Multiple sequence alignment - TraesCS5A01G461700

Loading Multiple Alignment...

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 TraesCS5A01G461700 chr5A 100.000 2762 0 0 1 2762 641774580 641771819 0.000000e+00 5101
1 TraesCS5A01G461700 chr7A 97.468 2014 41 4 757 2761 28239680 28241692 0.000000e+00 3428
2 TraesCS5A01G461700 chr6A 96.924 1983 49 5 789 2761 158421573 158419593 0.000000e+00 3314
3 TraesCS5A01G461700 chr6A 96.519 2011 55 10 761 2761 47630836 47632841 0.000000e+00 3312
4 TraesCS5A01G461700 chr6A 97.356 1929 34 6 831 2758 73513137 73515049 0.000000e+00 3264
5 TraesCS5A01G461700 chr6A 98.705 386 4 1 370 755 158422419 158422035 0.000000e+00 684
6 TraesCS5A01G461700 chr6A 98.842 259 3 0 2503 2761 73515586 73515844 1.940000e-126 462
7 TraesCS5A01G461700 chr7B 97.580 1942 30 6 831 2761 628739032 628740967 0.000000e+00 3310
8 TraesCS5A01G461700 chr7B 97.965 1867 29 3 905 2762 75059456 75057590 0.000000e+00 3229
9 TraesCS5A01G461700 chr7B 97.391 460 6 2 370 828 628737690 628738144 0.000000e+00 778
10 TraesCS5A01G461700 chr7B 99.239 394 3 0 371 764 75060401 75060008 0.000000e+00 712
11 TraesCS5A01G461700 chr2B 97.678 1766 32 3 1005 2761 616526696 616524931 0.000000e+00 3025
12 TraesCS5A01G461700 chr2B 98.259 402 2 1 371 772 616527988 616527592 0.000000e+00 699
13 TraesCS5A01G461700 chr2A 97.665 1670 25 4 831 2491 70024664 70023000 0.000000e+00 2856
14 TraesCS5A01G461700 chr2A 97.717 657 15 0 2105 2761 167354933 167354277 0.000000e+00 1131
15 TraesCS5A01G461700 chr2A 97.400 423 4 3 371 792 70025660 70025244 0.000000e+00 713
16 TraesCS5A01G461700 chr2A 86.331 139 16 3 6 142 14942123 14942260 6.160000e-32 148
17 TraesCS5A01G461700 chr3B 92.738 1735 50 22 372 2061 5526910 5525207 0.000000e+00 2436
18 TraesCS5A01G461700 chrUn 97.739 1371 17 4 832 2193 289564950 289563585 0.000000e+00 2348
19 TraesCS5A01G461700 chrUn 97.936 436 3 2 384 818 460548673 460549103 0.000000e+00 750
20 TraesCS5A01G461700 chrUn 96.948 426 7 2 370 795 377222537 377222118 0.000000e+00 710
21 TraesCS5A01G461700 chr6B 99.769 433 1 0 371 803 482826491 482826059 0.000000e+00 795
22 TraesCS5A01G461700 chr6B 98.684 380 5 0 370 749 482844897 482844518 0.000000e+00 675
23 TraesCS5A01G461700 chr2D 90.107 374 33 4 1 370 543164213 543163840 1.490000e-132 483
24 TraesCS5A01G461700 chr3D 89.867 375 31 3 1 370 455712804 455713176 2.490000e-130 475
25 TraesCS5A01G461700 chr3D 91.975 162 13 0 209 370 455703379 455703540 7.700000e-56 228
26 TraesCS5A01G461700 chr1A 91.908 173 14 0 198 370 513427490 513427662 2.750000e-60 243
27 TraesCS5A01G461700 chr1A 86.667 135 17 1 229 363 67734707 67734840 6.160000e-32 148
28 TraesCS5A01G461700 chr4A 86.667 135 17 1 229 363 467670460 467670593 6.160000e-32 148
29 TraesCS5A01G461700 chr4A 86.667 135 17 1 229 363 467671153 467671286 6.160000e-32 148


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 TraesCS5A01G461700 chr5A 641771819 641774580 2761 True 5101.0 5101 100.0000 1 2762 1 chr5A.!!$R1 2761
1 TraesCS5A01G461700 chr7A 28239680 28241692 2012 False 3428.0 3428 97.4680 757 2761 1 chr7A.!!$F1 2004
2 TraesCS5A01G461700 chr6A 47630836 47632841 2005 False 3312.0 3312 96.5190 761 2761 1 chr6A.!!$F1 2000
3 TraesCS5A01G461700 chr6A 158419593 158422419 2826 True 1999.0 3314 97.8145 370 2761 2 chr6A.!!$R1 2391
4 TraesCS5A01G461700 chr6A 73513137 73515844 2707 False 1863.0 3264 98.0990 831 2761 2 chr6A.!!$F2 1930
5 TraesCS5A01G461700 chr7B 628737690 628740967 3277 False 2044.0 3310 97.4855 370 2761 2 chr7B.!!$F1 2391
6 TraesCS5A01G461700 chr7B 75057590 75060401 2811 True 1970.5 3229 98.6020 371 2762 2 chr7B.!!$R1 2391
7 TraesCS5A01G461700 chr2B 616524931 616527988 3057 True 1862.0 3025 97.9685 371 2761 2 chr2B.!!$R1 2390
8 TraesCS5A01G461700 chr2A 70023000 70025660 2660 True 1784.5 2856 97.5325 371 2491 2 chr2A.!!$R2 2120
9 TraesCS5A01G461700 chr2A 167354277 167354933 656 True 1131.0 1131 97.7170 2105 2761 1 chr2A.!!$R1 656
10 TraesCS5A01G461700 chr3B 5525207 5526910 1703 True 2436.0 2436 92.7380 372 2061 1 chr3B.!!$R1 1689
11 TraesCS5A01G461700 chrUn 289563585 289564950 1365 True 2348.0 2348 97.7390 832 2193 1 chrUn.!!$R1 1361

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
154 155 0.033601 ATCAGGACCGAGCTCACTCT 60.034 55.0 15.4 2.31 41.09 3.24 F
164 165 0.339859 AGCTCACTCTGATACCCCCA 59.660 55.0 0.0 0.00 0.00 4.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1498 3293 4.547905 CGACGTGCGTAGGGCGAT 62.548 66.667 16.7 0.0 45.65 4.58 R
2009 3826 8.469309 AATTGCATACCTTATTCTGTGCTATT 57.531 30.769 0.0 0.0 34.76 1.73 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
27 28 9.967346 TGACAACGAAATGGAAATTATTTTACA 57.033 25.926 0.00 0.00 39.96 2.41
