Multiple sequence alignment - TraesCS4A01G047200

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4A01G047200 chr4A 100.000 3191 0 0 1 3191 38664351 38661161 0.000000e+00 5893.0
1 TraesCS4A01G047200 chr4A 99.278 1939 9 2 317 2255 37832987 37834920 0.000000e+00 3498.0
2 TraesCS4A01G047200 chr4A 84.214 2667 245 87 365 2893 37999336 38001964 0.000000e+00 2431.0
3 TraesCS4A01G047200 chr4A 84.342 1322 127 17 1009 2293 38675581 38674303 0.000000e+00 1221.0
4 TraesCS4A01G047200 chr4A 89.619 289 28 2 1 288 616606416 616606129 1.810000e-97 366.0
5 TraesCS4A01G047200 chr4A 88.550 262 24 4 2347 2604 37835013 37835272 2.390000e-81 313.0
6 TraesCS4A01G047200 chr4A 86.538 260 26 7 2349 2604 38661427 38661173 8.720000e-71 278.0
7 TraesCS4A01G047200 chr4A 86.538 260 26 7 2925 3179 38662003 38661748 8.720000e-71 278.0
8 TraesCS4A01G047200 chr4A 79.271 439 41 27 2315 2707 539140642 539141076 8.780000e-66 261.0
9 TraesCS4A01G047200 chr4A 86.316 190 19 5 2946 3131 38001398 38001584 1.940000e-47 200.0
10 TraesCS4A01G047200 chr4A 93.519 108 4 2 2603 2707 38681167 38681060 1.180000e-34 158.0
11 TraesCS4A01G047200 chr4B 92.273 1980 71 31 292 2241 522681532 522683459 0.000000e+00 2734.0
12 TraesCS4A01G047200 chr4B 85.284 1991 154 46 690 2604 524901201 524899274 0.000000e+00 1925.0
13 TraesCS4A01G047200 chr4B 83.987 1199 135 25 924 2083 522677162 522678342 0.000000e+00 1098.0
14 TraesCS4A01G047200 chr4B 88.277 563 32 13 365 894 526959867 526960428 0.000000e+00 643.0
15 TraesCS4A01G047200 chr4B 97.656 256 5 1 2347 2601 522683475 522683730 3.780000e-119 438.0
16 TraesCS4A01G047200 chr4B 86.879 282 28 7 2902 3177 522683454 522683732 1.110000e-79 307.0
17 TraesCS4A01G047200 chr4B 83.936 249 29 7 2944 3184 524899514 524899269 8.900000e-56 228.0
18 TraesCS4A01G047200 chr4B 97.059 68 2 0 379 446 524901491 524901424 7.230000e-22 115.0
19 TraesCS4A01G047200 chr4B 85.039 127 2 3 2703 2826 522683850 522683962 2.600000e-21 113.0
20 TraesCS4A01G047200 chr4B 89.773 88 6 2 2623 2707 527594483 527594396 3.370000e-20 110.0
21 TraesCS4A01G047200 chr4B 98.214 56 1 0 2603 2658 524899246 524899191 7.280000e-17 99.0
22 TraesCS4A01G047200 chr4B 98.148 54 1 0 2654 2707 522683729 522683782 9.420000e-16 95.3
23 TraesCS4A01G047200 chr4B 89.286 56 6 0 2765 2820 524899094 524899039 1.590000e-08 71.3
24 TraesCS4A01G047200 chr4D 93.914 1758 60 22 735 2456 427014230 427015976 0.000000e+00 2610.0
25 TraesCS4A01G047200 chr4D 89.358 1917 80 54 365 2241 428558887 428557055 0.000000e+00 2296.0
26 TraesCS4A01G047200 chr4D 93.929 1499 50 23 738 2202 427322378 427323869 0.000000e+00 2226.0
27 TraesCS4A01G047200 chr4D 84.779 1787 163 48 479 2172 428398450 428396680 0.000000e+00 1692.0
28 TraesCS4A01G047200 chr4D 83.951 1215 124 19 1009 2192 427267952 427269126 0.000000e+00 1098.0
29 TraesCS4A01G047200 chr4D 78.123 1289 204 41 1001 2249 423989777 423988527 0.000000e+00 747.0
30 TraesCS4A01G047200 chr4D 88.119 505 16 14 2703 3191 427021384 427021860 7.730000e-156 560.0
31 TraesCS4A01G047200 chr4D 91.029 379 23 5 2231 2599 428396678 428396301 4.750000e-138 501.0
32 TraesCS4A01G047200 chr4D 90.313 351 27 4 368 714 427013222 427013569 1.350000e-123 453.0
33 TraesCS4A01G047200 chr4D 96.484 256 9 0 2452 2707 427021058 427021313 1.060000e-114 424.0
34 TraesCS4A01G047200 chr4D 89.443 341 29 4 377 713 427319838 427320175 1.060000e-114 424.0
35 TraesCS4A01G047200 chr4D 91.985 262 16 4 2347 2604 427323907 427324167 2.340000e-96 363.0
36 TraesCS4A01G047200 chr4D 87.379 309 31 6 2889 3191 428547204 428546898 6.550000e-92 348.0
37 TraesCS4A01G047200 chr4D 86.184 304 31 9 2889 3184 427323872 427324172 5.140000e-83 318.0
38 TraesCS4A01G047200 chr4D 89.344 244 15 4 2905 3147 428557057 428556824 2.410000e-76 296.0
39 TraesCS4A01G047200 chr4D 85.560 277 31 6 2923 3191 57842009 57842284 6.740000e-72 281.0
40 TraesCS4A01G047200 chr4D 86.454 251 27 5 2358 2604 428547156 428546909 5.250000e-68 268.0
41 TraesCS4A01G047200 chr4D 82.474 291 31 10 2902 3191 426871585 426871856 1.480000e-58 237.0
