Multiple sequence alignment - TraesCS5B01G029600

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 TraesCS5B01G029600 chr5B 100.000 2804 0 0 1 2804 30864367 30867170 0.000000e+00 5179.0
1 TraesCS5B01G029600 chr5B 92.098 1506 91 13 739 2223 24419346 24417848 0.000000e+00 2097.0
2 TraesCS5B01G029600 chr5B 93.713 1336 81 2 822 2157 48301676 48303008 0.000000e+00 1999.0
3 TraesCS5B01G029600 chr5B 90.730 1521 93 14 705 2201 6676775 6675279 0.000000e+00 1984.0
4 TraesCS5B01G029600 chr5B 93.987 449 24 3 2356 2804 24417774 24417329 0.000000e+00 676.0
5 TraesCS5B01G029600 chr5B 92.627 434 16 6 271 704 48301045 48301462 6.640000e-171 610.0
6 TraesCS5B01G029600 chr5B 90.654 428 32 5 2343 2769 48303007 48303427 1.890000e-156 562.0
7 TraesCS5B01G029600 chr5B 91.791 134 6 3 706 838 48301530 48301659 6.170000e-42 182.0
8 TraesCS5B01G029600 chr5B 92.941 85 1 1 617 701 6676924 6676845 4.910000e-23 119.0
9 TraesCS5B01G029600 chr5B 93.243 74 3 1 2261 2332 24417844 24417771 1.060000e-19 108.0
10 TraesCS5B01G029600 chr5B 89.412 85 8 1 179 262 581793241 581793157 3.820000e-19 106.0
11 TraesCS5B01G029600 chr5A 94.059 1397 71 4 840 2230 4018703 4017313 0.000000e+00 2109.0
12 TraesCS5B01G029600 chr5A 91.533 437 20 4 271 704 4020441 4020019 1.120000e-163 586.0
13 TraesCS5B01G029600 chr5A 88.690 336 32 2 2434 2769 4017111 4016782 3.360000e-109 405.0
14 TraesCS5B01G029600 chr5A 95.673 208 7 2 2264 2471 4017317 4017112 1.610000e-87 333.0
15 TraesCS5B01G029600 chr5A 91.772 158 10 2 705 859 4019728 4019571 1.690000e-52 217.0
16 TraesCS5B01G029600 chr5A 93.617 141 8 1 765 904 4711500 4711360 2.830000e-50 209.0
17 TraesCS5B01G029600 chr5A 92.254 142 10 1 764 904 4711642 4711501 1.700000e-47 200.0
18 TraesCS5B01G029600 chr5A 94.017 117 2 2 588 704 4019911 4019800 3.710000e-39 172.0
19 TraesCS5B01G029600 chr2B 88.760 258 28 1 1 258 766654546 766654802 5.830000e-82 315.0
20 TraesCS5B01G029600 chr6B 87.405 262 32 1 1 262 173652043 173652303 1.630000e-77 300.0
21 TraesCS5B01G029600 chr7B 97.531 81 2 0 1 81 498916818 498916738 3.770000e-29 139.0
22 TraesCS5B01G029600 chr4A 92.754 69 3 2 194 261 704795102 704795035 6.390000e-17 99.0
23 TraesCS5B01G029600 chr7A 86.364 88 7 4 178 262 55006490 55006405 1.070000e-14 91.6


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 TraesCS5B01G029600 chr5B 30864367 30867170 2803 False 5179.000000 5179 100.000000 1 2804 1 chr5B.!!$F1 2803
1 TraesCS5B01G029600 chr5B 6675279 6676924 1645 True 1051.500000 1984 91.835500 617 2201 2 chr5B.!!$R2 1584
2 TraesCS5B01G029600 chr5B 24417329 24419346 2017 True 960.333333 2097 93.109333 739 2804 3 chr5B.!!$R3 2065
3 TraesCS5B01G029600 chr5B 48301045 48303427 2382 False 838.250000 1999 92.196250 271 2769 4 chr5B.!!$F2 2498
4 TraesCS5B01G029600 chr5A 4016782 4020441 3659 True 637.000000 2109 92.624000 271 2769 6 chr5A.!!$R1 2498

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