77 78 9.988815 ACCAAAATATACTACAGAAGATAGCAG 57.011 33.333 0.00 0.00 0.00 4.24
85 86 7.313951 ACTACAGAAGATAGCAGAAAAATGC 57.686 36.000 0.00 0.00 46.88 3.56
106 107 4.533225 CAGCTGTGCTTTATGAGACATC 57.467 45.455 5.25 0.00 36.40 3.06
107 108 4.190001 CAGCTGTGCTTTATGAGACATCT 58.810 43.478 5.25 0.00 36.40 2.90
108 109 4.634883 CAGCTGTGCTTTATGAGACATCTT 59.365 41.667 5.25 0.00 36.40 2.40
109 110 5.814188 CAGCTGTGCTTTATGAGACATCTTA 59.186 40.000 5.25 0.00 36.40 2.10
110 111 5.814705 AGCTGTGCTTTATGAGACATCTTAC 59.185 40.000 0.00 0.00 33.89 2.34
111 112 5.007136 GCTGTGCTTTATGAGACATCTTACC 59.993 44.000 0.00 0.00 0.00 2.85
112 113 6.299805 TGTGCTTTATGAGACATCTTACCT 57.700 37.500 0.00 0.00 0.00 3.08
113 114 6.711277 TGTGCTTTATGAGACATCTTACCTT 58.289 36.000 0.00 0.00 0.00 3.50
114 115 7.168219 TGTGCTTTATGAGACATCTTACCTTT 58.832 34.615 0.00 0.00 0.00 3.11
115 116 7.665559 TGTGCTTTATGAGACATCTTACCTTTT 59.334 33.333 0.00 0.00 0.00 2.27
116 117 7.965107 GTGCTTTATGAGACATCTTACCTTTTG 59.035 37.037 0.00 0.00 0.00 2.44
117 118 7.665559 TGCTTTATGAGACATCTTACCTTTTGT 59.334 33.333 0.00 0.00 0.00 2.83
118 119 8.515414 GCTTTATGAGACATCTTACCTTTTGTT 58.485 33.333 0.00 0.00 0.00 2.83
120 121 8.561738 TTATGAGACATCTTACCTTTTGTTCC 57.438 34.615 0.00 0.00 0.00 3.62
121 122 6.187727 TGAGACATCTTACCTTTTGTTCCT 57.812 37.500 0.00 0.00 0.00 3.36
122 123 5.997746 TGAGACATCTTACCTTTTGTTCCTG 59.002 40.000 0.00 0.00 0.00 3.86
123 124 6.183361 TGAGACATCTTACCTTTTGTTCCTGA 60.183 38.462 0.00 0.00 0.00 3.86
124 125 6.601332 AGACATCTTACCTTTTGTTCCTGAA 58.399 36.000 0.00 0.00 0.00 3.02
125 126 7.234355 AGACATCTTACCTTTTGTTCCTGAAT 58.766 34.615 0.00 0.00 0.00 2.57
126 127 8.383175 AGACATCTTACCTTTTGTTCCTGAATA 58.617 33.333 0.00 0.00 0.00 1.75
127 128 8.934023 ACATCTTACCTTTTGTTCCTGAATAA 57.066 30.769 0.00 0.00 0.00 1.40
128 129 9.533831 ACATCTTACCTTTTGTTCCTGAATAAT 57.466 29.630 0.00 0.00 0.00 1.28
131 132 9.020731 TCTTACCTTTTGTTCCTGAATAATTCC 57.979 33.333 0.00 0.00 0.00 3.01
132 133 8.950007 TTACCTTTTGTTCCTGAATAATTCCT 57.050 30.769 0.00 0.00 0.00 3.36
133 134 7.468141 ACCTTTTGTTCCTGAATAATTCCTC 57.532 36.000 0.00 0.00 0.00 3.71
134 135 7.241628 ACCTTTTGTTCCTGAATAATTCCTCT 58.758 34.615 0.00 0.00 0.00 3.69
135 136 8.390921 ACCTTTTGTTCCTGAATAATTCCTCTA 58.609 33.333 0.00 0.00 0.00 2.43
136 137 9.413734 CCTTTTGTTCCTGAATAATTCCTCTAT 57.586 33.333 0.00 0.00 0.00 1.98
138 139 9.973661 TTTTGTTCCTGAATAATTCCTCTATCA 57.026 29.630 0.00 0.00 0.00 2.15
139 140 9.618890 TTTGTTCCTGAATAATTCCTCTATCAG 57.381 33.333 0.00 0.00 0.00 2.90
140 141 7.739825 TGTTCCTGAATAATTCCTCTATCAGG 58.260 38.462 12.30 12.30 45.15 3.86
150 151 1.974265 CTCTATCAGGACCGAGCTCA 58.026 55.000 15.40 0.00 0.00 4.26
151 152 1.606668 CTCTATCAGGACCGAGCTCAC 59.393 57.143 15.40 4.29 0.00 3.51
152 153 1.213182 TCTATCAGGACCGAGCTCACT 59.787 52.381 15.40 2.92 0.00 3.41
153 154 1.606668 CTATCAGGACCGAGCTCACTC 59.393 57.143 15.40 6.81 39.75 3.51
154 155 0.033601 ATCAGGACCGAGCTCACTCT 60.034 55.000 15.40 2.31 41.09 3.24
155 156 0.962855 TCAGGACCGAGCTCACTCTG 60.963 60.000 15.40 14.37 41.09 3.35
156 157 0.962855 CAGGACCGAGCTCACTCTGA 60.963 60.000 15.40 0.00 41.09 3.27
157 158 0.033601 AGGACCGAGCTCACTCTGAT 60.034 55.000 15.40 0.00 41.09 2.90
158 159 1.213182 AGGACCGAGCTCACTCTGATA 59.787 52.381 15.40 0.00 41.09 2.15
159 160 1.335496 GGACCGAGCTCACTCTGATAC 59.665 57.143 15.40 0.00 41.09 2.24
160 161 1.335496 GACCGAGCTCACTCTGATACC 59.665 57.143 15.40 0.00 41.09 2.73
161 162 0.671251 CCGAGCTCACTCTGATACCC 59.329 60.000 15.40 0.00 41.09 3.69
162 163 0.671251 CGAGCTCACTCTGATACCCC 59.329 60.000 15.40 0.00 41.09 4.95
163 164 1.044611 GAGCTCACTCTGATACCCCC 58.955 60.000 9.40 0.00 40.03 5.40
164 165 0.339859 AGCTCACTCTGATACCCCCA 59.660 55.000 0.00 0.00 0.00 4.96
165 166 1.204146 GCTCACTCTGATACCCCCAA 58.796 55.000 0.00 0.00 0.00 4.12
166 167 1.559682 GCTCACTCTGATACCCCCAAA 59.440 52.381 0.00 0.00 0.00 3.28
167 168 2.026262 GCTCACTCTGATACCCCCAAAA 60.026 50.000 0.00 0.00 0.00 2.44
168 169 3.878778 CTCACTCTGATACCCCCAAAAG 58.121 50.000 0.00 0.00 0.00 2.27
169 170 3.256704 TCACTCTGATACCCCCAAAAGT 58.743 45.455 0.00 0.00 0.00 2.66
170 171 3.655777 TCACTCTGATACCCCCAAAAGTT 59.344 43.478 0.00 0.00 0.00 2.66
171 172 3.758554 CACTCTGATACCCCCAAAAGTTG 59.241 47.826 0.00 0.00 0.00 3.16
172 173 3.655777 ACTCTGATACCCCCAAAAGTTGA 59.344 43.478 0.00 0.00 0.00 3.18
173 174 4.105697 ACTCTGATACCCCCAAAAGTTGAA 59.894 41.667 0.00 0.00 0.00 2.69
174 175 5.222337 ACTCTGATACCCCCAAAAGTTGAAT 60.222 40.000 0.00 0.00 0.00 2.57
175 176 6.011981 ACTCTGATACCCCCAAAAGTTGAATA 60.012 38.462 0.00 0.00 0.00 1.75
176 177 6.423182 TCTGATACCCCCAAAAGTTGAATAG 58.577 40.000 0.00 0.00 0.00 1.73
177 178 6.011981 TCTGATACCCCCAAAAGTTGAATAGT 60.012 38.462 0.00 0.00 0.00 2.12