42 TraesCS4A01G047200 chr4D 98.148 54 0 1 377 429 428398503 428398450 3.390000e-15 93.5
43 TraesCS4A01G047200 chr4D 81.034 116 16 2 3082 3191 423988354 423988239 1.580000e-13 87.9
44 TraesCS4A01G047200 chr4D 90.741 54 5 0 3138 3191 424109033 424108980 4.420000e-09 73.1
45 TraesCS4A01G047200 chr3D 90.106 283 26 2 1 282 18792036 18792317 1.810000e-97 366.0
46 TraesCS4A01G047200 chr3D 82.105 190 23 8 3007 3191 543683086 543682903 5.510000e-33 152.0
47 TraesCS4A01G047200 chr1A 89.161 286 27 3 1 283 389804067 389804351 1.410000e-93 353.0
48 TraesCS4A01G047200 chr1A 86.879 282 32 2 1 282 516557760 516558036 8.600000e-81 311.0
49 TraesCS4A01G047200 chr3A 88.112 286 30 3 1 283 128580510 128580226 1.420000e-88 337.0
50 TraesCS4A01G047200 chr3A 86.525 282 38 0 1 282 673436652 673436371 8.600000e-81 311.0
51 TraesCS4A01G047200 chr6A 87.719 285 31 4 1 283 79323880 79323598 2.370000e-86 329.0
52 TraesCS4A01G047200 chr2A 88.129 278 32 1 1 278 715992600 715992876 2.370000e-86 329.0
53 TraesCS4A01G047200 chr5B 90.395 177 16 1 1 176 543277541 543277365 6.880000e-57 231.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G047200 chr4A 38661161 38664351 3190 True 2149.666667 5893 91.025333 1 3191 3 chr4A.!!$R4 3190
1 TraesCS4A01G047200 chr4A 37832987 37835272 2285 False 1905.500000 3498 93.914000 317 2604 2 chr4A.!!$F2 2287
2 TraesCS4A01G047200 chr4A 37999336 38001964 2628 False 1315.500000 2431 85.265000 365 3131 2 chr4A.!!$F3 2766
3 TraesCS4A01G047200 chr4A 38674303 38675581 1278 True 1221.000000 1221 84.342000 1009 2293 1 chr4A.!!$R1 1284
4 TraesCS4A01G047200 chr4B 522677162 522683962 6800 False 797.550000 2734 90.663667 292 3177 6 chr4B.!!$F2 2885
5 TraesCS4A01G047200 chr4B 526959867 526960428 561 False 643.000000 643 88.277000 365 894 1 chr4B.!!$F1 529
6 TraesCS4A01G047200 chr4B 524899039 524901491 2452 True 487.660000 1925 90.755800 379 3184 5 chr4B.!!$R2 2805
7 TraesCS4A01G047200 chr4D 427013222 427015976 2754 False 1531.500000 2610 92.113500 368 2456 2 chr4D.!!$F4 2088
8 TraesCS4A01G047200 chr4D 428556824 428558887 2063 True 1296.000000 2296 89.351000 365 3147 2 chr4D.!!$R5 2782
9 TraesCS4A01G047200 chr4D 427267952 427269126 1174 False 1098.000000 1098 83.951000 1009 2192 1 chr4D.!!$F3 1183
10 TraesCS4A01G047200 chr4D 427319838 427324172 4334 False 832.750000 2226 90.385250 377 3184 4 chr4D.!!$F6 2807
11 TraesCS4A01G047200 chr4D 428396301 428398503 2202 True 762.166667 1692 91.318667 377 2599 3 chr4D.!!$R3 2222
12 TraesCS4A01G047200 chr4D 427021058 427021860 802 False 492.000000 560 92.301500 2452 3191 2 chr4D.!!$F5 739
13 TraesCS4A01G047200 chr4D 423988239 423989777 1538 True 417.450000 747 79.578500 1001 3191 2 chr4D.!!$R2 2190

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
247 248 0.172578 TTGAGCGGTGGAGATACACG 59.827 55.0 0.0 0.0 42.23 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2206 8758 2.8999 TCCAAGCACAGTCACATCTACT 59.1 45.455 0.0 0.0 0.0 2.57 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 9.748708 TTCTTTGAGAACAATTTCAATAACAGG 57.251 29.630 0.00 0.00 35.85 4.00
43 44 9.130661 TCTTTGAGAACAATTTCAATAACAGGA 57.869 29.630 0.00 0.00 35.85 3.86
91 92 7.676683 ATTACTTCCAACAAGATAGGCTAGA 57.323 36.000 0.00 0.00 0.00 2.43
93 94 5.273208 ACTTCCAACAAGATAGGCTAGAGA 58.727 41.667 0.00 0.00 0.00 3.10
94 95 5.362430 ACTTCCAACAAGATAGGCTAGAGAG 59.638 44.000 0.00 0.00 0.00 3.20
97 98 6.853490 TCCAACAAGATAGGCTAGAGAGATA 58.147 40.000 0.00 0.00 0.00 1.98
98 99 7.298374 TCCAACAAGATAGGCTAGAGAGATAA 58.702 38.462 0.00 0.00 0.00 1.75
99 100 7.952930 TCCAACAAGATAGGCTAGAGAGATAAT 59.047 37.037 0.00 0.00 0.00 1.28
101 102 8.801299 CAACAAGATAGGCTAGAGAGATAATCA 58.199 37.037 0.00 0.00 0.00 2.57
102 103 9.545928 AACAAGATAGGCTAGAGAGATAATCAT 57.454 33.333 0.00 0.00 0.00 2.45
106 107 9.236498 AGATAGGCTAGAGAGATAATCATAGGA 57.764 37.037 0.00 0.00 0.00 2.94
124 125 1.670791 GAATTAATTCCACGGCCGGA 58.329 50.000 31.76 15.75 0.00 5.14
143 144 3.626217 CGGAGGGGTAAAGTGAATTTAGC 59.374 47.826 6.08 6.08 46.52 3.09