66 67 0.034896 GCGGGTGTATATCCTGGTGG 59.965 60.0 0.0 0.0 32.41 4.61 F
67 68 0.034896 CGGGTGTATATCCTGGTGGC 59.965 60.0 0.0 0.0 0.00 5.01 F
1004 2196 0.109532 TTTCCCTGCAACACGATGGA 59.890 50.0 0.0 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1421 2613 0.510359 GCTGCTGTTCTCAACACTCG 59.490 55.000 0.00 0.0 36.25 4.18 R
1532 2724 2.047274 ACGGCCAAGACACCATCG 60.047 61.111 2.24 0.0 0.00 3.84 R
2332 3531 0.107654 GTAGGAGCGGCCAACATTCT 60.108 55.000 2.24 0.0 40.02 2.40 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
49 50 7.801547 AAAATGAACTATCTCAACAATTGCG 57.198 32.000 5.05 0.00 0.00 4.85
50 51 4.944962 TGAACTATCTCAACAATTGCGG 57.055 40.909 5.05 0.00 0.00 5.69
51 52 3.689161 TGAACTATCTCAACAATTGCGGG 59.311 43.478 5.05 0.00 0.00 6.13
52 53 3.350219 ACTATCTCAACAATTGCGGGT 57.650 42.857 5.05 0.00 0.00 5.28
53 54 3.009723 ACTATCTCAACAATTGCGGGTG 58.990 45.455 5.05 0.00 0.00 4.61
54 55 1.909700 ATCTCAACAATTGCGGGTGT 58.090 45.000 5.05 0.00 0.00 4.16
55 56 2.552599 TCTCAACAATTGCGGGTGTA 57.447 45.000 5.05 0.00 0.00 2.90
56 57 3.066291 TCTCAACAATTGCGGGTGTAT 57.934 42.857 5.05 0.00 0.00 2.29
57 58 4.209307 TCTCAACAATTGCGGGTGTATA 57.791 40.909 5.05 0.00 0.00 1.47
58 59 4.776349 TCTCAACAATTGCGGGTGTATAT 58.224 39.130 5.05 0.00 0.00 0.86
59 60 4.814234 TCTCAACAATTGCGGGTGTATATC 59.186 41.667 5.05 0.00 0.00 1.63
60 61 3.880490 TCAACAATTGCGGGTGTATATCC 59.120 43.478 5.05 0.00 0.00 2.59
61 62 3.857157 ACAATTGCGGGTGTATATCCT 57.143 42.857 5.05 0.00 0.00 3.24
62 63 3.476552 ACAATTGCGGGTGTATATCCTG 58.523 45.455 5.05 2.52 34.70 3.86
63 64 2.813754 CAATTGCGGGTGTATATCCTGG 59.186 50.000 0.00 0.00 32.41 4.45
64 65 1.502690 TTGCGGGTGTATATCCTGGT 58.497 50.000 0.00 0.00 32.41 4.00
65 66 0.756294 TGCGGGTGTATATCCTGGTG 59.244 55.000 0.00 0.00 32.41 4.17
66 67 0.034896 GCGGGTGTATATCCTGGTGG 59.965 60.000 0.00 0.00 32.41 4.61
67 68 0.034896 CGGGTGTATATCCTGGTGGC 59.965 60.000 0.00 0.00 0.00 5.01
68 69 1.435256 GGGTGTATATCCTGGTGGCT 58.565 55.000 0.00 0.00 0.00 4.75
69 70 2.616524 GGGTGTATATCCTGGTGGCTA 58.383 52.381 0.00 0.00 0.00 3.93
70 71 2.567615 GGGTGTATATCCTGGTGGCTAG 59.432 54.545 0.00 0.00 0.00 3.42
71 72 2.028020 GGTGTATATCCTGGTGGCTAGC 60.028 54.545 6.04 6.04 0.00 3.42
72 73 2.900546 GTGTATATCCTGGTGGCTAGCT 59.099 50.000 15.72 0.00 0.00 3.32
73 74 3.325135 GTGTATATCCTGGTGGCTAGCTT 59.675 47.826 15.72 0.00 0.00 3.74
74 75 3.578716 TGTATATCCTGGTGGCTAGCTTC 59.421 47.826 15.72 7.86 0.00 3.86
75 76 1.040646 TATCCTGGTGGCTAGCTTCG 58.959 55.000 15.72 0.00 0.00 3.79
76 77 0.687757 ATCCTGGTGGCTAGCTTCGA 60.688 55.000 15.72 4.60 0.00 3.71
77 78 1.142748 CCTGGTGGCTAGCTTCGAG 59.857 63.158 15.72 13.39 0.00 4.04
78 79 1.520342 CTGGTGGCTAGCTTCGAGC 60.520 63.158 15.72 6.74 42.84 5.03
79 80 2.230994 CTGGTGGCTAGCTTCGAGCA 62.231 60.000 15.72 10.78 45.56 4.26
80 81 1.811679 GGTGGCTAGCTTCGAGCAC 60.812 63.158 15.72 12.43 45.56 4.40
81 82 1.216710 GTGGCTAGCTTCGAGCACT 59.783 57.895 15.72 0.22 45.56 4.40
