This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTGAGT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 57.24 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 193,152 (8.8%) Reads that were too short: 63,362 (2.9%) Reads written (passing filters): 129,790 (5.9%) Total basepairs processed: 659,880,795 bp Total written (filtered): 35,838,271 bp (5.4%) === Adapter 1 === Sequence: TTGAGT; Type: regular 5'; Length: 6; Trimmed: 193152 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 407 535.2 0 407 7 1179 535.2 0 1179 8 50725 535.2 0 50725 9 57200 535.2 0 57200 10 137 535.2 0 137 11 80 535.2 0 80 12 109 535.2 0 109 13 100 535.2 0 100 14 102 535.2 0 102 15 103 535.2 0 103 16 89 535.2 0 89 17 84 535.2 0 84 18 91 535.2 0 91 19 88 535.2 0 88 20 80 535.2 0 80 21 86 535.2 0 86 22 83 535.2 0 83 23 89 535.2 0 89 24 92 535.2 0 92 25 98 535.2 0 98 26 61 535.2 0 61 27 90 535.2 0 90 28 76 535.2 0 76 29 93 535.2 0 93 30 91 535.2 0 91 31 87 535.2 0 87 32 85 535.2 0 85 33 69 535.2 0 69 34 96 535.2 0 96 35 77 535.2 0 77 36 76 535.2 0 76 37 83 535.2 0 83 38 73 535.2 0 73 39 63 535.2 0 63 40 96 535.2 0 96 41 69 535.2 0 69 42 90 535.2 0 90 43 82 535.2 0 82 44 112 535.2 0 112 45 116 535.2 0 116 46 98 535.2 0 98 47 100 535.2 0 100 48 99 535.2 0 99 49 77 535.2 0 77 50 96 535.2 0 96 51 84 535.2 0 84 52 95 535.2 0 95 53 100 535.2 0 100 54 86 535.2 0 86 55 96 535.2 0 96 56 99 535.2 0 99 57 75 535.2 0 75 58 82 535.2 0 82 59 108 535.2 0 108 60 164 535.2 0 164 61 171 535.2 0 171 62 95 535.2 0 95 63 94 535.2 0 94 64 100 535.2 0 100 65 81 535.2 0 81 66 84 535.2 0 84 67 87 535.2 0 87 68 90 535.2 0 90 69 91 535.2 0 91 70 94 535.2 0 94 71 84 535.2 0 84 72 198 535.2 0 198 73 169 535.2 0 169 74 73 535.2 0 73 75 93 535.2 0 93 76 86 535.2 0 86 77 126 535.2 0 126 78 148 535.2 0 148 79 86 535.2 0 86 80 91 535.2 0 91 81 123 535.2 0 123 82 75 535.2 0 75 83 79 535.2 0 79 84 85 535.2 0 85 85 105 535.2 0 105 86 81 535.2 0 81 87 72 535.2 0 72 88 94 535.2 0 94 89 95 535.2 0 95 90 75 535.2 0 75 91 95 535.2 0 95 92 118 535.2 0 118 93 123 535.2 0 123 94 92 535.2 0 92 95 121 535.2 0 121 96 88 535.2 0 88 97 68 535.2 0 68 98 89 535.2 0 89 99 97 535.2 0 97 100 82 535.2 0 82 101 91 535.2 0 91 102 92 535.2 0 92 103 98 535.2 0 98 104 79 535.2 0 79 105 110 535.2 0 110 106 102 535.2 0 102 107 62 535.2 0 62 108 85 535.2 0 85 109 93 535.2 0 93 110 85 535.2 0 85 111 79 535.2 0 79 112 132 535.2 0 132 113 93 535.2 0 93 114 111 535.2 0 111 115 99 535.2 0 99 116 80 535.2 0 80 117 103 535.2 0 103 118 94 535.2 0 94 119 83 535.2 0 83 120 84 535.2 0 84 121 80 535.2 0 80 122 80 535.2 0 80 123 83 535.2 0 83 