150 151 4.851558 GGTAAAGTGAATTTAGCAACAGCG 59.148 41.667 9.36 0.00 46.50 5.18
154 155 3.058914 AGTGAATTTAGCAACAGCGTCAC 60.059 43.478 0.00 0.00 0.00 3.67
156 157 2.185004 ATTTAGCAACAGCGTCACCT 57.815 45.000 0.00 0.00 0.00 4.00
159 160 3.328382 TTAGCAACAGCGTCACCTATT 57.672 42.857 0.00 0.00 0.00 1.73
160 161 4.459390 TTAGCAACAGCGTCACCTATTA 57.541 40.909 0.00 0.00 0.00 0.98
162 163 2.233922 AGCAACAGCGTCACCTATTACT 59.766 45.455 0.00 0.00 0.00 2.24
164 165 2.930040 CAACAGCGTCACCTATTACTGG 59.070 50.000 0.00 0.00 0.00 4.00
165 166 2.453521 ACAGCGTCACCTATTACTGGA 58.546 47.619 0.00 0.00 0.00 3.86
166 167 2.165845 ACAGCGTCACCTATTACTGGAC 59.834 50.000 0.00 0.00 0.00 4.02
167 168 2.165641 CAGCGTCACCTATTACTGGACA 59.834 50.000 0.00 0.00 0.00 4.02
168 169 2.829720 AGCGTCACCTATTACTGGACAA 59.170 45.455 0.00 0.00 0.00 3.18
169 170 3.119101 AGCGTCACCTATTACTGGACAAG 60.119 47.826 0.00 0.00 0.00 3.16
170 171 3.119245 GCGTCACCTATTACTGGACAAGA 60.119 47.826 0.00 0.00 0.00 3.02
171 172 4.421948 CGTCACCTATTACTGGACAAGAC 58.578 47.826 0.00 0.00 0.00 3.01
172 173 4.158025 CGTCACCTATTACTGGACAAGACT 59.842 45.833 0.00 0.00 0.00 3.24
174 175 6.458478 CGTCACCTATTACTGGACAAGACTAG 60.458 46.154 0.00 0.00 0.00 2.57
175 176 5.360144 TCACCTATTACTGGACAAGACTAGC 59.640 44.000 0.00 0.00 0.00 3.42
176 177 4.650131 ACCTATTACTGGACAAGACTAGCC 59.350 45.833 0.00 0.00 0.00 3.93
177 178 4.896482 CCTATTACTGGACAAGACTAGCCT 59.104 45.833 0.00 0.00 0.00 4.58
178 179 6.069331 CCTATTACTGGACAAGACTAGCCTA 58.931 44.000 0.00 0.00 0.00 3.93
179 180 6.207810 CCTATTACTGGACAAGACTAGCCTAG 59.792 46.154 0.00 0.00 0.00 3.02
181 182 2.043252 ACTGGACAAGACTAGCCTAGGT 59.957 50.000 11.31 0.00 0.00 3.08
183 184 2.033372 GGACAAGACTAGCCTAGGTCC 58.967 57.143 11.31 12.12 35.24 4.46
184 185 2.358405 GGACAAGACTAGCCTAGGTCCT 60.358 54.545 17.38 2.09 37.58 3.85
185 186 3.117587 GGACAAGACTAGCCTAGGTCCTA 60.118 52.174 17.38 3.28 37.58 2.94
186 187 4.534797 GACAAGACTAGCCTAGGTCCTAA 58.465 47.826 11.31 0.00 33.39 2.69
187 188 5.141910 GACAAGACTAGCCTAGGTCCTAAT 58.858 45.833 11.31 0.00 33.39 1.73
188 189 4.896482 ACAAGACTAGCCTAGGTCCTAATG 59.104 45.833 11.31 4.95 33.39 1.90
189 190 5.141182 CAAGACTAGCCTAGGTCCTAATGA 58.859 45.833 11.31 0.00 33.39 2.57
190 191 4.993028 AGACTAGCCTAGGTCCTAATGAG 58.007 47.826 11.31 0.00 33.39 2.90
194 195 3.785364 AGCCTAGGTCCTAATGAGATCC 58.215 50.000 11.31 0.00 0.00 3.36
195 196 3.404425 AGCCTAGGTCCTAATGAGATCCT 59.596 47.826 11.31 0.00 32.77 3.24
196 197 4.140567 AGCCTAGGTCCTAATGAGATCCTT 60.141 45.833 11.31 0.00 31.32 3.36
197 198 4.221924 GCCTAGGTCCTAATGAGATCCTTC 59.778 50.000 11.31 0.00 31.32 3.46
198 199 5.650283 CCTAGGTCCTAATGAGATCCTTCT 58.350 45.833 0.00 0.00 33.88 2.85
209 210 4.734398 GAGATCCTTCTCAGCTTTCTCA 57.266 45.455 0.00 0.00 46.49 3.27
210 211 4.432712 GAGATCCTTCTCAGCTTTCTCAC 58.567 47.826 0.00 0.00 46.49 3.51
211 212 3.837146 AGATCCTTCTCAGCTTTCTCACA 59.163 43.478 0.00 0.00 0.00 3.58
212 213 3.393089 TCCTTCTCAGCTTTCTCACAC 57.607 47.619 0.00 0.00 0.00 3.82
213 214 2.064762 CCTTCTCAGCTTTCTCACACG 58.935 52.381 0.00 0.00 0.00 4.49
214 215 1.458827 CTTCTCAGCTTTCTCACACGC 59.541 52.381 0.00 0.00 0.00 5.34
216 217 0.941463 CTCAGCTTTCTCACACGCGT 60.941 55.000 5.58 5.58 0.00 6.01
217 218 0.529773 TCAGCTTTCTCACACGCGTT 60.530 50.000 10.22 0.00 0.00 4.84
218 219 1.136690 CAGCTTTCTCACACGCGTTA 58.863 50.000 10.22 0.00 0.00 3.18
223 224 3.181520 GCTTTCTCACACGCGTTATGAAT 60.182 43.478 20.19 0.00 0.00 2.57
224 225 4.032445 GCTTTCTCACACGCGTTATGAATA 59.968 41.667 20.19 11.10 0.00 1.75
225 226 5.696260 TTTCTCACACGCGTTATGAATAG 57.304 39.130 20.19 11.40 0.00 1.73
226 227 4.625972 TCTCACACGCGTTATGAATAGA 57.374 40.909 20.19 13.13 0.00 1.98
227 228 5.183014 TCTCACACGCGTTATGAATAGAT 57.817 39.130 20.19 0.00 0.00 1.98
229 230 6.040247 TCTCACACGCGTTATGAATAGATTT 58.960 36.000 20.19 0.00 0.00 2.17
231 232 5.808030 TCACACGCGTTATGAATAGATTTGA 59.192 36.000 18.17 0.00 0.00 2.69
232 233 6.019881 TCACACGCGTTATGAATAGATTTGAG 60.020 38.462 18.17 0.54 0.00 3.02