82 83 0.390472 GTGGCTAGCTTCGAGCACTT 60.390 55.000 15.72 0.00 45.56 3.16
83 84 0.390340 TGGCTAGCTTCGAGCACTTG 60.390 55.000 15.72 0.37 45.56 3.16
84 85 1.700600 GGCTAGCTTCGAGCACTTGC 61.701 60.000 15.72 8.80 45.56 4.01
85 86 1.016130 GCTAGCTTCGAGCACTTGCA 61.016 55.000 7.70 0.00 45.56 4.08
86 87 0.997932 CTAGCTTCGAGCACTTGCAG 59.002 55.000 3.62 0.00 45.56 4.41
87 88 0.318441 TAGCTTCGAGCACTTGCAGT 59.682 50.000 3.62 0.00 45.56 4.40
98 99 0.738389 ACTTGCAGTGAAACGGTTGG 59.262 50.000 0.00 0.00 45.86 3.77
99 100 0.738389 CTTGCAGTGAAACGGTTGGT 59.262 50.000 0.00 0.00 45.86 3.67
100 101 1.944024 CTTGCAGTGAAACGGTTGGTA 59.056 47.619 0.00 0.00 45.86 3.25
101 102 1.588674 TGCAGTGAAACGGTTGGTAG 58.411 50.000 0.00 0.00 45.86 3.18
102 103 1.134340 TGCAGTGAAACGGTTGGTAGT 60.134 47.619 0.00 0.00 45.86 2.73
103 104 1.944709 GCAGTGAAACGGTTGGTAGTT 59.055 47.619 0.00 0.00 45.86 2.24
104 105 2.032290 GCAGTGAAACGGTTGGTAGTTC 60.032 50.000 0.00 0.00 45.86 3.01
105 106 2.220133 CAGTGAAACGGTTGGTAGTTCG 59.780 50.000 0.00 0.00 45.86 3.95
106 107 2.101249 AGTGAAACGGTTGGTAGTTCGA 59.899 45.455 0.00 0.00 45.86 3.71
107 108 2.865551 GTGAAACGGTTGGTAGTTCGAA 59.134 45.455 0.00 0.00 0.00 3.71
108 109 3.495753 GTGAAACGGTTGGTAGTTCGAAT 59.504 43.478 0.00 0.00 0.00 3.34
109 110 3.742369 TGAAACGGTTGGTAGTTCGAATC 59.258 43.478 0.00 0.00 0.00 2.52
110 111 2.375173 ACGGTTGGTAGTTCGAATCC 57.625 50.000 0.00 5.62 0.00 3.01
111 112 1.066645 ACGGTTGGTAGTTCGAATCCC 60.067 52.381 0.00 2.33 0.00 3.85
112 113 1.206371 CGGTTGGTAGTTCGAATCCCT 59.794 52.381 0.00 0.00 0.00 4.20
113 114 2.629051 GGTTGGTAGTTCGAATCCCTG 58.371 52.381 0.00 0.00 0.00 4.45
114 115 2.027469 GGTTGGTAGTTCGAATCCCTGT 60.027 50.000 0.00 0.00 0.00 4.00
115 116 3.259902 GTTGGTAGTTCGAATCCCTGTC 58.740 50.000 0.00 0.00 0.00 3.51
116 117 1.829222 TGGTAGTTCGAATCCCTGTCC 59.171 52.381 0.00 2.76 0.00 4.02
117 118 1.202382 GGTAGTTCGAATCCCTGTCCG 60.202 57.143 0.00 0.00 0.00 4.79
118 119 1.747355 GTAGTTCGAATCCCTGTCCGA 59.253 52.381 0.00 0.00 0.00 4.55
119 120 0.818296 AGTTCGAATCCCTGTCCGAG 59.182 55.000 0.00 0.00 32.41 4.63
120 121 0.806492 GTTCGAATCCCTGTCCGAGC 60.806 60.000 0.00 0.00 32.41 5.03
121 122 1.254975 TTCGAATCCCTGTCCGAGCA 61.255 55.000 0.00 0.00 32.41 4.26
122 123 1.519455 CGAATCCCTGTCCGAGCAC 60.519 63.158 0.00 0.00 0.00 4.40
123 124 1.901085 GAATCCCTGTCCGAGCACT 59.099 57.895 0.00 0.00 0.00 4.40
124 125 1.112113 GAATCCCTGTCCGAGCACTA 58.888 55.000 0.00 0.00 0.00 2.74
125 126 1.689273 GAATCCCTGTCCGAGCACTAT 59.311 52.381 0.00 0.00 0.00 2.12
126 127 1.794714 ATCCCTGTCCGAGCACTATT 58.205 50.000 0.00 0.00 0.00 1.73
127 128 1.568504 TCCCTGTCCGAGCACTATTT 58.431 50.000 0.00 0.00 0.00 1.40
128 129 1.906574 TCCCTGTCCGAGCACTATTTT 59.093 47.619 0.00 0.00 0.00 1.82
129 130 2.304761 TCCCTGTCCGAGCACTATTTTT 59.695 45.455 0.00 0.00 0.00 1.94
158 159 3.944055 TCGAGAAAGAAGAAGACCAGG 57.056 47.619 0.00 0.00 0.00 4.45
159 160 3.497332 TCGAGAAAGAAGAAGACCAGGA 58.503 45.455 0.00 0.00 0.00 3.86