124 110 535.2 0 110 125 80 535.2 0 80 126 82 535.2 0 82 127 108 535.2 0 108 128 99 535.2 0 99 129 107 535.2 0 107 130 120 535.2 0 120 131 107 535.2 0 107 132 144 535.2 0 144 133 101 535.2 0 101 134 100 535.2 0 100 135 104 535.2 0 104 136 87 535.2 0 87 137 96 535.2 0 96 138 174 535.2 0 174 139 160 535.2 0 160 140 138 535.2 0 138 141 96 535.2 0 96 142 297 535.2 0 297 143 143 535.2 0 143 144 194 535.2 0 194 145 149 535.2 0 149 146 168 535.2 0 168 147 105 535.2 0 105 148 92 535.2 0 92 149 90 535.2 0 90 150 77 535.2 0 77 151 88 535.2 0 88 152 103 535.2 0 103 153 77 535.2 0 77 154 111 535.2 0 111 155 109 535.2 0 109 156 106 535.2 0 106 157 92 535.2 0 92 158 100 535.2 0 100 159 113 535.2 0 113 160 64 535.2 0 64 161 81 535.2 0 81 162 96 535.2 0 96 163 63 535.2 0 63 164 89 535.2 0 89 165 94 535.2 0 94 166 105 535.2 0 105 167 67 535.2 0 67 168 123 535.2 0 123 169 118 535.2 0 118 170 80 535.2 0 80 171 92 535.2 0 92 172 69 535.2 0 69 173 92 535.2 0 92 174 97 535.2 0 97 175 74 535.2 0 74 176 96 535.2 0 96 177 92 535.2 0 92 178 77 535.2 0 77 179 96 535.2 0 96 180 166 535.2 0 166 181 93 535.2 0 93 182 102 535.2 0 102 183 91 535.2 0 91 184 91 535.2 0 91 185 79 535.2 0 79 186 88 535.2 0 88 187 82 535.2 0 82 188 82 535.2 0 82 189 85 535.2 0 85 190 102 535.2 0 102 191 142 535.2 0 142 192 229 535.2 0 229 193 188 535.2 0 188 194 194 535.2 0 194 195 83 535.2 0 83 196 117 535.2 0 117 197 360 535.2 0 360 198 383 535.2 0 383 199 640 535.2 0 640 200 77 535.2 0 77 201 62 535.2 0 62 202 69 535.2 0 69 203 79 535.2 0 79 204 93 535.2 0 93 205 132 535.2 0 132 206 77 535.2 0 77 207 67 535.2 0 67 208 68 535.2 0 68 209 65 535.2 0 65 210 95 535.2 0 95 211 78 535.2 0 78 212 66 535.2 0 66 213 71 535.2 0 71 214 67 535.2 0 67 215 61 535.2 0 61 216 86 535.2 0 86 217 70 535.2 0 70 218 87 535.2 0 87 219 78 535.2 0 78 220 78 535.2 0 78 221 83 535.2 0 83 222 107 535.2 0 107 223 135 535.2 0 135 224 321 535.2 0 321 225 535 535.2 0 535 226 139 535.2 0 139 227 92 535.2 0 92 228 60 535.2 0 60 229 81 535.2 0 81 230 70 535.2 0 70 231 78 535.2 0 78 232 89 535.2 0 89 233 87 535.2 0 87 234 79 535.2 0 79 235 86 535.2 0 86 236 82 535.2 0 82 237 95 535.2 0 95 238 131 535.2 0 131 239 83 535.2 0 83 240 103 535.2 0 103 241 148 535.2 0 148 242 118 535.2 0 118 243 98 535.2 0 98 244 106 535.2 0 106 245 103 535.2 0 103 246 103 535.2 0 103 247 130 535.2 0 130 248 75 535.2 0 75 249 103 535.2 0 103 250 55 535.2 0 55 251 65 535.2 0 65 252 90 535.2 0 90 253 69 535.2 0 69 254 87 535.2 0 87 255 127 535.2 0 127 256 149 535.2 0 149 257 110 535.2 0 110 258 113 535.2 0 113 259 95 535.2 0 95 260 92 535.2 0 92 261 118 535.2 0 118 