178 179 6.557568 TGATACCCCCAAAAGTTGAATAGTT 58.442 36.000 0.00 0.00 0.00 2.24
179 180 6.661805 TGATACCCCCAAAAGTTGAATAGTTC 59.338 38.462 0.00 0.00 0.00 3.01
180 181 5.074746 ACCCCCAAAAGTTGAATAGTTCT 57.925 39.130 0.00 0.00 0.00 3.01
181 182 5.077564 ACCCCCAAAAGTTGAATAGTTCTC 58.922 41.667 0.00 0.00 0.00 2.87
182 183 5.076873 CCCCCAAAAGTTGAATAGTTCTCA 58.923 41.667 0.00 0.00 0.00 3.27
183 184 5.048013 CCCCCAAAAGTTGAATAGTTCTCAC 60.048 44.000 0.00 0.00 0.00 3.51
184 185 5.534654 CCCCAAAAGTTGAATAGTTCTCACA 59.465 40.000 0.00 0.00 0.00 3.58
185 186 6.209391 CCCCAAAAGTTGAATAGTTCTCACAT 59.791 38.462 0.00 0.00 0.00 3.21
186 187 7.086376 CCCAAAAGTTGAATAGTTCTCACATG 58.914 38.462 0.00 0.00 0.00 3.21
187 188 7.086376 CCAAAAGTTGAATAGTTCTCACATGG 58.914 38.462 0.00 0.00 0.00 3.66
188 189 5.886960 AAGTTGAATAGTTCTCACATGGC 57.113 39.130 0.00 0.00 0.00 4.40
189 190 5.171339 AGTTGAATAGTTCTCACATGGCT 57.829 39.130 0.00 0.00 0.00 4.75
190 191 5.181748 AGTTGAATAGTTCTCACATGGCTC 58.818 41.667 0.00 0.00 0.00 4.70
191 192 4.824479 TGAATAGTTCTCACATGGCTCA 57.176 40.909 0.00 0.00 0.00 4.26
192 193 4.763073 TGAATAGTTCTCACATGGCTCAG 58.237 43.478 0.00 0.00 0.00 3.35
193 194 2.680312 TAGTTCTCACATGGCTCAGC 57.320 50.000 0.00 0.00 0.00 4.26
208 209 4.284378 GCTCAGCCAATCATAAACACTC 57.716 45.455 0.00 0.00 0.00 3.51
209 210 3.065925 GCTCAGCCAATCATAAACACTCC 59.934 47.826 0.00 0.00 0.00 3.85
210 211 4.264253 CTCAGCCAATCATAAACACTCCA 58.736 43.478 0.00 0.00 0.00 3.86
211 212 4.661222 TCAGCCAATCATAAACACTCCAA 58.339 39.130 0.00 0.00 0.00 3.53
212 213 5.076182 TCAGCCAATCATAAACACTCCAAA 58.924 37.500 0.00 0.00 0.00 3.28
213 214 5.716228 TCAGCCAATCATAAACACTCCAAAT 59.284 36.000 0.00 0.00 0.00 2.32
214 215 6.889177 TCAGCCAATCATAAACACTCCAAATA 59.111 34.615 0.00 0.00 0.00 1.40
215 216 6.974622 CAGCCAATCATAAACACTCCAAATAC 59.025 38.462 0.00 0.00 0.00 1.89
216 217 6.663093 AGCCAATCATAAACACTCCAAATACA 59.337 34.615 0.00 0.00 0.00 2.29
217 218 6.751888 GCCAATCATAAACACTCCAAATACAC 59.248 38.462 0.00 0.00 0.00 2.90
218 219 7.257722 CCAATCATAAACACTCCAAATACACC 58.742 38.462 0.00 0.00 0.00 4.16
219 220 7.093988 CCAATCATAAACACTCCAAATACACCA 60.094 37.037 0.00 0.00 0.00 4.17
220 221 8.303156 CAATCATAAACACTCCAAATACACCAA 58.697 33.333 0.00 0.00 0.00 3.67
221 222 8.593945 ATCATAAACACTCCAAATACACCAAT 57.406 30.769 0.00 0.00 0.00 3.16
222 223 9.693739 ATCATAAACACTCCAAATACACCAATA 57.306 29.630 0.00 0.00 0.00 1.90
223 224 9.521841 TCATAAACACTCCAAATACACCAATAA 57.478 29.630 0.00 0.00 0.00 1.40
227 228 6.687604 ACACTCCAAATACACCAATAAAAGC 58.312 36.000 0.00 0.00 0.00 3.51
228 229 6.266558 ACACTCCAAATACACCAATAAAAGCA 59.733 34.615 0.00 0.00 0.00 3.91
229 230 7.039082 ACACTCCAAATACACCAATAAAAGCAT 60.039 33.333 0.00 0.00 0.00 3.79
230 231 8.465999 CACTCCAAATACACCAATAAAAGCATA 58.534 33.333 0.00 0.00 0.00 3.14
231 232 9.200817 ACTCCAAATACACCAATAAAAGCATAT 57.799 29.630 0.00 0.00 0.00 1.78
232 233 9.467258 CTCCAAATACACCAATAAAAGCATATG 57.533 33.333 0.00 0.00 0.00 1.78
233 234 7.925483 TCCAAATACACCAATAAAAGCATATGC 59.075 33.333 20.36 20.36 42.49 3.14
234 235 7.710044 CCAAATACACCAATAAAAGCATATGCA 59.290 33.333 28.62 9.21 45.16 3.96
235 236 9.263538 CAAATACACCAATAAAAGCATATGCAT 57.736 29.630 28.62 15.43 45.16 3.96
236 237 8.821147 AATACACCAATAAAAGCATATGCATG 57.179 30.769 28.62 15.88 45.16 4.06
237 238 6.468333 ACACCAATAAAAGCATATGCATGA 57.532 33.333 28.62 11.40 45.16 3.07
238 239 6.876155 ACACCAATAAAAGCATATGCATGAA 58.124 32.000 28.62 12.23 45.16 2.57
239 240 7.329499 ACACCAATAAAAGCATATGCATGAAA 58.671 30.769 28.62 10.84 45.16 2.69
240 241 7.823310 ACACCAATAAAAGCATATGCATGAAAA 59.177 29.630 28.62 9.81 45.16 2.29
241 242 8.832521 CACCAATAAAAGCATATGCATGAAAAT 58.167 29.630 28.62 11.56 45.16 1.82
288 289 9.312904 AGCTTCTATTCTTGAGATAATAGCTCT 57.687 33.333 7.09 0.00 36.20 4.09
289 290 9.357652 GCTTCTATTCTTGAGATAATAGCTCTG 57.642 37.037 7.09 0.68 36.20 3.35
290 291 9.357652 CTTCTATTCTTGAGATAATAGCTCTGC 57.642 37.037 7.09 0.00 36.20 4.26
291 292 8.648698 TCTATTCTTGAGATAATAGCTCTGCT 57.351 34.615 7.09 0.00 43.41 4.24
292 293 8.739039 TCTATTCTTGAGATAATAGCTCTGCTC 58.261 37.037 7.09 0.00 40.44 4.26
293 294 6.975196 TTCTTGAGATAATAGCTCTGCTCT 57.025 37.500 7.09 0.00 40.44 4.09
294 295 6.330004 TCTTGAGATAATAGCTCTGCTCTG 57.670 41.667 7.09 0.00 40.44 3.35
295 296 5.832595 TCTTGAGATAATAGCTCTGCTCTGT 59.167 40.000 7.09 0.00 40.44 3.41
296 297 6.323482 TCTTGAGATAATAGCTCTGCTCTGTT 59.677 38.462 7.09 0.00 40.44 3.16
297 298 6.477053 TGAGATAATAGCTCTGCTCTGTTT 57.523 37.500 7.09 0.00 40.44 2.83
298 299 7.588497 TGAGATAATAGCTCTGCTCTGTTTA 57.412 36.000 7.09 0.00 40.44 2.01
299 300 7.429633 TGAGATAATAGCTCTGCTCTGTTTAC 58.570 38.462 7.09 0.00 40.44 2.01
300 301 7.286546 TGAGATAATAGCTCTGCTCTGTTTACT 59.713 37.037 7.09 0.00 40.44 2.24