160 161 3.895656 TCGAGAAAGAAGAAGACCAGGAA 59.104 43.478 0.00 0.00 0.00 3.36
161 162 4.021894 TCGAGAAAGAAGAAGACCAGGAAG 60.022 45.833 0.00 0.00 0.00 3.46
162 163 4.574892 GAGAAAGAAGAAGACCAGGAAGG 58.425 47.826 0.00 0.00 45.67 3.46
163 164 4.235372 AGAAAGAAGAAGACCAGGAAGGA 58.765 43.478 0.00 0.00 41.22 3.36
164 165 4.660771 AGAAAGAAGAAGACCAGGAAGGAA 59.339 41.667 0.00 0.00 41.22 3.36
165 166 5.311913 AGAAAGAAGAAGACCAGGAAGGAAT 59.688 40.000 0.00 0.00 41.22 3.01
166 167 5.590976 AAGAAGAAGACCAGGAAGGAATT 57.409 39.130 0.00 0.00 41.22 2.17
167 168 6.704056 AAGAAGAAGACCAGGAAGGAATTA 57.296 37.500 0.00 0.00 41.22 1.40
168 169 6.704056 AGAAGAAGACCAGGAAGGAATTAA 57.296 37.500 0.00 0.00 41.22 1.40
169 170 6.477253 AGAAGAAGACCAGGAAGGAATTAAC 58.523 40.000 0.00 0.00 41.22 2.01
170 171 5.843019 AGAAGACCAGGAAGGAATTAACA 57.157 39.130 0.00 0.00 41.22 2.41
171 172 6.394345 AGAAGACCAGGAAGGAATTAACAT 57.606 37.500 0.00 0.00 41.22 2.71
172 173 7.510675 AGAAGACCAGGAAGGAATTAACATA 57.489 36.000 0.00 0.00 41.22 2.29
173 174 7.569240 AGAAGACCAGGAAGGAATTAACATAG 58.431 38.462 0.00 0.00 41.22 2.23
174 175 7.403231 AGAAGACCAGGAAGGAATTAACATAGA 59.597 37.037 0.00 0.00 41.22 1.98
175 176 7.510675 AGACCAGGAAGGAATTAACATAGAA 57.489 36.000 0.00 0.00 41.22 2.10
176 177 8.107196 AGACCAGGAAGGAATTAACATAGAAT 57.893 34.615 0.00 0.00 41.22 2.40
177 178 7.995488 AGACCAGGAAGGAATTAACATAGAATG 59.005 37.037 0.00 0.00 41.22 2.67
178 179 7.062957 ACCAGGAAGGAATTAACATAGAATGG 58.937 38.462 0.00 0.00 41.22 3.16
179 180 6.491403 CCAGGAAGGAATTAACATAGAATGGG 59.509 42.308 0.00 0.00 41.22 4.00
180 181 6.015940 CAGGAAGGAATTAACATAGAATGGGC 60.016 42.308 0.00 0.00 33.60 5.36
181 182 5.243954 GGAAGGAATTAACATAGAATGGGCC 59.756 44.000 0.00 0.00 33.60 5.80
182 183 4.398319 AGGAATTAACATAGAATGGGCCG 58.602 43.478 0.00 0.00 33.60 6.13
183 184 3.506067 GGAATTAACATAGAATGGGCCGG 59.494 47.826 0.00 0.00 33.60 6.13
184 185 1.975660 TTAACATAGAATGGGCCGGC 58.024 50.000 21.18 21.18 33.60 6.13
185 186 0.109723 TAACATAGAATGGGCCGGCC 59.890 55.000 38.57 38.57 33.60 6.13
196 197 4.021925 GCCGGCCCAGTTCAGACT 62.022 66.667 18.11 0.00 36.25 3.24
205 206 1.719600 CAGTTCAGACTGCTACAGGC 58.280 55.000 0.00 0.00 46.08 4.85
206 207 0.244994 AGTTCAGACTGCTACAGGCG 59.755 55.000 0.00 0.00 45.59 5.52
207 208 1.079819 TTCAGACTGCTACAGGCGC 60.080 57.895 0.00 0.00 45.59 6.53
208 209 2.507110 TTCAGACTGCTACAGGCGCC 62.507 60.000 21.89 21.89 45.59 6.53
209 210 3.775654 AGACTGCTACAGGCGCCC 61.776 66.667 26.15 7.94 45.59 6.13
212 213 4.760047 CTGCTACAGGCGCCCGTT 62.760 66.667 26.15 10.41 45.43 4.44
213 214 4.323477 TGCTACAGGCGCCCGTTT 62.323 61.111 26.15 7.44 45.43 3.60
214 215 3.799755 GCTACAGGCGCCCGTTTG 61.800 66.667 26.15 17.97 0.00 2.93
215 216 3.799755 CTACAGGCGCCCGTTTGC 61.800 66.667 26.15 0.00 0.00 3.68
216 217 4.627801 TACAGGCGCCCGTTTGCA 62.628 61.111 26.15 1.67 0.00 4.08
218 219 4.277593 CAGGCGCCCGTTTGCAAA 62.278 61.111 26.15 8.05 0.00 3.68
219 220 3.302344 AGGCGCCCGTTTGCAAAT 61.302 55.556 26.15 0.00 0.00 2.32