234 235 4.085055 ACGCGTTATGAATAGATTTGAGCG 60.085 41.667 5.58 0.00 46.67 5.03
235 236 4.664139 CGCGTTATGAATAGATTTGAGCGG 60.664 45.833 0.00 0.00 39.18 5.52
236 237 4.211374 GCGTTATGAATAGATTTGAGCGGT 59.789 41.667 0.00 0.00 0.00 5.68
238 239 5.333339 CGTTATGAATAGATTTGAGCGGTGG 60.333 44.000 0.00 0.00 0.00 4.61
239 240 3.904800 TGAATAGATTTGAGCGGTGGA 57.095 42.857 0.00 0.00 0.00 4.02
241 242 3.450817 TGAATAGATTTGAGCGGTGGAGA 59.549 43.478 0.00 0.00 0.00 3.71
243 244 5.304357 TGAATAGATTTGAGCGGTGGAGATA 59.696 40.000 0.00 0.00 0.00 1.98
245 246 2.766263 AGATTTGAGCGGTGGAGATACA 59.234 45.455 0.00 0.00 0.00 2.29
246 247 2.380084 TTTGAGCGGTGGAGATACAC 57.620 50.000 0.00 0.00 40.60 2.90
247 248 0.172578 TTGAGCGGTGGAGATACACG 59.827 55.000 0.00 0.00 42.23 4.49
248 249 1.589196 GAGCGGTGGAGATACACGC 60.589 63.158 0.00 0.00 42.23 5.34
250 251 1.878522 GCGGTGGAGATACACGCTG 60.879 63.158 0.00 0.00 42.23 5.18
251 252 1.511305 CGGTGGAGATACACGCTGT 59.489 57.895 0.00 0.00 42.23 4.40
252 253 0.802222 CGGTGGAGATACACGCTGTG 60.802 60.000 7.07 7.07 42.23 3.66
253 254 0.530744 GGTGGAGATACACGCTGTGA 59.469 55.000 14.18 0.99 42.23 3.58
254 255 1.067142 GGTGGAGATACACGCTGTGAA 60.067 52.381 14.18 0.00 42.23 3.18
255 256 1.993370 GTGGAGATACACGCTGTGAAC 59.007 52.381 14.18 6.21 36.96 3.18
256 257 1.269166 GGAGATACACGCTGTGAACG 58.731 55.000 14.18 0.00 36.96 3.95
257 258 1.269166 GAGATACACGCTGTGAACGG 58.731 55.000 14.18 0.00 36.96 4.44
258 259 0.885879 AGATACACGCTGTGAACGGA 59.114 50.000 14.18 0.00 36.96 4.69
259 260 1.271379 AGATACACGCTGTGAACGGAA 59.729 47.619 14.18 0.00 36.96 4.30
260 261 1.389106 GATACACGCTGTGAACGGAAC 59.611 52.381 14.18 0.00 36.96 3.62
275 276 1.822581 GGAACGCGAATGTAAATGCC 58.177 50.000 15.93 0.00 0.00 4.40
276 277 1.400494 GGAACGCGAATGTAAATGCCT 59.600 47.619 15.93 0.00 0.00 4.75
277 278 2.159435 GGAACGCGAATGTAAATGCCTT 60.159 45.455 15.93 0.00 0.00 4.35
278 279 3.498082 GAACGCGAATGTAAATGCCTTT 58.502 40.909 15.93 0.00 0.00 3.11
279 280 3.569250 ACGCGAATGTAAATGCCTTTT 57.431 38.095 15.93 0.00 0.00 2.27
280 281 3.498082 ACGCGAATGTAAATGCCTTTTC 58.502 40.909 15.93 0.00 0.00 2.29
281 282 2.851824 CGCGAATGTAAATGCCTTTTCC 59.148 45.455 0.00 0.00 0.00 3.13
282 283 2.851824 GCGAATGTAAATGCCTTTTCCG 59.148 45.455 0.00 0.00 0.00 4.30
284 285 3.127895 CGAATGTAAATGCCTTTTCCGGA 59.872 43.478 0.00 0.00 0.00 5.14
285 286 4.202010 CGAATGTAAATGCCTTTTCCGGAT 60.202 41.667 4.15 0.00 0.00 4.18
286 287 4.654091 ATGTAAATGCCTTTTCCGGATG 57.346 40.909 4.15 0.00 0.00 3.51
287 288 3.691575 TGTAAATGCCTTTTCCGGATGA 58.308 40.909 4.15 0.00 0.00 2.92
289 290 4.338118 TGTAAATGCCTTTTCCGGATGATC 59.662 41.667 4.15 0.00 0.00 2.92
290 291 2.734755 ATGCCTTTTCCGGATGATCA 57.265 45.000 4.15 0.00 0.00 2.92
292 293 1.281867 TGCCTTTTCCGGATGATCACT 59.718 47.619 4.15 0.00 0.00 3.41
294 295 2.680805 GCCTTTTCCGGATGATCACTGA 60.681 50.000 4.15 0.00 0.00 3.41
295 296 3.609853 CCTTTTCCGGATGATCACTGAA 58.390 45.455 4.15 0.00 0.00 3.02
310 4390 4.096681 TCACTGAATCAGGGTATCTGTGT 58.903 43.478 12.75 0.00 43.76 3.72
311 4391 4.160439 TCACTGAATCAGGGTATCTGTGTC 59.840 45.833 12.75 0.00 43.76 3.67
312 4392 4.161189 CACTGAATCAGGGTATCTGTGTCT 59.839 45.833 15.38 0.00 43.76 3.41
313 4393 4.404073 ACTGAATCAGGGTATCTGTGTCTC 59.596 45.833 15.38 0.00 43.76 3.36
314 4394 4.614475 TGAATCAGGGTATCTGTGTCTCT 58.386 43.478 0.00 0.00 43.76 3.10
315 4395 4.646945 TGAATCAGGGTATCTGTGTCTCTC 59.353 45.833 0.00 0.00 43.76 3.20
349 4429 4.381932 GCCCGAGATTTTGTGATCCATTTT 60.382 41.667 0.00 0.00 0.00 1.82
2205 8757 8.920665 CAAAGAGTGTAATGAAACTCTCTACTG 58.079 37.037 3.10 4.07 32.92 2.74
2206 8758 8.410673 AAGAGTGTAATGAAACTCTCTACTGA 57.589 34.615 3.10 0.00 32.92 3.41
2207 8759 8.050778 AGAGTGTAATGAAACTCTCTACTGAG 57.949 38.462 0.00 0.00 41.51 3.35
2255 8839 6.820656 AGCCATCTATGTAAATGCTAGCATAC 59.179 38.462 29.77 24.01 35.31 2.39
2601 9208 6.267242 AGCAGCAGAAATCTATAGAGTGATGA 59.733 38.462 18.97 0.00 0.00 2.92
2625 9261 9.617523 TGATGCAGATTTCATGAGAACTTATAA 57.382 29.630 0.00 0.00 32.39 0.98
2691 9411 3.011566 TCAGTGTGTGTTTCCACCATT 57.988 42.857 0.00 0.00 41.09 3.16