301 302 8.017418 AGATAATAGCTCTGCTCTGTTTACTT 57.983 34.615 0.00 0.00 40.44 2.24
302 303 8.482128 AGATAATAGCTCTGCTCTGTTTACTTT 58.518 33.333 0.00 0.00 40.44 2.66
303 304 9.103861 GATAATAGCTCTGCTCTGTTTACTTTT 57.896 33.333 0.00 0.00 40.44 2.27
304 305 6.734104 ATAGCTCTGCTCTGTTTACTTTTG 57.266 37.500 0.00 0.00 40.44 2.44
305 306 4.708177 AGCTCTGCTCTGTTTACTTTTGA 58.292 39.130 0.00 0.00 30.62 2.69
306 307 5.126067 AGCTCTGCTCTGTTTACTTTTGAA 58.874 37.500 0.00 0.00 30.62 2.69
307 308 5.238214 AGCTCTGCTCTGTTTACTTTTGAAG 59.762 40.000 0.00 0.00 30.62 3.02
308 309 5.008118 GCTCTGCTCTGTTTACTTTTGAAGT 59.992 40.000 0.00 0.00 45.40 3.01
309 310 6.458888 GCTCTGCTCTGTTTACTTTTGAAGTT 60.459 38.462 0.00 0.00 42.81 2.66
310 311 7.391148 TCTGCTCTGTTTACTTTTGAAGTTT 57.609 32.000 0.00 0.00 42.81 2.66
311 312 7.472543 TCTGCTCTGTTTACTTTTGAAGTTTC 58.527 34.615 0.00 0.00 42.81 2.78
312 313 7.336931 TCTGCTCTGTTTACTTTTGAAGTTTCT 59.663 33.333 0.00 0.00 42.81 2.52
313 314 7.826690 TGCTCTGTTTACTTTTGAAGTTTCTT 58.173 30.769 0.00 0.00 42.81 2.52
314 315 7.968405 TGCTCTGTTTACTTTTGAAGTTTCTTC 59.032 33.333 0.00 2.95 42.81 2.87
315 316 7.968405 GCTCTGTTTACTTTTGAAGTTTCTTCA 59.032 33.333 7.92 7.92 42.81 3.02
317 318 9.787532 TCTGTTTACTTTTGAAGTTTCTTCATG 57.212 29.630 12.02 8.70 42.81 3.07
318 319 9.787532 CTGTTTACTTTTGAAGTTTCTTCATGA 57.212 29.630 12.02 0.00 42.81 3.07
324 325 9.956720 ACTTTTGAAGTTTCTTCATGATACAAG 57.043 29.630 12.02 9.90 39.04 3.16
327 328 9.559732 TTTGAAGTTTCTTCATGATACAAGAGA 57.440 29.630 12.02 0.00 30.32 3.10
328 329 9.730705 TTGAAGTTTCTTCATGATACAAGAGAT 57.269 29.630 12.02 0.00 30.32 2.75
329 330 9.159364 TGAAGTTTCTTCATGATACAAGAGATG 57.841 33.333 7.92 0.00 30.32 2.90
330 331 9.376075 GAAGTTTCTTCATGATACAAGAGATGA 57.624 33.333 0.00 0.00 30.32 2.92
331 332 9.730705 AAGTTTCTTCATGATACAAGAGATGAA 57.269 29.630 0.00 0.00 34.47 2.57
332 333 9.160496 AGTTTCTTCATGATACAAGAGATGAAC 57.840 33.333 0.00 0.00 32.67 3.18
333 334 8.394121 GTTTCTTCATGATACAAGAGATGAACC 58.606 37.037 0.00 0.00 32.67 3.62
334 335 7.429374 TCTTCATGATACAAGAGATGAACCT 57.571 36.000 0.00 0.00 32.67 3.50
335 336 7.270779 TCTTCATGATACAAGAGATGAACCTG 58.729 38.462 0.00 0.00 32.67 4.00
336 337 5.363101 TCATGATACAAGAGATGAACCTGC 58.637 41.667 0.00 0.00 0.00 4.85
337 338 4.824479 TGATACAAGAGATGAACCTGCA 57.176 40.909 0.00 0.00 0.00 4.41
338 339 5.363562 TGATACAAGAGATGAACCTGCAT 57.636 39.130 0.00 0.00 0.00 3.96
339 340 5.121105 TGATACAAGAGATGAACCTGCATG 58.879 41.667 0.00 0.00 0.00 4.06
340 341 3.430042 ACAAGAGATGAACCTGCATGT 57.570 42.857 0.00 0.00 0.00 3.21
341 342 4.558226 ACAAGAGATGAACCTGCATGTA 57.442 40.909 0.00 0.00 0.00 2.29
342 343 4.910195 ACAAGAGATGAACCTGCATGTAA 58.090 39.130 0.00 0.00 0.00 2.41
343 344 5.316167 ACAAGAGATGAACCTGCATGTAAA 58.684 37.500 0.00 0.00 0.00 2.01
344 345 5.413833 ACAAGAGATGAACCTGCATGTAAAG 59.586 40.000 0.00 0.00 0.00 1.85
345 346 5.426689 AGAGATGAACCTGCATGTAAAGA 57.573 39.130 0.00 0.00 0.00 2.52
346 347 5.181748 AGAGATGAACCTGCATGTAAAGAC 58.818 41.667 0.00 0.00 0.00 3.01
347 348 4.910195 AGATGAACCTGCATGTAAAGACA 58.090 39.130 0.00 0.00 40.72 3.41
348 349 4.697352 AGATGAACCTGCATGTAAAGACAC 59.303 41.667 0.00 0.00 38.76 3.67
349 350 4.085357 TGAACCTGCATGTAAAGACACT 57.915 40.909 0.00 0.00 38.76 3.55
350 351 3.814842 TGAACCTGCATGTAAAGACACTG 59.185 43.478 0.00 0.00 38.76 3.66
351 352 3.769739 ACCTGCATGTAAAGACACTGA 57.230 42.857 0.00 0.00 38.76 3.41
352 353 3.668447 ACCTGCATGTAAAGACACTGAG 58.332 45.455 0.00 0.00 38.76 3.35
353 354 3.071602 ACCTGCATGTAAAGACACTGAGT 59.928 43.478 0.00 0.00 38.76 3.41
354 355 4.067896 CCTGCATGTAAAGACACTGAGTT 58.932 43.478 0.00 0.00 38.76 3.01
355 356 4.083643 CCTGCATGTAAAGACACTGAGTTG 60.084 45.833 0.00 0.00 38.76 3.16
356 357 4.702831 TGCATGTAAAGACACTGAGTTGA 58.297 39.130 0.00 0.00 38.76 3.18
357 358 5.122519 TGCATGTAAAGACACTGAGTTGAA 58.877 37.500 0.00 0.00 38.76 2.69
358 359 5.237127 TGCATGTAAAGACACTGAGTTGAAG 59.763 40.000 0.00 0.00 38.76 3.02
359 360 5.466728 GCATGTAAAGACACTGAGTTGAAGA 59.533 40.000 0.00 0.00 38.76 2.87
360 361 6.148480 GCATGTAAAGACACTGAGTTGAAGAT 59.852 38.462 0.00 0.00 38.76 2.40
361 362 7.623089 GCATGTAAAGACACTGAGTTGAAGATC 60.623 40.741 0.00 0.00 38.76 2.75
362 363 7.055667 TGTAAAGACACTGAGTTGAAGATCT 57.944 36.000 0.00 0.00 0.00 2.75
363 364 7.148641 TGTAAAGACACTGAGTTGAAGATCTC 58.851 38.462 0.00 0.00 0.00 2.75
364 365 6.418057 AAAGACACTGAGTTGAAGATCTCT 57.582 37.500 0.00 0.00 0.00 3.10
365 366 6.418057 AAGACACTGAGTTGAAGATCTCTT 57.582 37.500 0.00 0.00 39.23 2.85
366 367 6.418057 AGACACTGAGTTGAAGATCTCTTT 57.582 37.500 0.00 0.00 36.11 2.52
367 368 6.825610 AGACACTGAGTTGAAGATCTCTTTT 58.174 36.000 0.00 0.00 36.11 2.27