220 221 2.356913 GGCGCCCGTTTGCAAATT 60.357 55.556 18.11 0.00 0.00 1.82
221 222 1.080434 GGCGCCCGTTTGCAAATTA 60.080 52.632 18.11 0.00 0.00 1.40
222 223 1.348538 GGCGCCCGTTTGCAAATTAC 61.349 55.000 18.11 2.04 0.00 1.89
223 224 0.664767 GCGCCCGTTTGCAAATTACA 60.665 50.000 16.21 0.00 0.00 2.41
224 225 1.056869 CGCCCGTTTGCAAATTACAC 58.943 50.000 16.21 1.22 0.00 2.90
225 226 1.335506 CGCCCGTTTGCAAATTACACT 60.336 47.619 16.21 0.00 0.00 3.55
226 227 2.058057 GCCCGTTTGCAAATTACACTG 58.942 47.619 16.21 0.00 0.00 3.66
227 228 2.544903 GCCCGTTTGCAAATTACACTGT 60.545 45.455 16.21 0.00 0.00 3.55
228 229 3.304794 GCCCGTTTGCAAATTACACTGTA 60.305 43.478 16.21 0.00 0.00 2.74
229 230 4.793353 GCCCGTTTGCAAATTACACTGTAA 60.793 41.667 16.21 4.08 0.00 2.41
230 231 4.677832 CCCGTTTGCAAATTACACTGTAAC 59.322 41.667 16.21 0.00 0.00 2.50
231 232 4.377445 CCGTTTGCAAATTACACTGTAACG 59.623 41.667 16.21 9.85 34.96 3.18
232 233 4.377445 CGTTTGCAAATTACACTGTAACGG 59.623 41.667 16.21 0.00 33.29 4.44
233 234 4.491234 TTGCAAATTACACTGTAACGGG 57.509 40.909 3.67 0.00 0.00 5.28
234 235 2.226912 TGCAAATTACACTGTAACGGGC 59.773 45.455 3.67 8.25 0.00 6.13
235 236 2.726681 GCAAATTACACTGTAACGGGCG 60.727 50.000 3.67 0.00 0.00 6.13
236 237 1.081094 AATTACACTGTAACGGGCGC 58.919 50.000 0.00 0.00 0.00 6.53
237 238 0.741927 ATTACACTGTAACGGGCGCC 60.742 55.000 21.18 21.18 0.00 6.53
238 239 1.818959 TTACACTGTAACGGGCGCCT 61.819 55.000 28.56 9.55 0.00 5.52
239 240 2.495366 TACACTGTAACGGGCGCCTG 62.495 60.000 33.73 33.73 0.00 4.85
252 253 4.256090 GCCTGCGGCGCCAAATAG 62.256 66.667 30.82 19.10 39.62 1.73
253 254 2.513666 CCTGCGGCGCCAAATAGA 60.514 61.111 30.82 7.63 0.00 1.98
254 255 2.112198 CCTGCGGCGCCAAATAGAA 61.112 57.895 30.82 6.78 0.00 2.10
255 256 1.653094 CCTGCGGCGCCAAATAGAAA 61.653 55.000 30.82 5.94 0.00 2.52
256 257 0.170116 CTGCGGCGCCAAATAGAAAA 59.830 50.000 30.82 5.10 0.00 2.29
257 258 0.814457 TGCGGCGCCAAATAGAAAAT 59.186 45.000 30.82 0.00 0.00 1.82
258 259 1.202245 TGCGGCGCCAAATAGAAAATC 60.202 47.619 30.82 0.00 0.00 2.17
259 260 1.864029 GCGGCGCCAAATAGAAAATCC 60.864 52.381 28.98 0.00 0.00 3.01
260 261 1.269051 CGGCGCCAAATAGAAAATCCC 60.269 52.381 28.98 0.00 0.00 3.85
261 262 1.068588 GGCGCCAAATAGAAAATCCCC 59.931 52.381 24.80 0.00 0.00 4.81
262 263 1.269051 GCGCCAAATAGAAAATCCCCG 60.269 52.381 0.00 0.00 0.00 5.73
263 264 1.269051 CGCCAAATAGAAAATCCCCGC 60.269 52.381 0.00 0.00 0.00 6.13
264 265 1.269051 GCCAAATAGAAAATCCCCGCG 60.269 52.381 0.00 0.00 0.00 6.46
265 266 2.021457 CCAAATAGAAAATCCCCGCGT 58.979 47.619 4.92 0.00 0.00 6.01
266 267 2.425668 CCAAATAGAAAATCCCCGCGTT 59.574 45.455 4.92 0.00 0.00 4.84
267 268 3.488553 CCAAATAGAAAATCCCCGCGTTC 60.489 47.826 4.92 0.36 0.00 3.95
268 269 1.578583 ATAGAAAATCCCCGCGTTCG 58.421 50.000 4.92 0.00 0.00 3.95
337 341 1.338655 GCCTCTCCTTCTCATCGGTAC 59.661 57.143 0.00 0.00 0.00 3.34
572 576 3.096495 TGCCTACCCCCTCCATGC 61.096 66.667 0.00 0.00 0.00 4.06