2732 9527 1.203523 AGACATCGAGCTGTGGAAGAC 59.796 52.381 0.00 0.00 0.00 3.01
2733 9528 0.247736 ACATCGAGCTGTGGAAGACC 59.752 55.000 0.00 0.00 0.00 3.85
2735 9530 0.534412 ATCGAGCTGTGGAAGACCTG 59.466 55.000 0.00 0.00 37.04 4.00
2737 9532 1.372683 GAGCTGTGGAAGACCTGCA 59.627 57.895 0.00 0.00 37.04 4.41
2820 9632 1.271001 TGGTGTGGATCTGCTCTGTTG 60.271 52.381 0.00 0.00 0.00 3.33
2945 9757 2.507110 ATCGCCGGATCGCCCATTAG 62.507 60.000 5.05 0.00 34.14 1.73
2956 9768 1.322538 GCCCATTAGTGTTGGCCTGG 61.323 60.000 3.32 0.00 37.94 4.45
2960 9772 2.231235 CCATTAGTGTTGGCCTGGTTTC 59.769 50.000 3.32 0.00 0.00 2.78
2996 9808 3.438087 GTCATTGTCCACATGTTCAGAGG 59.562 47.826 0.00 0.00 0.00 3.69
3060 9872 1.879380 GAGTGCTGGCATGTTGTTACA 59.121 47.619 0.00 0.00 38.95 2.41
3062 9874 1.879380 GTGCTGGCATGTTGTTACAGA 59.121 47.619 0.00 0.00 37.77 3.41
3063 9875 1.879380 TGCTGGCATGTTGTTACAGAC 59.121 47.619 0.00 0.00 37.77 3.51
3065 9877 0.871722 TGGCATGTTGTTACAGACGC 59.128 50.000 0.00 0.00 37.77 5.19
3066 9878 1.156736 GGCATGTTGTTACAGACGCT 58.843 50.000 0.00 0.00 37.77 5.07
3067 9879 1.128692 GGCATGTTGTTACAGACGCTC 59.871 52.381 0.00 0.00 37.77 5.03
3068 9880 1.798223 GCATGTTGTTACAGACGCTCA 59.202 47.619 0.00 0.00 37.77 4.26
3069 9881 2.159787 GCATGTTGTTACAGACGCTCAG 60.160 50.000 0.00 0.00 37.77 3.35
3070 9882 2.882927 TGTTGTTACAGACGCTCAGT 57.117 45.000 0.00 0.00 0.00 3.41
3071 9883 3.173668 TGTTGTTACAGACGCTCAGTT 57.826 42.857 0.00 0.00 0.00 3.16
3072 9884 2.863740 TGTTGTTACAGACGCTCAGTTG 59.136 45.455 0.00 0.00 0.00 3.16
3073 9885 2.864343 GTTGTTACAGACGCTCAGTTGT 59.136 45.455 0.00 0.00 0.00 3.32
3074 9886 3.173668 TGTTACAGACGCTCAGTTGTT 57.826 42.857 0.00 0.00 0.00 2.83
3075 9887 4.310357 TGTTACAGACGCTCAGTTGTTA 57.690 40.909 0.00 0.00 0.00 2.41
3076 9888 4.878439 TGTTACAGACGCTCAGTTGTTAT 58.122 39.130 0.00 0.00 0.00 1.89
3114 9932 6.305160 CACAATTTGTGCTGTTTTTCCAAAAC 59.695 34.615 16.05 5.33 41.89 2.43
3115 9933 6.016777 ACAATTTGTGCTGTTTTTCCAAAACA 60.017 30.769 12.88 12.88 37.76 2.83
3143 9967 8.654230 AAACTGATGATAAGTATGCAGTACAG 57.346 34.615 0.00 0.00 35.73 2.74
3149 9973 8.599055 ATGATAAGTATGCAGTACAGATGTTG 57.401 34.615 0.00 0.00 35.67 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 9.748708 CCTGTTATTGAAATTGTTCTCAAAGAA 57.251 29.630 0.00 0.00 35.31 2.52
17 18 9.130661 TCCTGTTATTGAAATTGTTCTCAAAGA 57.869 29.630 0.00 0.00 35.31 2.52
18 19 9.918630 ATCCTGTTATTGAAATTGTTCTCAAAG 57.081 29.630 0.00 0.00 35.31 2.77
62 63 9.528489 AGCCTATCTTGTTGGAAGTAATTTAAA 57.472 29.630 0.00 0.00 0.00 1.52
64 65 9.832445 CTAGCCTATCTTGTTGGAAGTAATTTA 57.168 33.333 0.00 0.00 0.00 1.40
65 66 8.548877 TCTAGCCTATCTTGTTGGAAGTAATTT 58.451 33.333 0.00 0.00 0.00 1.82
66 67 8.090788 TCTAGCCTATCTTGTTGGAAGTAATT 57.909 34.615 0.00 0.00 0.00 1.40
68 69 6.895756 TCTCTAGCCTATCTTGTTGGAAGTAA 59.104 38.462 0.00 0.00 0.00 2.24
69 70 6.432581 TCTCTAGCCTATCTTGTTGGAAGTA 58.567 40.000 0.00 0.00 0.00 2.24
70 71 5.273208 TCTCTAGCCTATCTTGTTGGAAGT 58.727 41.667 0.00 0.00 0.00 3.01
72 73 5.519808 TCTCTCTAGCCTATCTTGTTGGAA 58.480 41.667 0.00 0.00 0.00 3.53
73 74 5.130705 TCTCTCTAGCCTATCTTGTTGGA 57.869 43.478 0.00 0.00 0.00 3.53
74 75 7.531857 TTATCTCTCTAGCCTATCTTGTTGG 57.468 40.000 0.00 0.00 0.00 3.77
75 76 8.801299 TGATTATCTCTCTAGCCTATCTTGTTG 58.199 37.037 0.00 0.00 0.00 3.33
76 77 8.948401 TGATTATCTCTCTAGCCTATCTTGTT 57.052 34.615 0.00 0.00 0.00 2.83
79 80 9.866655 CCTATGATTATCTCTCTAGCCTATCTT 57.133 37.037 0.00 0.00 0.00 2.40
80 81 9.236498 TCCTATGATTATCTCTCTAGCCTATCT 57.764 37.037 0.00 0.00 0.00 1.98
106 107 1.675552 CTCCGGCCGTGGAATTAATT 58.324 50.000 26.12 0.00 37.64 1.40
108 109 1.222387 CCTCCGGCCGTGGAATTAA 59.778 57.895 26.12 0.00 37.64 1.40
109 110 2.737881 CCCTCCGGCCGTGGAATTA 61.738 63.158 28.90 5.07 37.64 1.40
110 111 4.109675 CCCTCCGGCCGTGGAATT 62.110 66.667 28.90 0.00 37.64 2.17
115 116 3.675619 CTTTACCCCTCCGGCCGTG 62.676 68.421 26.12 15.93 33.26 4.94
116 117 3.396570 CTTTACCCCTCCGGCCGT 61.397 66.667 26.12 6.67 33.26 5.68