368 369 7.278875 AGACACTGAGTTGAAGATCTCTTTTT 58.721 34.615 0.00 0.00 36.11 1.94
818 1292 3.057337 CCTCGTCCCCTCGTTTGT 58.943 61.111 0.00 0.00 0.00 2.83
820 1294 1.663739 CTCGTCCCCTCGTTTGTCA 59.336 57.895 0.00 0.00 0.00 3.58
903 1881 3.060602 GCCGTCTGCCTATAAATCTCAC 58.939 50.000 0.00 0.00 0.00 3.51
1270 2248 1.302192 GGCAAAGACTACGCCACCA 60.302 57.895 9.64 0.00 45.52 4.17
1498 3293 1.727511 CGATACGCCGGGTTACCTCA 61.728 60.000 2.18 0.00 33.28 3.86
1510 3305 1.038681 TTACCTCATCGCCCTACGCA 61.039 55.000 0.00 0.00 43.23 5.24
2547 5157 1.674651 CGGAGAGGTGTGACCGAGA 60.675 63.158 0.00 0.00 46.94 4.04
2575 5185 1.001887 GGCCATACCGAAACCACCA 60.002 57.895 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 9.967346 TGTAAAATAATTTCCATTTCGTTGTCA 57.033 25.926 0.00 0.00 0.00 3.58
51 52 9.988815 CTGCTATCTTCTGTAGTATATTTTGGT 57.011 33.333 0.00 0.00 0.00 3.67
59 60 9.050601 GCATTTTTCTGCTATCTTCTGTAGTAT 57.949 33.333 0.00 0.00 39.12 2.12
60 61 8.040727 TGCATTTTTCTGCTATCTTCTGTAGTA 58.959 33.333 0.00 0.00 42.75 1.82
61 62 6.881065 TGCATTTTTCTGCTATCTTCTGTAGT 59.119 34.615 0.00 0.00 42.75 2.73
62 63 7.312657 TGCATTTTTCTGCTATCTTCTGTAG 57.687 36.000 0.00 0.00 42.75 2.74
63 64 6.183360 GCTGCATTTTTCTGCTATCTTCTGTA 60.183 38.462 0.00 0.00 42.75 2.74
64 65 5.392811 GCTGCATTTTTCTGCTATCTTCTGT 60.393 40.000 0.00 0.00 42.75 3.41
65 66 5.035443 GCTGCATTTTTCTGCTATCTTCTG 58.965 41.667 0.00 0.00 42.75 3.02
66 67 4.948621 AGCTGCATTTTTCTGCTATCTTCT 59.051 37.500 1.02 0.00 42.75 2.85
67 68 5.035443 CAGCTGCATTTTTCTGCTATCTTC 58.965 41.667 0.00 0.00 42.75 2.87
68 69 4.461781 ACAGCTGCATTTTTCTGCTATCTT 59.538 37.500 15.27 0.00 42.75 2.40
69 70 4.015084 ACAGCTGCATTTTTCTGCTATCT 58.985 39.130 15.27 0.00 42.75 1.98
70 71 4.103357 CACAGCTGCATTTTTCTGCTATC 58.897 43.478 15.27 0.00 42.75 2.08
71 72 3.675228 GCACAGCTGCATTTTTCTGCTAT 60.675 43.478 15.27 0.00 43.62 2.97
72 73 2.352030 GCACAGCTGCATTTTTCTGCTA 60.352 45.455 15.27 0.00 43.62 3.49
73 74 1.604693 GCACAGCTGCATTTTTCTGCT 60.605 47.619 15.27 0.00 43.62 4.24
74 75 0.788391 GCACAGCTGCATTTTTCTGC 59.212 50.000 15.27 9.87 43.62 4.26
75 76 2.433868 AGCACAGCTGCATTTTTCTG 57.566 45.000 15.27 2.68 46.97 3.02
76 77 3.464111 AAAGCACAGCTGCATTTTTCT 57.536 38.095 15.27 0.00 46.97 2.52
77 78 4.925054 TCATAAAGCACAGCTGCATTTTTC 59.075 37.500 15.27 0.00 46.97 2.29
78 79 4.885413 TCATAAAGCACAGCTGCATTTTT 58.115 34.783 15.27 11.83 46.97 1.94
79 80 4.219070 TCTCATAAAGCACAGCTGCATTTT 59.781 37.500 15.27 13.57 46.97 1.82
80 81 3.760151 TCTCATAAAGCACAGCTGCATTT 59.240 39.130 15.27 14.32 46.97 2.32
81 82 3.128242 GTCTCATAAAGCACAGCTGCATT 59.872 43.478 15.27 3.42 46.97 3.56
82 83 2.681848 GTCTCATAAAGCACAGCTGCAT 59.318 45.455 15.27 0.00 46.97 3.96
83 84 2.079158 GTCTCATAAAGCACAGCTGCA 58.921 47.619 15.27 0.00 46.97 4.41
84 85 2.079158 TGTCTCATAAAGCACAGCTGC 58.921 47.619 15.27 0.57 44.63 5.25
85 86 4.190001 AGATGTCTCATAAAGCACAGCTG 58.810 43.478 13.48 13.48 39.62 4.24
86 87 4.484537 AGATGTCTCATAAAGCACAGCT 57.515 40.909 0.00 0.00 42.56 4.24
87 88 5.007136 GGTAAGATGTCTCATAAAGCACAGC 59.993 44.000 0.00 0.00 0.00 4.40
88 89 6.344500 AGGTAAGATGTCTCATAAAGCACAG 58.656 40.000 0.00 0.00 0.00 3.66
89 90 6.299805 AGGTAAGATGTCTCATAAAGCACA 57.700 37.500 0.00 0.00 0.00 4.57
90 91 7.617041 AAAGGTAAGATGTCTCATAAAGCAC 57.383 36.000 0.00 0.00 0.00 4.40
91 92 7.665559 ACAAAAGGTAAGATGTCTCATAAAGCA 59.334 33.333 0.00 0.00 0.00 3.91
92 93 8.045176 ACAAAAGGTAAGATGTCTCATAAAGC 57.955 34.615 0.00 0.00 0.00 3.51
94 95 9.010029 GGAACAAAAGGTAAGATGTCTCATAAA 57.990 33.333 0.00 0.00 0.00 1.40
95 96 8.383175 AGGAACAAAAGGTAAGATGTCTCATAA 58.617 33.333 0.00 0.00 0.00 1.90
96 97 7.824289 CAGGAACAAAAGGTAAGATGTCTCATA 59.176 37.037 0.00 0.00 0.00 2.15
97 98 6.656693 CAGGAACAAAAGGTAAGATGTCTCAT 59.343 38.462 0.00 0.00 0.00 2.90
98 99 5.997746 CAGGAACAAAAGGTAAGATGTCTCA 59.002 40.000 0.00 0.00 0.00 3.27
99 100 6.231211 TCAGGAACAAAAGGTAAGATGTCTC 58.769 40.000 0.00 0.00 0.00 3.36
100 101 6.187727 TCAGGAACAAAAGGTAAGATGTCT 57.812 37.500 0.00 0.00 0.00 3.41
101 102 6.877611 TTCAGGAACAAAAGGTAAGATGTC 57.122 37.500 0.00 0.00 0.00 3.06
102 103 8.934023 TTATTCAGGAACAAAAGGTAAGATGT 57.066 30.769 0.00 0.00 0.00 3.06
105 106 9.020731 GGAATTATTCAGGAACAAAAGGTAAGA 57.979 33.333 7.29 0.00 0.00 2.10
106 107 9.025041 AGGAATTATTCAGGAACAAAAGGTAAG 57.975 33.333 7.29 0.00 0.00 2.34
107 108 8.950007 AGGAATTATTCAGGAACAAAAGGTAA 57.050 30.769 7.29 0.00 0.00 2.85
108 109 8.390921 AGAGGAATTATTCAGGAACAAAAGGTA 58.609 33.333 7.29 0.00 0.00 3.08
109 110 7.241628 AGAGGAATTATTCAGGAACAAAAGGT 58.758 34.615 7.29 0.00 0.00 3.50
110 111 7.709149 AGAGGAATTATTCAGGAACAAAAGG 57.291 36.000 7.29 0.00 0.00 3.11
112 113 9.973661 TGATAGAGGAATTATTCAGGAACAAAA 57.026 29.630 7.29 0.00 0.00 2.44