580 584 1.609239 CCCCTCCATGCACTGCTTA 59.391 57.895 1.98 0.00 0.00 3.09
585 589 3.324846 CCCTCCATGCACTGCTTACTATA 59.675 47.826 1.98 0.00 0.00 1.31
759 1048 1.766494 TATGAGCACAGCCAAATGGG 58.234 50.000 0.90 0.00 40.85 4.00
775 1064 8.695456 AGCCAAATGGGTTGAATATTTAGTAAG 58.305 33.333 0.00 0.00 44.81 2.34
937 2129 0.396278 CCCCAATTCCCTCCTGCTTC 60.396 60.000 0.00 0.00 0.00 3.86
962 2154 6.791887 CAGTATTCGCTGGTTATTCATCAT 57.208 37.500 0.00 0.00 33.11 2.45
983 2175 2.027561 TCCGTTGATCCCAAATCGACTT 60.028 45.455 0.00 0.00 33.49 3.01
1004 2196 0.109532 TTTCCCTGCAACACGATGGA 59.890 50.000 0.00 0.00 0.00 3.41
1006 2198 1.191489 TCCCTGCAACACGATGGAGA 61.191 55.000 9.76 0.00 40.84 3.71
1077 2269 2.673775 TTTCCATCCTGTTTGCTCCA 57.326 45.000 0.00 0.00 0.00 3.86
1149 2341 6.812160 AGACAGTAAAAGATAAAGAATCGCGT 59.188 34.615 5.77 0.00 39.79 6.01
1187 2379 5.586643 GGAATGGACATTCTTCTACTGGTTC 59.413 44.000 20.65 0.88 44.90 3.62
1188 2380 4.553330 TGGACATTCTTCTACTGGTTCC 57.447 45.455 0.00 0.00 0.00 3.62
1355 2547 4.553330 TTCAGGAAGCTAGGTTGGTTAG 57.447 45.455 12.82 0.00 0.00 2.34
1403 2595 2.683742 CGGTAGCTGGGGTTGATTCAAT 60.684 50.000 1.78 0.00 0.00 2.57
1502 2694 1.202330 CCTGCCCTTGAGATCTCTGT 58.798 55.000 22.95 0.00 0.00 3.41
1519 2711 7.551974 AGATCTCTGTCAACACTCCAATAAATG 59.448 37.037 0.00 0.00 0.00 2.32
1532 2724 3.504863 CAATAAATGACAGGCAGTGCAC 58.495 45.455 18.61 9.40 0.00 4.57
1553 2745 2.358737 GGTGTCTTGGCCGTCCTG 60.359 66.667 0.00 0.00 0.00 3.86
1563 2755 1.367840 GCCGTCCTGTATGCCTAGG 59.632 63.158 3.67 3.67 35.34 3.02
1671 2863 1.625511 TGAGAACTGCTGAGAGCTCA 58.374 50.000 17.77 0.00 42.97 4.26
1698 2890 1.001378 GCGCCACTGTTCAACTCAAAT 60.001 47.619 0.00 0.00 0.00 2.32
1701 2893 2.362077 GCCACTGTTCAACTCAAATGGT 59.638 45.455 0.00 0.00 0.00 3.55
1733 2925 2.777832 ATTCTGCAAGGGAGACTGAC 57.222 50.000 0.00 0.00 0.00 3.51
1756 2948 2.267681 GACCCGCTCGATCTTCGTGT 62.268 60.000 0.00 0.00 41.35 4.49
2022 3219 5.942236 TGGTAAGTGTAAGTCTCGTGAGTAT 59.058 40.000 0.00 0.00 0.00 2.12
2037 3234 5.585844 TCGTGAGTATAGTATGACGAAACCA 59.414 40.000 0.00 0.00 33.24 3.67
2038 3235 6.261603 TCGTGAGTATAGTATGACGAAACCAT 59.738 38.462 0.00 0.00 33.24 3.55
2142 3339 5.001874 TGTTGTGTGTTTGGTAAGTGTACA 58.998 37.500 0.00 0.00 31.21 2.90
2143 3340 5.122554 TGTTGTGTGTTTGGTAAGTGTACAG 59.877 40.000 0.00 0.00 31.21 2.74
2200 3397 3.036819 TCTCAAGATGCCTCAGCTGTAT 58.963 45.455 14.67 4.50 40.80 2.29
2201 3398 3.132160 CTCAAGATGCCTCAGCTGTATG 58.868 50.000 14.67 4.59 40.80 2.39
2202 3399 2.502947 TCAAGATGCCTCAGCTGTATGT 59.497 45.455 14.67 0.58 40.80 2.29
2203 3400 3.706086 TCAAGATGCCTCAGCTGTATGTA 59.294 43.478 14.67 3.43 40.80 2.29
2229 3426 9.784531 ATATTAGTCCCATTTTCTGTATGTCAG 57.215 33.333 0.00 0.00 44.85 3.51
2230 3427 5.505181 AGTCCCATTTTCTGTATGTCAGT 57.495 39.130 0.00 0.00 43.97 3.41
2231 3428 5.491982 AGTCCCATTTTCTGTATGTCAGTC 58.508 41.667 0.00 0.00 43.97 3.51
2232 3429 4.636206 GTCCCATTTTCTGTATGTCAGTCC 59.364 45.833 0.00 0.00 43.97 3.85