117 118 3.396570 ACTTTACCCCTCCGGCCG 61.397 66.667 21.04 21.04 33.26 6.13
118 119 1.844544 TTCACTTTACCCCTCCGGCC 61.845 60.000 0.00 0.00 33.26 6.13
119 120 0.255033 ATTCACTTTACCCCTCCGGC 59.745 55.000 0.00 0.00 33.26 6.13
121 122 3.626217 GCTAAATTCACTTTACCCCTCCG 59.374 47.826 0.00 0.00 0.00 4.63
123 124 5.475564 TGTTGCTAAATTCACTTTACCCCTC 59.524 40.000 0.00 0.00 0.00 4.30
124 125 5.390387 TGTTGCTAAATTCACTTTACCCCT 58.610 37.500 0.00 0.00 0.00 4.79
126 127 5.161358 GCTGTTGCTAAATTCACTTTACCC 58.839 41.667 0.00 0.00 36.03 3.69
127 128 4.851558 CGCTGTTGCTAAATTCACTTTACC 59.148 41.667 0.00 0.00 36.97 2.85
130 131 4.036262 TGACGCTGTTGCTAAATTCACTTT 59.964 37.500 0.00 0.00 36.97 2.66
131 132 3.563808 TGACGCTGTTGCTAAATTCACTT 59.436 39.130 0.00 0.00 36.97 3.16
133 134 3.226347 GTGACGCTGTTGCTAAATTCAC 58.774 45.455 0.00 0.00 36.97 3.18
134 135 2.225491 GGTGACGCTGTTGCTAAATTCA 59.775 45.455 0.00 0.00 36.97 2.57
135 136 2.484264 AGGTGACGCTGTTGCTAAATTC 59.516 45.455 0.00 0.00 36.97 2.17
136 137 2.504367 AGGTGACGCTGTTGCTAAATT 58.496 42.857 0.00 0.00 36.97 1.82
138 139 2.823924 TAGGTGACGCTGTTGCTAAA 57.176 45.000 0.00 0.00 36.97 1.85
139 140 3.328382 AATAGGTGACGCTGTTGCTAA 57.672 42.857 0.00 0.00 36.97 3.09
140 141 3.446161 AGTAATAGGTGACGCTGTTGCTA 59.554 43.478 1.26 0.00 36.97 3.49
141 142 2.233922 AGTAATAGGTGACGCTGTTGCT 59.766 45.455 0.00 0.00 36.97 3.91
143 144 2.930040 CCAGTAATAGGTGACGCTGTTG 59.070 50.000 0.00 0.00 0.00 3.33
144 145 2.829720 TCCAGTAATAGGTGACGCTGTT 59.170 45.455 0.00 0.00 0.00 3.16
145 146 2.165845 GTCCAGTAATAGGTGACGCTGT 59.834 50.000 0.00 0.00 0.00 4.40
148 149 2.953466 TGTCCAGTAATAGGTGACGC 57.047 50.000 0.00 0.00 0.00 5.19
150 151 5.662674 AGTCTTGTCCAGTAATAGGTGAC 57.337 43.478 0.00 0.00 0.00 3.67
154 155 4.896482 AGGCTAGTCTTGTCCAGTAATAGG 59.104 45.833 0.00 0.00 0.00 2.57
156 157 6.069331 CCTAGGCTAGTCTTGTCCAGTAATA 58.931 44.000 19.68 0.00 0.00 0.98
159 160 3.268856 ACCTAGGCTAGTCTTGTCCAGTA 59.731 47.826 19.68 0.00 0.00 2.74
160 161 2.043252 ACCTAGGCTAGTCTTGTCCAGT 59.957 50.000 19.68 4.82 0.00 4.00
162 163 2.623502 GGACCTAGGCTAGTCTTGTCCA 60.624 54.545 28.38 2.80 37.39 4.02
164 165 3.021177 AGGACCTAGGCTAGTCTTGTC 57.979 52.381 19.68 17.57 33.39 3.18
165 166 4.604784 TTAGGACCTAGGCTAGTCTTGT 57.395 45.455 19.68 10.46 33.39 3.16
166 167 5.141182 TCATTAGGACCTAGGCTAGTCTTG 58.859 45.833 19.68 0.00 33.39 3.02
167 168 5.134679 TCTCATTAGGACCTAGGCTAGTCTT 59.865 44.000 19.68 14.81 33.39 3.01
168 169 4.665957 TCTCATTAGGACCTAGGCTAGTCT 59.334 45.833 19.68 15.22 33.39 3.24
169 170 4.988029 TCTCATTAGGACCTAGGCTAGTC 58.012 47.826 19.68 15.71 0.00 2.59
170 171 5.517655 GGATCTCATTAGGACCTAGGCTAGT 60.518 48.000 19.68 8.38 0.00 2.57
171 172 4.953579 GGATCTCATTAGGACCTAGGCTAG 59.046 50.000 14.77 14.77 0.00 3.42
172 173 4.608473 AGGATCTCATTAGGACCTAGGCTA 59.392 45.833 9.30 0.00 30.72 3.93
174 175 3.785364 AGGATCTCATTAGGACCTAGGC 58.215 50.000 9.30 1.17 30.72 3.93
175 176 5.650283 AGAAGGATCTCATTAGGACCTAGG 58.350 45.833 7.41 7.41 31.69 3.02
189 190 3.837146 TGTGAGAAAGCTGAGAAGGATCT 59.163 43.478 0.00 0.00 39.10 2.75
190 191 3.932089 GTGTGAGAAAGCTGAGAAGGATC 59.068 47.826 0.00 0.00 0.00 3.36
194 195 1.458827 GCGTGTGAGAAAGCTGAGAAG 59.541 52.381 0.00 0.00 0.00 2.85
195 196 1.502231 GCGTGTGAGAAAGCTGAGAA 58.498 50.000 0.00 0.00 0.00 2.87
196 197 0.664466 CGCGTGTGAGAAAGCTGAGA 60.664 55.000 0.00 0.00 0.00 3.27
197 198 0.941463 ACGCGTGTGAGAAAGCTGAG 60.941 55.000 12.93 0.00 0.00 3.35
198 199 0.529773 AACGCGTGTGAGAAAGCTGA 60.530 50.000 14.98 0.00 0.00 4.26
201 202 1.724623 TCATAACGCGTGTGAGAAAGC 59.275 47.619 14.98 0.00 0.00 3.51
203 204 5.404096 TCTATTCATAACGCGTGTGAGAAA 58.596 37.500 14.98 6.37 0.00 2.52
204 205 4.989044 TCTATTCATAACGCGTGTGAGAA 58.011 39.130 14.98 15.42 0.00 2.87
205 206 4.625972 TCTATTCATAACGCGTGTGAGA 57.374 40.909 14.98 11.37 0.00 3.27
206 207 5.890110 AATCTATTCATAACGCGTGTGAG 57.110 39.130 14.98 9.19 0.00 3.51
207 208 5.808030 TCAAATCTATTCATAACGCGTGTGA 59.192 36.000 14.98 18.10 0.00 3.58
209 210 5.276868 GCTCAAATCTATTCATAACGCGTGT 60.277 40.000 14.98 5.77 0.00 4.49