113 114 9.618890 CTGATAGAGGAATTATTCAGGAACAAA 57.381 33.333 7.29 0.00 0.00 2.83
114 115 8.213679 CCTGATAGAGGAATTATTCAGGAACAA 58.786 37.037 10.53 0.00 46.33 2.83
115 116 7.739825 CCTGATAGAGGAATTATTCAGGAACA 58.260 38.462 10.53 0.00 46.33 3.18
130 131 1.243902 GAGCTCGGTCCTGATAGAGG 58.756 60.000 0.00 0.00 44.45 3.69
131 132 1.606668 GTGAGCTCGGTCCTGATAGAG 59.393 57.143 9.64 0.00 0.00 2.43
132 133 1.213182 AGTGAGCTCGGTCCTGATAGA 59.787 52.381 9.64 0.00 0.00 1.98
133 134 1.606668 GAGTGAGCTCGGTCCTGATAG 59.393 57.143 9.64 0.00 31.39 2.08
134 135 1.213182 AGAGTGAGCTCGGTCCTGATA 59.787 52.381 9.64 0.00 46.03 2.15
135 136 0.033601 AGAGTGAGCTCGGTCCTGAT 60.034 55.000 9.64 0.00 46.03 2.90
136 137 0.962855 CAGAGTGAGCTCGGTCCTGA 60.963 60.000 9.64 0.00 46.03 3.86
137 138 0.962855 TCAGAGTGAGCTCGGTCCTG 60.963 60.000 9.64 13.00 46.03 3.86
138 139 0.033601 ATCAGAGTGAGCTCGGTCCT 60.034 55.000 9.64 1.86 46.03 3.85
139 140 1.335496 GTATCAGAGTGAGCTCGGTCC 59.665 57.143 9.64 0.00 46.03 4.46
140 141 1.335496 GGTATCAGAGTGAGCTCGGTC 59.665 57.143 9.64 8.13 46.03 4.79
141 142 1.394618 GGTATCAGAGTGAGCTCGGT 58.605 55.000 9.64 0.00 46.03 4.69
142 143 0.671251 GGGTATCAGAGTGAGCTCGG 59.329 60.000 9.64 0.00 46.03 4.63
143 144 0.671251 GGGGTATCAGAGTGAGCTCG 59.329 60.000 9.64 0.00 46.03 5.03
144 145 1.044611 GGGGGTATCAGAGTGAGCTC 58.955 60.000 6.82 6.82 41.94 4.09
145 146 0.339859 TGGGGGTATCAGAGTGAGCT 59.660 55.000 0.00 0.00 0.00 4.09
146 147 1.204146 TTGGGGGTATCAGAGTGAGC 58.796 55.000 0.00 0.00 0.00 4.26
147 148 3.264450 ACTTTTGGGGGTATCAGAGTGAG 59.736 47.826 0.00 0.00 0.00 3.51
148 149 3.256704 ACTTTTGGGGGTATCAGAGTGA 58.743 45.455 0.00 0.00 0.00 3.41
149 150 3.721087 ACTTTTGGGGGTATCAGAGTG 57.279 47.619 0.00 0.00 0.00 3.51
150 151 3.655777 TCAACTTTTGGGGGTATCAGAGT 59.344 43.478 0.00 0.00 0.00 3.24
151 152 4.301072 TCAACTTTTGGGGGTATCAGAG 57.699 45.455 0.00 0.00 0.00 3.35
152 153 4.733077 TTCAACTTTTGGGGGTATCAGA 57.267 40.909 0.00 0.00 0.00 3.27
153 154 6.187682 ACTATTCAACTTTTGGGGGTATCAG 58.812 40.000 0.00 0.00 0.00 2.90
154 155 6.147437 ACTATTCAACTTTTGGGGGTATCA 57.853 37.500 0.00 0.00 0.00 2.15
155 156 6.890268 AGAACTATTCAACTTTTGGGGGTATC 59.110 38.462 0.00 0.00 0.00 2.24
156 157 6.800890 AGAACTATTCAACTTTTGGGGGTAT 58.199 36.000 0.00 0.00 0.00 2.73
157 158 6.183361 TGAGAACTATTCAACTTTTGGGGGTA 60.183 38.462 0.00 0.00 0.00 3.69
158 159 5.074746 AGAACTATTCAACTTTTGGGGGT 57.925 39.130 0.00 0.00 0.00 4.95
159 160 5.048013 GTGAGAACTATTCAACTTTTGGGGG 60.048 44.000 0.00 0.00 0.00 5.40
160 161 5.534654 TGTGAGAACTATTCAACTTTTGGGG 59.465 40.000 0.00 0.00 0.00 4.96
161 162 6.633500 TGTGAGAACTATTCAACTTTTGGG 57.367 37.500 0.00 0.00 0.00 4.12
162 163 7.086376 CCATGTGAGAACTATTCAACTTTTGG 58.914 38.462 0.00 0.00 0.00 3.28
163 164 6.583806 GCCATGTGAGAACTATTCAACTTTTG 59.416 38.462 0.00 0.00 0.00 2.44
164 165 6.491403 AGCCATGTGAGAACTATTCAACTTTT 59.509 34.615 0.00 0.00 0.00 2.27
165 166 6.006449 AGCCATGTGAGAACTATTCAACTTT 58.994 36.000 0.00 0.00 0.00 2.66
166 167 5.564550 AGCCATGTGAGAACTATTCAACTT 58.435 37.500 0.00 0.00 0.00 2.66
167 168 5.171339 AGCCATGTGAGAACTATTCAACT 57.829 39.130 0.00 0.00 0.00 3.16
168 169 4.937620 TGAGCCATGTGAGAACTATTCAAC 59.062 41.667 0.00 0.00 0.00 3.18
169 170 5.164620 TGAGCCATGTGAGAACTATTCAA 57.835 39.130 0.00 0.00 0.00 2.69
170 171 4.763073 CTGAGCCATGTGAGAACTATTCA 58.237 43.478 0.00 0.00 0.00 2.57
171 172 3.559242 GCTGAGCCATGTGAGAACTATTC 59.441 47.826 0.00 0.00 0.00 1.75
172 173 3.539604 GCTGAGCCATGTGAGAACTATT 58.460 45.455 0.00 0.00 0.00 1.73
173 174 3.191078 GCTGAGCCATGTGAGAACTAT 57.809 47.619 0.00 0.00 0.00 2.12
174 175 2.680312 GCTGAGCCATGTGAGAACTA 57.320 50.000 0.00 0.00 0.00 2.24
175 176 3.547567 GCTGAGCCATGTGAGAACT 57.452 52.632 0.00 0.00 0.00 3.01
187 188 3.065925 GGAGTGTTTATGATTGGCTGAGC 59.934 47.826 0.00 0.00 0.00 4.26
188 189 4.264253 TGGAGTGTTTATGATTGGCTGAG 58.736 43.478 0.00 0.00 0.00 3.35
189 190 4.299586 TGGAGTGTTTATGATTGGCTGA 57.700 40.909 0.00 0.00 0.00 4.26
190 191 5.389859 TTTGGAGTGTTTATGATTGGCTG 57.610 39.130 0.00 0.00 0.00 4.85
191 192 6.663093 TGTATTTGGAGTGTTTATGATTGGCT 59.337 34.615 0.00 0.00 0.00 4.75
192 193 6.751888 GTGTATTTGGAGTGTTTATGATTGGC 59.248 38.462 0.00 0.00 0.00 4.52
193 194 7.093988 TGGTGTATTTGGAGTGTTTATGATTGG 60.094 37.037 0.00 0.00 0.00 3.16
194 195 7.825681 TGGTGTATTTGGAGTGTTTATGATTG 58.174 34.615 0.00 0.00 0.00 2.67
195 196 8.415950 TTGGTGTATTTGGAGTGTTTATGATT 57.584 30.769 0.00 0.00 0.00 2.57
196 197 8.593945 ATTGGTGTATTTGGAGTGTTTATGAT 57.406 30.769 0.00 0.00 0.00 2.45
197 198 9.521841 TTATTGGTGTATTTGGAGTGTTTATGA 57.478 29.630 0.00 0.00 0.00 2.15
201 202 7.655732 GCTTTTATTGGTGTATTTGGAGTGTTT 59.344 33.333 0.00 0.00 0.00 2.83
202 203 7.151976 GCTTTTATTGGTGTATTTGGAGTGTT 58.848 34.615 0.00 0.00 0.00 3.32