2233 3430 3.947834 CCCATTTTCTGTATGTCAGTCCC 59.052 47.826 0.00 0.00 43.97 4.46
2234 3431 4.567537 CCCATTTTCTGTATGTCAGTCCCA 60.568 45.833 0.00 0.00 43.97 4.37
2235 3432 5.195940 CCATTTTCTGTATGTCAGTCCCAT 58.804 41.667 0.00 0.00 43.97 4.00
2236 3433 5.653769 CCATTTTCTGTATGTCAGTCCCATT 59.346 40.000 0.00 0.00 43.97 3.16
2237 3434 6.153340 CCATTTTCTGTATGTCAGTCCCATTT 59.847 38.462 0.00 0.00 43.97 2.32
2238 3435 7.309990 CCATTTTCTGTATGTCAGTCCCATTTT 60.310 37.037 0.00 0.00 43.97 1.82
2239 3436 6.817765 TTTCTGTATGTCAGTCCCATTTTC 57.182 37.500 0.00 0.00 43.97 2.29
2240 3437 4.843728 TCTGTATGTCAGTCCCATTTTCC 58.156 43.478 0.00 0.00 43.97 3.13
2241 3438 3.605634 TGTATGTCAGTCCCATTTTCCG 58.394 45.455 0.00 0.00 0.00 4.30
2242 3439 2.879103 ATGTCAGTCCCATTTTCCGT 57.121 45.000 0.00 0.00 0.00 4.69
2243 3440 3.992943 ATGTCAGTCCCATTTTCCGTA 57.007 42.857 0.00 0.00 0.00 4.02
2244 3441 3.048337 TGTCAGTCCCATTTTCCGTAC 57.952 47.619 0.00 0.00 0.00 3.67
2245 3442 2.635915 TGTCAGTCCCATTTTCCGTACT 59.364 45.455 0.00 0.00 0.00 2.73
2246 3443 3.071892 TGTCAGTCCCATTTTCCGTACTT 59.928 43.478 0.00 0.00 0.00 2.24
2247 3444 4.070009 GTCAGTCCCATTTTCCGTACTTT 58.930 43.478 0.00 0.00 0.00 2.66
2248 3445 5.221682 TGTCAGTCCCATTTTCCGTACTTTA 60.222 40.000 0.00 0.00 0.00 1.85
2249 3446 5.878669 GTCAGTCCCATTTTCCGTACTTTAT 59.121 40.000 0.00 0.00 0.00 1.40
2250 3447 6.036844 GTCAGTCCCATTTTCCGTACTTTATC 59.963 42.308 0.00 0.00 0.00 1.75
2251 3448 5.296035 CAGTCCCATTTTCCGTACTTTATCC 59.704 44.000 0.00 0.00 0.00 2.59
2252 3449 5.045432 AGTCCCATTTTCCGTACTTTATCCA 60.045 40.000 0.00 0.00 0.00 3.41
2253 3450 5.296035 GTCCCATTTTCCGTACTTTATCCAG 59.704 44.000 0.00 0.00 0.00 3.86
2254 3451 5.045432 TCCCATTTTCCGTACTTTATCCAGT 60.045 40.000 0.00 0.00 0.00 4.00
2255 3452 5.650703 CCCATTTTCCGTACTTTATCCAGTT 59.349 40.000 0.00 0.00 0.00 3.16
2256 3453 6.824704 CCCATTTTCCGTACTTTATCCAGTTA 59.175 38.462 0.00 0.00 0.00 2.24
2257 3454 7.501225 CCCATTTTCCGTACTTTATCCAGTTAT 59.499 37.037 0.00 0.00 0.00 1.89
2258 3455 9.550406 CCATTTTCCGTACTTTATCCAGTTATA 57.450 33.333 0.00 0.00 0.00 0.98
2332 3531 4.656100 TTGGGTTCAGAATCAGGATTGA 57.344 40.909 0.00 0.00 37.81 2.57
2354 3553 1.562672 ATGTTGGCCGCTCCTACCTT 61.563 55.000 0.00 0.00 39.43 3.50
2418 3617 3.196901 ACGTTTACATGCCCATCTAGTGA 59.803 43.478 0.00 0.00 0.00 3.41
2428 3627 1.137872 CCATCTAGTGAGGGCTGTGTC 59.862 57.143 0.00 0.00 37.33 3.67
2454 3689 3.674997 TCTGAATGTGAGGTTAGCCAAC 58.325 45.455 0.00 0.00 37.19 3.77
2523 3758 7.745015 AGCGCAATTCGTAGAACTTTTAATTA 58.255 30.769 11.47 0.00 45.90 1.40
2549 3784 3.054287 TGCCGGTTTTGGTCTATTATCCA 60.054 43.478 1.90 0.00 0.00 3.41
2596 3831 6.502136 TCATTCATCTGTCGTATAGCTAGG 57.498 41.667 0.00 0.00 0.00 3.02
2600 3835 5.374071 TCATCTGTCGTATAGCTAGGTTCA 58.626 41.667 0.00 0.00 0.00 3.18
2643 3878 1.749063 CATGCATGGTCTTCACTGCAT 59.251 47.619 19.40 3.19 43.99 3.96
2644 3879 1.456296 TGCATGGTCTTCACTGCATC 58.544 50.000 0.00 0.00 36.08 3.91