210 211 5.133264 GCTCAAATCTATTCATAACGCGTG 58.867 41.667 14.98 0.00 0.00 5.34
211 212 4.085055 CGCTCAAATCTATTCATAACGCGT 60.085 41.667 5.58 5.58 0.00 6.01
212 213 4.377758 CGCTCAAATCTATTCATAACGCG 58.622 43.478 3.53 3.53 0.00 6.01
213 214 4.211374 ACCGCTCAAATCTATTCATAACGC 59.789 41.667 0.00 0.00 0.00 4.84
214 215 5.333339 CCACCGCTCAAATCTATTCATAACG 60.333 44.000 0.00 0.00 0.00 3.18
216 217 5.924356 TCCACCGCTCAAATCTATTCATAA 58.076 37.500 0.00 0.00 0.00 1.90
217 218 5.304357 TCTCCACCGCTCAAATCTATTCATA 59.696 40.000 0.00 0.00 0.00 2.15
218 219 4.101585 TCTCCACCGCTCAAATCTATTCAT 59.898 41.667 0.00 0.00 0.00 2.57
223 224 3.958147 TGTATCTCCACCGCTCAAATCTA 59.042 43.478 0.00 0.00 0.00 1.98
224 225 2.766263 TGTATCTCCACCGCTCAAATCT 59.234 45.455 0.00 0.00 0.00 2.40
225 226 2.866762 GTGTATCTCCACCGCTCAAATC 59.133 50.000 0.00 0.00 0.00 2.17
226 227 2.738643 CGTGTATCTCCACCGCTCAAAT 60.739 50.000 0.00 0.00 31.47 2.32
227 228 1.403647 CGTGTATCTCCACCGCTCAAA 60.404 52.381 0.00 0.00 31.47 2.69
229 230 1.807226 CGTGTATCTCCACCGCTCA 59.193 57.895 0.00 0.00 31.47 4.26
231 232 2.052690 AGCGTGTATCTCCACCGCT 61.053 57.895 0.00 0.00 39.00 5.52
232 233 1.878522 CAGCGTGTATCTCCACCGC 60.879 63.158 0.00 0.00 36.11 5.68
234 235 0.530744 TCACAGCGTGTATCTCCACC 59.469 55.000 8.22 0.00 34.79 4.61
235 236 1.993370 GTTCACAGCGTGTATCTCCAC 59.007 52.381 8.22 0.00 34.79 4.02
236 237 1.402325 CGTTCACAGCGTGTATCTCCA 60.402 52.381 8.22 0.00 34.79 3.86
238 239 1.135489 TCCGTTCACAGCGTGTATCTC 60.135 52.381 8.22 0.00 34.79 2.75
239 240 0.885879 TCCGTTCACAGCGTGTATCT 59.114 50.000 8.22 0.00 34.79 1.98
241 242 1.425412 GTTCCGTTCACAGCGTGTAT 58.575 50.000 8.22 0.00 34.79 2.29
243 244 2.235016 CGTTCCGTTCACAGCGTGT 61.235 57.895 8.22 0.00 34.79 4.49
245 246 3.335534 GCGTTCCGTTCACAGCGT 61.336 61.111 0.00 0.00 0.00 5.07
246 247 4.409588 CGCGTTCCGTTCACAGCG 62.410 66.667 0.00 0.00 41.56 5.18
247 248 1.897398 ATTCGCGTTCCGTTCACAGC 61.897 55.000 5.77 0.00 38.35 4.40
248 249 0.179250 CATTCGCGTTCCGTTCACAG 60.179 55.000 5.77 0.00 38.35 3.66
250 251 1.062258 TACATTCGCGTTCCGTTCAC 58.938 50.000 5.77 0.00 38.35 3.18
251 252 1.780806 TTACATTCGCGTTCCGTTCA 58.219 45.000 5.77 0.00 38.35 3.18
252 253 2.859870 TTTACATTCGCGTTCCGTTC 57.140 45.000 5.77 0.00 38.35 3.95
253 254 2.726681 GCATTTACATTCGCGTTCCGTT 60.727 45.455 5.77 0.00 38.35 4.44
254 255 1.201987 GCATTTACATTCGCGTTCCGT 60.202 47.619 5.77 2.04 38.35 4.69
255 256 1.452717 GCATTTACATTCGCGTTCCG 58.547 50.000 5.77 0.00 38.61 4.30
256 257 1.400494 AGGCATTTACATTCGCGTTCC 59.600 47.619 5.77 0.00 0.00 3.62
257 258 2.825086 AGGCATTTACATTCGCGTTC 57.175 45.000 5.77 0.00 0.00 3.95
258 259 3.569250 AAAGGCATTTACATTCGCGTT 57.431 38.095 5.77 0.00 34.23 4.84
259 260 3.498082 GAAAAGGCATTTACATTCGCGT 58.502 40.909 5.77 0.00 0.00 6.01
260 261 2.851824 GGAAAAGGCATTTACATTCGCG 59.148 45.455 0.00 0.00 31.61 5.87
261 262 2.851824 CGGAAAAGGCATTTACATTCGC 59.148 45.455 0.00 0.00 30.57 4.70
262 263 3.127895 TCCGGAAAAGGCATTTACATTCG 59.872 43.478 0.00 0.00 30.57 3.34
263 264 4.712122 TCCGGAAAAGGCATTTACATTC 57.288 40.909 0.00 0.00 30.57 2.67
264 265 4.709397 TCATCCGGAAAAGGCATTTACATT 59.291 37.500 9.01 0.00 30.57 2.71
265 266 4.277476 TCATCCGGAAAAGGCATTTACAT 58.723 39.130 9.01 0.00 30.57 2.29
266 267 3.691575 TCATCCGGAAAAGGCATTTACA 58.308 40.909 9.01 0.00 30.57 2.41
267 268 4.338118 TGATCATCCGGAAAAGGCATTTAC 59.662 41.667 9.01 0.00 0.00 2.01
268 269 4.338118 GTGATCATCCGGAAAAGGCATTTA 59.662 41.667 9.01 0.00 0.00 1.40
272 273 1.281867 AGTGATCATCCGGAAAAGGCA 59.718 47.619 9.01 0.08 0.00 4.75
273 274 1.672881 CAGTGATCATCCGGAAAAGGC 59.327 52.381 9.01 0.00 0.00 4.35
275 276 4.877823 TGATTCAGTGATCATCCGGAAAAG 59.122 41.667 9.01 1.12 31.35 2.27
276 277 4.842574 TGATTCAGTGATCATCCGGAAAA 58.157 39.130 9.01 0.00 31.35 2.29
277 278 4.445453 CTGATTCAGTGATCATCCGGAAA 58.555 43.478 9.01 0.00 35.62 3.13
278 279 3.181462 CCTGATTCAGTGATCATCCGGAA 60.181 47.826 9.01 0.00 35.62 4.30
279 280 2.366590 CCTGATTCAGTGATCATCCGGA 59.633 50.000 6.61 6.61 35.62 5.14