203 204 6.266558 TGCTTTTATTGGTGTATTTGGAGTGT 59.733 34.615 0.00 0.00 0.00 3.55
204 205 6.686630 TGCTTTTATTGGTGTATTTGGAGTG 58.313 36.000 0.00 0.00 0.00 3.51
205 206 6.909550 TGCTTTTATTGGTGTATTTGGAGT 57.090 33.333 0.00 0.00 0.00 3.85
206 207 9.467258 CATATGCTTTTATTGGTGTATTTGGAG 57.533 33.333 0.00 0.00 0.00 3.86
207 208 7.925483 GCATATGCTTTTATTGGTGTATTTGGA 59.075 33.333 20.64 0.00 38.21 3.53
208 209 7.710044 TGCATATGCTTTTATTGGTGTATTTGG 59.290 33.333 27.13 0.00 42.66 3.28
209 210 8.645730 TGCATATGCTTTTATTGGTGTATTTG 57.354 30.769 27.13 0.00 42.66 2.32
210 211 9.263538 CATGCATATGCTTTTATTGGTGTATTT 57.736 29.630 27.13 0.00 42.66 1.40
211 212 8.640651 TCATGCATATGCTTTTATTGGTGTATT 58.359 29.630 27.13 0.00 42.66 1.89
212 213 8.180706 TCATGCATATGCTTTTATTGGTGTAT 57.819 30.769 27.13 5.93 42.66 2.29
213 214 7.579761 TCATGCATATGCTTTTATTGGTGTA 57.420 32.000 27.13 3.67 42.66 2.90
214 215 6.468333 TCATGCATATGCTTTTATTGGTGT 57.532 33.333 27.13 0.00 42.66 4.16
215 216 7.773864 TTTCATGCATATGCTTTTATTGGTG 57.226 32.000 27.13 11.95 42.66 4.17
216 217 8.967664 ATTTTCATGCATATGCTTTTATTGGT 57.032 26.923 27.13 4.76 42.66 3.67
222 223 9.256477 CATGAGTATTTTCATGCATATGCTTTT 57.744 29.630 27.13 10.47 45.49 2.27
223 224 8.812147 CATGAGTATTTTCATGCATATGCTTT 57.188 30.769 27.13 12.93 45.49 3.51
262 263 9.312904 AGAGCTATTATCTCAAGAATAGAAGCT 57.687 33.333 5.95 0.00 38.43 3.74
263 264 9.357652 CAGAGCTATTATCTCAAGAATAGAAGC 57.642 37.037 5.95 0.00 38.43 3.86
264 265 9.357652 GCAGAGCTATTATCTCAAGAATAGAAG 57.642 37.037 5.95 0.00 38.43 2.85
265 266 9.087871 AGCAGAGCTATTATCTCAAGAATAGAA 57.912 33.333 5.95 0.00 38.43 2.10
266 267 8.648698 AGCAGAGCTATTATCTCAAGAATAGA 57.351 34.615 5.95 0.00 38.43 1.98
267 268 8.742777 AGAGCAGAGCTATTATCTCAAGAATAG 58.257 37.037 0.00 0.00 39.88 1.73
268 269 8.522003 CAGAGCAGAGCTATTATCTCAAGAATA 58.478 37.037 0.00 0.00 39.88 1.75
269 270 7.015487 ACAGAGCAGAGCTATTATCTCAAGAAT 59.985 37.037 0.00 0.00 39.88 2.40
270 271 6.323482 ACAGAGCAGAGCTATTATCTCAAGAA 59.677 38.462 0.00 0.00 39.88 2.52
271 272 5.832595 ACAGAGCAGAGCTATTATCTCAAGA 59.167 40.000 0.00 0.00 39.88 3.02
272 273 6.088016 ACAGAGCAGAGCTATTATCTCAAG 57.912 41.667 0.00 0.00 39.88 3.02
273 274 6.477053 AACAGAGCAGAGCTATTATCTCAA 57.523 37.500 0.00 0.00 39.88 3.02
274 275 6.477053 AAACAGAGCAGAGCTATTATCTCA 57.523 37.500 0.00 0.00 39.88 3.27
275 276 7.657336 AGTAAACAGAGCAGAGCTATTATCTC 58.343 38.462 0.00 0.00 39.88 2.75
276 277 7.595819 AGTAAACAGAGCAGAGCTATTATCT 57.404 36.000 0.00 0.00 39.88 1.98
277 278 8.655651 AAAGTAAACAGAGCAGAGCTATTATC 57.344 34.615 0.00 0.00 39.88 1.75
278 279 8.887717 CAAAAGTAAACAGAGCAGAGCTATTAT 58.112 33.333 0.00 0.00 39.88 1.28
279 280 8.094548 TCAAAAGTAAACAGAGCAGAGCTATTA 58.905 33.333 0.00 0.00 39.88 0.98
280 281 6.936900 TCAAAAGTAAACAGAGCAGAGCTATT 59.063 34.615 0.00 0.00 39.88 1.73
281 282 6.467677 TCAAAAGTAAACAGAGCAGAGCTAT 58.532 36.000 0.00 0.00 39.88 2.97
282 283 5.853936 TCAAAAGTAAACAGAGCAGAGCTA 58.146 37.500 0.00 0.00 39.88 3.32
283 284 4.708177 TCAAAAGTAAACAGAGCAGAGCT 58.292 39.130 0.00 0.00 43.88 4.09
284 285 5.008118 ACTTCAAAAGTAAACAGAGCAGAGC 59.992 40.000 0.00 0.00 40.69 4.09
285 286 6.610741 ACTTCAAAAGTAAACAGAGCAGAG 57.389 37.500 0.00 0.00 40.69 3.35
286 287 7.336931 AGAAACTTCAAAAGTAAACAGAGCAGA 59.663 33.333 0.00 0.00 41.91 4.26
287 288 7.475840 AGAAACTTCAAAAGTAAACAGAGCAG 58.524 34.615 0.00 0.00 41.91 4.24
288 289 7.391148 AGAAACTTCAAAAGTAAACAGAGCA 57.609 32.000 0.00 0.00 41.91 4.26
289 290 7.968405 TGAAGAAACTTCAAAAGTAAACAGAGC 59.032 33.333 11.06 0.00 41.91 4.09
291 292 9.787532 CATGAAGAAACTTCAAAAGTAAACAGA 57.212 29.630 16.22 0.00 41.91 3.41
292 293 9.787532 TCATGAAGAAACTTCAAAAGTAAACAG 57.212 29.630 16.22 0.92 41.91 3.16
298 299 9.956720 CTTGTATCATGAAGAAACTTCAAAAGT 57.043 29.630 16.22 7.44 45.46 2.66
301 302 9.559732 TCTCTTGTATCATGAAGAAACTTCAAA 57.440 29.630 16.22 9.43 31.55 2.69
302 303 9.730705 ATCTCTTGTATCATGAAGAAACTTCAA 57.269 29.630 16.22 3.85 31.55 2.69
303 304 9.159364 CATCTCTTGTATCATGAAGAAACTTCA 57.841 33.333 14.94 14.94 0.00 3.02
304 305 9.376075 TCATCTCTTGTATCATGAAGAAACTTC 57.624 33.333 0.00 0.00 0.00 3.01
305 306 9.730705 TTCATCTCTTGTATCATGAAGAAACTT 57.269 29.630 0.00 0.00 31.70 2.66
306 307 9.160496 GTTCATCTCTTGTATCATGAAGAAACT 57.840 33.333 0.00 0.00 36.23 2.66
307 308 8.394121 GGTTCATCTCTTGTATCATGAAGAAAC 58.606 37.037 0.00 0.00 36.23 2.78
308 309 8.324306 AGGTTCATCTCTTGTATCATGAAGAAA 58.676 33.333 0.00 0.00 36.23 2.52
309 310 7.767659 CAGGTTCATCTCTTGTATCATGAAGAA 59.232 37.037 0.00 0.00 36.23 2.52
310 311 7.270779 CAGGTTCATCTCTTGTATCATGAAGA 58.729 38.462 0.00 0.00 36.23 2.87
311 312 6.018098 GCAGGTTCATCTCTTGTATCATGAAG 60.018 42.308 0.00 0.00 36.23 3.02
