0 31 292 73 734.8 0 73 293 84 734.8 0 84 294 60 734.8 0 60 295 158 734.8 0 158 296 171 734.8 0 171 297 164 734.8 0 164 298 180 734.8 0 180 299 210 734.8 0 210 300 120 734.8 0 120 301 97 734.8 0 97 Finished in 2.21 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 60,625 Reads with adapters: 14,025 (23.1%) Reads that were too short: 70 (0.1%) Reads written (passing filters): 13,955 (23.0%) Total basepairs processed: 11,016,987 bp Total written (filtered): 3,828,251 bp (34.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 14025 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 15 2 0.0 3 0 0 1 1 16 94 0.0 3 0 87 3 4 17 13689 0.0 3 13390 252 38 9 18 56 0.0 3 4 33 8 11 19 20 0.0 3 1 1 4 14 20 23 0.0 3 0 0 0 23 24 1 0.0 3 0 0 0 1 26 4 0.0 3 0 0 0 4 29 1 0.0 3 0 0 1 31 24 0.0 3 0 0 0 24 33 2 0.0 3 0 0 0 2 34 1 0.0 3 0 0 0 1 37 2 0.0 3 0 0 0 2 39 1 0.0 3 0 0 0 1 51 2 0.0 3 0 0 0 2 53 14 0.0 3 0 0 0 14 56 1 0.0 3 0 0 0 1 57 1 0.0 3 0 0 0 1 60 1 0.0 3 0 0 0 1 62 1 0.0 3 0 0 0 1 69 1 0.0 3 0 0 0 1 70 1 0.0 3 0 0 0 1 75 1 0.0 3 0 0 1 76 20 0.0 3 0 0 2 18 77 3 0.0 3 0 0 0 3 79 17 0.0 3 0 0 2 15 80 2 0.0 3 0 0 0 2 84 1 0.0 3 0 0 0 1 87 1 0.0 3 0 0 0 1 93 1 0.0 3 0 0 0 1 95 2 0.0 3 0 0 0 2 97 2 0.0 3 0 0 0 2 98 2 0.0 3 0 0 0 2 106 1 0.0 3 0 0 0 1 107 1 0.0 3 0 0 0 1 121 3 0.0 3 0 0 0 3 123 1 0.0 3 0 0 1 125 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 133 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 142 1 0.0 3 0 0 0 1 143 1 0.0 3 0 0 0 1 145 2 0.0 3 0 0 0 2 146 2 0.0 3 0 0 0 2 147 2 0.0 3 0 0 0 2 151 1 0.0 3 0 0 1 152 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 159 2 0.0 3 0 0 0 2 160 1 0.0 3 0 0 0 1 161 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 196 2 0.0 3 0 0 0 2 198 1 0.0 3 0 0 0 1 236 2 0.0 3 0 0 0 2 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.49 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 13,955 Reads with adapters: 448 (3.2%) Reads written (passing filters): 13,955 (100.0%) Total basepairs processed: 3,828,251 bp Total written (filtered): 3,826,903 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 448 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 64.1% C: 6.9% G: 27.2% T: 1.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 444 218.0 0 444 4 4 54.5 0 4