280 281 2.549563 CCCTGATTCAGTGATCATCCGG 60.550 54.545 12.54 0.00 35.62 5.14
281 282 2.103771 ACCCTGATTCAGTGATCATCCG 59.896 50.000 12.54 0.00 35.62 4.18
282 283 3.853355 ACCCTGATTCAGTGATCATCC 57.147 47.619 12.54 0.00 35.62 3.51
284 285 5.605908 ACAGATACCCTGATTCAGTGATCAT 59.394 40.000 12.54 0.00 45.78 2.45
285 286 4.964897 ACAGATACCCTGATTCAGTGATCA 59.035 41.667 12.54 0.00 45.78 2.92
286 287 5.163364 ACACAGATACCCTGATTCAGTGATC 60.163 44.000 12.54 10.96 45.78 2.92
287 288 4.718774 ACACAGATACCCTGATTCAGTGAT 59.281 41.667 12.54 2.92 45.78 3.06
289 290 4.161189 AGACACAGATACCCTGATTCAGTG 59.839 45.833 12.54 3.74 45.78 3.66
290 291 4.357325 AGACACAGATACCCTGATTCAGT 58.643 43.478 12.54 0.00 45.78 3.41
292 293 4.614475 AGAGACACAGATACCCTGATTCA 58.386 43.478 0.00 0.00 45.78 2.57
294 295 4.614475 TGAGAGACACAGATACCCTGATT 58.386 43.478 0.00 0.00 45.78 2.57
295 296 4.214310 CTGAGAGACACAGATACCCTGAT 58.786 47.826 0.00 0.00 45.78 2.90
311 4391 0.179089 CGGGCATTCCTCACTGAGAG 60.179 60.000 7.69 0.00 44.31 3.20
312 4392 0.614697 TCGGGCATTCCTCACTGAGA 60.615 55.000 7.69 0.00 0.00 3.27
313 4393 0.179089 CTCGGGCATTCCTCACTGAG 60.179 60.000 0.00 0.00 0.00 3.35
314 4394 0.614697 TCTCGGGCATTCCTCACTGA 60.615 55.000 0.00 0.00 0.00 3.41
315 4395 0.467384 ATCTCGGGCATTCCTCACTG 59.533 55.000 0.00 0.00 0.00 3.66
349 4429 1.814394 ACTAACGATCGGTAGCACACA 59.186 47.619 34.29 4.68 38.90 3.72
2205 8757 3.056536 TCCAAGCACAGTCACATCTACTC 60.057 47.826 0.00 0.00 0.00 2.59
2206 8758 2.899900 TCCAAGCACAGTCACATCTACT 59.100 45.455 0.00 0.00 0.00 2.57
2207 8759 3.319137 TCCAAGCACAGTCACATCTAC 57.681 47.619 0.00 0.00 0.00 2.59
2208 8760 5.664457 CTTATCCAAGCACAGTCACATCTA 58.336 41.667 0.00 0.00 0.00 1.98
2255 8839 6.312487 CAAGCACAATTACATCAAGAGAGTG 58.688 40.000 0.00 0.00 0.00 3.51
2365 8964 1.611977 GGAAACCAGGCCAACACTAAC 59.388 52.381 5.01 0.00 0.00 2.34
2495 9099 8.941977 ACGAATTGTGCAGTATTACTCAATAAA 58.058 29.630 8.74 2.27 0.00 1.40
2519 9123 6.857964 AGTTCATGATTTCTAAAAACAGCACG 59.142 34.615 0.00 0.00 0.00 5.34
2632 9268 9.263446 AGTCCAATTTCTGTACTAGTACCATTA 57.737 33.333 26.41 12.48 35.26 1.90
2649 9285 7.285401 ACTGAAGTACATGAACAAGTCCAATTT 59.715 33.333 0.00 0.00 0.00 1.82
2652 9288 5.527214 CACTGAAGTACATGAACAAGTCCAA 59.473 40.000 0.00 0.00 0.00 3.53
2691 9411 9.932207 ATGTCTCAAAGATTTGCATATGAAAAA 57.068 25.926 12.95 9.32 38.05 1.94
2713 9508 1.634702 GTCTTCCACAGCTCGATGTC 58.365 55.000 0.00 0.00 0.00 3.06
2732 9527 2.205022 TGTTTCATTCTCCCTGCAGG 57.795 50.000 26.87 26.87 0.00 4.85
2733 9528 4.796038 AATTGTTTCATTCTCCCTGCAG 57.204 40.909 6.78 6.78 0.00 4.41
2735 9530 5.138125 TGAAATTGTTTCATTCTCCCTGC 57.862 39.130 1.24 0.00 44.21 4.85
2945 9757 0.467290 TCAGGAAACCAGGCCAACAC 60.467 55.000 5.01 0.00 0.00 3.32
2956 9768 7.820648 ACAATGACACATAGAATTCAGGAAAC 58.179 34.615 8.44 0.00 0.00 2.78
2960 9772 5.882000 TGGACAATGACACATAGAATTCAGG 59.118 40.000 8.44 0.00 0.00 3.86
2996 9808 6.344500 ACCTCACAATTACACATCTCTCATC 58.656 40.000 0.00 0.00 0.00 2.92
3060 9872 4.258702 ACTCAATAACAACTGAGCGTCT 57.741 40.909 0.00 0.00 42.39 4.18
3062 9874 7.275779 CAGTATAACTCAATAACAACTGAGCGT 59.724 37.037 0.00 0.00 42.39 5.07
3063 9875 7.613146 CAGTATAACTCAATAACAACTGAGCG 58.387 38.462 0.00 0.00 42.39 5.03
3065 9877 8.383619 GTGCAGTATAACTCAATAACAACTGAG 58.616 37.037 0.00 0.00 43.90 3.35
3066 9878 7.875554 TGTGCAGTATAACTCAATAACAACTGA 59.124 33.333 0.00 0.00 36.13 3.41
3067 9879 8.028540 TGTGCAGTATAACTCAATAACAACTG 57.971 34.615 0.00 0.00 36.92 3.16
3068 9880 8.615878 TTGTGCAGTATAACTCAATAACAACT 57.384 30.769 0.00 0.00 0.00 3.16
3069 9881 9.840427 AATTGTGCAGTATAACTCAATAACAAC 57.160 29.630 0.00 0.00 0.00 3.32
3071 9883 9.838975 CAAATTGTGCAGTATAACTCAATAACA 57.161 29.630 0.00 0.00 0.00 2.41
3072 9884 9.840427 ACAAATTGTGCAGTATAACTCAATAAC 57.160 29.630 0.00 0.00 0.00 1.89
3073 9885 9.838975 CACAAATTGTGCAGTATAACTCAATAA 57.161 29.630 13.51 0.00 41.89 1.40
3149 9973 4.997395 TCACTCCAGATTTCTGTTGCTTAC 59.003 41.667 6.81 0.00 42.27 2.34


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.