262 122 535.2 0 122 263 99 535.2 0 99 264 90 535.2 0 90 265 202 535.2 0 202 266 266 535.2 0 266 267 324 535.2 0 324 268 156 535.2 0 156 269 74 535.2 0 74 270 75 535.2 0 75 271 100 535.2 0 100 272 92 535.2 0 92 273 133 535.2 0 133 274 150 535.2 0 150 275 149 535.2 0 149 276 114 535.2 0 114 277 94 535.2 0 94 278 96 535.2 0 96 279 112 535.2 0 112 280 155 535.2 0 155 281 163 535.2 0 163 282 164 535.2 0 164 283 150 535.2 0 150 284 169 535.2 0 169 285 270 535.2 0 270 286 293 535.2 0 293 287 231 535.2 0 231 288 298 535.2 0 298 289 267 535.2 0 267 290 261 535.2 0 261 291 390 535.2 0 390 292 640 535.2 0 640 293 510 535.2 0 510 294 488 535.2 0 488 295 642 535.2 0 642 296 648 535.2 0 648 297 889 535.2 0 889 298 3932 535.2 0 3932 299 8564 535.2 0 8564 300 23130 535.2 0 23130 301 12483 535.2 0 12483 Finished in 6.05 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 129,790 Reads with adapters: 48,459 (37.3%) Reads that were too short: 47 (0.0%) Reads written (passing filters): 48,412 (37.3%) Total basepairs processed: 35,838,271 bp Total written (filtered): 13,358,457 bp (37.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 48459 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 14 5 0.0 2 0 0 0 5 15 5 0.0 3 0 0 5 16 237 0.0 3 0 232 5 17 47944 0.0 3 47135 782 25 2 18 123 0.0 3 6 112 5 19 19 0.0 3 0 1 17 1 20 49 0.0 3 0 0 0 49 24 1 0.0 3 0 0 0 1 25 1 0.0 3 1 27 1 0.0 3 1 30 1 0.0 3 1 37 1 0.0 3 1 39 2 0.0 3 0 0 0 2 40 2 0.0 3 0 0 0 2 48 1 0.0 3 0 0 0 1 50 2 0.0 3 0 0 0 2 58 1 0.0 3 0 0 0 1 60 1 0.0 3 0 0 0 1 61 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 109 2 0.0 3 1 0 0 1 115 2 0.0 3 0 0 0 2 127 1 0.0 3 0 0 0 1 135 1 0.0 3 0 0 0 1 141 2 0.0 3 1 0 0 1 155 1 0.0 3 0 0 0 1 162 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 164 3 0.0 3 0 0 0 3 184 3 0.0 3 0 1 0 2 188 1 0.0 3 0 0 0 1 189 26 0.0 3 0 0 0 26 192 1 0.0 3 0 0 0 1 194 2 0.0 3 0 0 0 2 218 2 0.0 3 0 0 0 2 221 2 0.0 3 0 0 0 2 222 1 0.0 3 0 0 0 1 237 1 0.0 3 0 0 0 1 280 2 0.0 3 0 0 0 2 281 3 0.0 3 0 0 0 3 282 3 0.0 3 0 0 0 3 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 1.69 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 48,412 Reads with adapters: 299 (0.6%) Reads written (passing filters): 48,412 (100.0%) Total basepairs processed: 13,358,457 bp Total written (filtered): 13,357,519 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 299 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 81.9% C: 9.7% G: 6.4% T: 2.0% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 260 756.4 0 260 4 38 189.1 0 38 6 1 11.8 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.