312 313 5.819379 GCAGGTTCATCTCTTGTATCATGAA 59.181 40.000 0.00 0.00 33.76 2.57
313 314 5.104817 TGCAGGTTCATCTCTTGTATCATGA 60.105 40.000 0.00 0.00 0.00 3.07
314 315 5.121105 TGCAGGTTCATCTCTTGTATCATG 58.879 41.667 0.00 0.00 0.00 3.07
315 316 5.363562 TGCAGGTTCATCTCTTGTATCAT 57.636 39.130 0.00 0.00 0.00 2.45
316 317 4.824479 TGCAGGTTCATCTCTTGTATCA 57.176 40.909 0.00 0.00 0.00 2.15
317 318 5.121811 ACATGCAGGTTCATCTCTTGTATC 58.878 41.667 0.00 0.00 0.00 2.24
318 319 5.108187 ACATGCAGGTTCATCTCTTGTAT 57.892 39.130 0.00 0.00 0.00 2.29
319 320 4.558226 ACATGCAGGTTCATCTCTTGTA 57.442 40.909 0.00 0.00 0.00 2.41
320 321 3.430042 ACATGCAGGTTCATCTCTTGT 57.570 42.857 0.00 0.00 0.00 3.16
321 322 5.645067 TCTTTACATGCAGGTTCATCTCTTG 59.355 40.000 10.25 0.00 0.00 3.02
322 323 5.645497 GTCTTTACATGCAGGTTCATCTCTT 59.355 40.000 10.25 0.00 0.00 2.85
323 324 5.181748 GTCTTTACATGCAGGTTCATCTCT 58.818 41.667 10.25 0.00 0.00 3.10
324 325 4.937620 TGTCTTTACATGCAGGTTCATCTC 59.062 41.667 10.25 0.00 0.00 2.75
325 326 4.697352 GTGTCTTTACATGCAGGTTCATCT 59.303 41.667 10.25 0.00 38.08 2.90
326 327 4.697352 AGTGTCTTTACATGCAGGTTCATC 59.303 41.667 10.25 0.00 38.08 2.92
327 328 4.456911 CAGTGTCTTTACATGCAGGTTCAT 59.543 41.667 10.25 0.00 38.08 2.57
328 329 3.814842 CAGTGTCTTTACATGCAGGTTCA 59.185 43.478 10.25 0.00 38.08 3.18
329 330 4.065088 TCAGTGTCTTTACATGCAGGTTC 58.935 43.478 10.25 0.00 38.08 3.62
330 331 4.067896 CTCAGTGTCTTTACATGCAGGTT 58.932 43.478 10.25 0.00 38.08 3.50
331 332 3.071602 ACTCAGTGTCTTTACATGCAGGT 59.928 43.478 9.77 9.77 38.08 4.00
332 333 3.668447 ACTCAGTGTCTTTACATGCAGG 58.332 45.455 0.00 0.00 38.08 4.85
333 334 4.751600 TCAACTCAGTGTCTTTACATGCAG 59.248 41.667 0.00 0.00 38.08 4.41
334 335 4.702831 TCAACTCAGTGTCTTTACATGCA 58.297 39.130 0.00 0.00 38.08 3.96
335 336 5.466728 TCTTCAACTCAGTGTCTTTACATGC 59.533 40.000 0.00 0.00 38.08 4.06
336 337 7.601886 AGATCTTCAACTCAGTGTCTTTACATG 59.398 37.037 0.00 0.00 38.08 3.21
337 338 7.675062 AGATCTTCAACTCAGTGTCTTTACAT 58.325 34.615 0.00 0.00 38.08 2.29
338 339 7.014711 AGAGATCTTCAACTCAGTGTCTTTACA 59.985 37.037 0.00 0.00 35.83 2.41
339 340 7.375053 AGAGATCTTCAACTCAGTGTCTTTAC 58.625 38.462 0.00 0.00 35.83 2.01
340 341 7.531857 AGAGATCTTCAACTCAGTGTCTTTA 57.468 36.000 0.00 0.00 35.83 1.85
341 342 6.418057 AGAGATCTTCAACTCAGTGTCTTT 57.582 37.500 0.00 0.00 35.83 2.52
342 343 6.418057 AAGAGATCTTCAACTCAGTGTCTT 57.582 37.500 0.00 0.00 35.83 3.01
343 344 6.418057 AAAGAGATCTTCAACTCAGTGTCT 57.582 37.500 0.00 0.00 34.61 3.41
344 345 7.489574 AAAAAGAGATCTTCAACTCAGTGTC 57.510 36.000 0.00 0.00 34.61 3.67
345 346 7.987458 TGTAAAAAGAGATCTTCAACTCAGTGT 59.013 33.333 0.00 0.00 34.61 3.55
346 347 8.279103 GTGTAAAAAGAGATCTTCAACTCAGTG 58.721 37.037 0.00 0.00 34.61 3.66
347 348 8.207545 AGTGTAAAAAGAGATCTTCAACTCAGT 58.792 33.333 0.00 0.00 34.61 3.41
348 349 8.600449 AGTGTAAAAAGAGATCTTCAACTCAG 57.400 34.615 0.00 0.00 34.61 3.35
349 350 8.964476 AAGTGTAAAAAGAGATCTTCAACTCA 57.036 30.769 0.00 0.00 34.61 3.41
350 351 9.267084 AGAAGTGTAAAAAGAGATCTTCAACTC 57.733 33.333 0.00 0.00 34.61 3.01
351 352 9.620259 AAGAAGTGTAAAAAGAGATCTTCAACT 57.380 29.630 0.00 0.00 34.61 3.16
352 353 9.871299 GAAGAAGTGTAAAAAGAGATCTTCAAC 57.129 33.333 0.00 0.00 40.58 3.18
353 354 9.838339 AGAAGAAGTGTAAAAAGAGATCTTCAA 57.162 29.630 12.92 0.00 42.34 2.69
354 355 9.838339 AAGAAGAAGTGTAAAAAGAGATCTTCA 57.162 29.630 12.92 0.00 42.34 3.02
356 357 8.983724 CGAAGAAGAAGTGTAAAAAGAGATCTT 58.016 33.333 0.00 0.00 37.91 2.40
357 358 7.600752 CCGAAGAAGAAGTGTAAAAAGAGATCT 59.399 37.037 0.00 0.00 0.00 2.75
358 359 7.385478 ACCGAAGAAGAAGTGTAAAAAGAGATC 59.615 37.037 0.00 0.00 0.00 2.75
359 360 7.217906 ACCGAAGAAGAAGTGTAAAAAGAGAT 58.782 34.615 0.00 0.00 0.00 2.75
360 361 6.579865 ACCGAAGAAGAAGTGTAAAAAGAGA 58.420 36.000 0.00 0.00 0.00 3.10
361 362 6.846325 ACCGAAGAAGAAGTGTAAAAAGAG 57.154 37.500 0.00 0.00 0.00 2.85
362 363 7.267128 TGTACCGAAGAAGAAGTGTAAAAAGA 58.733 34.615 0.00 0.00 0.00 2.52
363 364 7.473027 TGTACCGAAGAAGAAGTGTAAAAAG 57.527 36.000 0.00 0.00 0.00 2.27
364 365 7.201635 GGTTGTACCGAAGAAGAAGTGTAAAAA 60.202 37.037 0.00 0.00 0.00 1.94
365 366 6.258507 GGTTGTACCGAAGAAGAAGTGTAAAA 59.741 38.462 0.00 0.00 0.00 1.52
366 367 5.754890 GGTTGTACCGAAGAAGAAGTGTAAA 59.245 40.000 0.00 0.00 0.00 2.01
367 368 5.291971 GGTTGTACCGAAGAAGAAGTGTAA 58.708 41.667 0.00 0.00 0.00 2.41
368 369 4.262164 GGGTTGTACCGAAGAAGAAGTGTA 60.262 45.833 0.00 0.00 39.83 2.90
1498 3293 4.547905 CGACGTGCGTAGGGCGAT 62.548 66.667 16.70 0.00 45.65 4.58
2009 3826 8.469309 AATTGCATACCTTATTCTGTGCTATT 57.531 30.769 0.00 0.00 34.76 1.73
2575 5185 1.072331 CAGGTACTTGCTGTGGAAGGT 59.928 52.381 4.05 0.00 34.60 3.50


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

AutoCloner maintained by Alex Coulton.