2670 3905 3.005155 GCATGGACACAGAAGCTTTTTCT 59.995 43.478 0.00 0.00 0.00 2.52
2714 3949 8.002431 ACAGGACCTATATACCTTATCTGTCT 57.998 38.462 0.00 0.00 31.06 3.41
2769 4004 7.681939 TTGTAACTCCATTGGTTAACTCATC 57.318 36.000 5.42 0.00 32.06 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 9.340695 CGCAATTGTTGAGATAGTTCATTTTTA 57.659 29.630 7.40 0.00 31.66 1.52
24 25 7.329226 CCGCAATTGTTGAGATAGTTCATTTTT 59.671 33.333 7.40 0.00 31.66 1.94
25 26 6.808212 CCGCAATTGTTGAGATAGTTCATTTT 59.192 34.615 7.40 0.00 31.66 1.82
26 27 6.324819 CCGCAATTGTTGAGATAGTTCATTT 58.675 36.000 7.40 0.00 31.66 2.32
27 28 5.163622 CCCGCAATTGTTGAGATAGTTCATT 60.164 40.000 7.40 0.00 31.66 2.57
28 29 4.336433 CCCGCAATTGTTGAGATAGTTCAT 59.664 41.667 7.40 0.00 31.66 2.57
29 30 3.689161 CCCGCAATTGTTGAGATAGTTCA 59.311 43.478 7.40 0.00 31.66 3.18
30 31 3.689649 ACCCGCAATTGTTGAGATAGTTC 59.310 43.478 7.40 0.00 31.66 3.01
31 32 3.440173 CACCCGCAATTGTTGAGATAGTT 59.560 43.478 7.40 0.00 31.66 2.24
32 33 3.009723 CACCCGCAATTGTTGAGATAGT 58.990 45.455 7.40 0.00 31.66 2.12
33 34 3.009723 ACACCCGCAATTGTTGAGATAG 58.990 45.455 7.40 0.00 31.66 2.08
34 35 3.066291 ACACCCGCAATTGTTGAGATA 57.934 42.857 7.40 0.00 31.66 1.98
35 36 1.909700 ACACCCGCAATTGTTGAGAT 58.090 45.000 7.40 0.00 31.66 2.75
36 37 2.552599 TACACCCGCAATTGTTGAGA 57.447 45.000 7.40 0.00 31.66 3.27
37 38 4.024048 GGATATACACCCGCAATTGTTGAG 60.024 45.833 7.40 0.00 0.00 3.02
38 39 3.880490 GGATATACACCCGCAATTGTTGA 59.120 43.478 7.40 0.00 0.00 3.18
39 40 3.882888 AGGATATACACCCGCAATTGTTG 59.117 43.478 7.40 0.00 0.00 3.33
40 41 3.882888 CAGGATATACACCCGCAATTGTT 59.117 43.478 7.40 0.00 0.00 2.83
41 42 3.476552 CAGGATATACACCCGCAATTGT 58.523 45.455 7.40 0.00 0.00 2.71
42 43 2.813754 CCAGGATATACACCCGCAATTG 59.186 50.000 0.00 0.00 0.00 2.32
43 44 2.441750 ACCAGGATATACACCCGCAATT 59.558 45.455 0.00 0.00 0.00 2.32
44 45 2.054799 ACCAGGATATACACCCGCAAT 58.945 47.619 0.00 0.00 0.00 3.56
45 46 1.140052 CACCAGGATATACACCCGCAA 59.860 52.381 0.00 0.00 0.00 4.85
46 47 0.756294 CACCAGGATATACACCCGCA 59.244 55.000 0.00 0.00 0.00 5.69
47 48 0.034896 CCACCAGGATATACACCCGC 59.965 60.000 0.00 0.00 36.89 6.13
48 49 0.034896 GCCACCAGGATATACACCCG 59.965 60.000 0.00 0.00 36.89 5.28
49 50 1.435256 AGCCACCAGGATATACACCC 58.565 55.000 0.00 0.00 36.89 4.61
50 51 2.028020 GCTAGCCACCAGGATATACACC 60.028 54.545 2.29 0.00 34.76 4.16
51 52 2.900546 AGCTAGCCACCAGGATATACAC 59.099 50.000 12.13 0.00 34.76 2.90
52 53 3.260269 AGCTAGCCACCAGGATATACA 57.740 47.619 12.13 0.00 34.76 2.29
53 54 3.367498 CGAAGCTAGCCACCAGGATATAC 60.367 52.174 12.13 0.00 34.76 1.47
54 55 2.826128 CGAAGCTAGCCACCAGGATATA 59.174 50.000 12.13 0.00 34.76 0.86
55 56 1.620819 CGAAGCTAGCCACCAGGATAT 59.379 52.381 12.13 0.00 34.76 1.63
56 57 1.040646 CGAAGCTAGCCACCAGGATA 58.959 55.000 12.13 0.00 36.89 2.59
57 58 0.687757 TCGAAGCTAGCCACCAGGAT 60.688 55.000 12.13 0.00 36.89 3.24
58 59 1.304962 TCGAAGCTAGCCACCAGGA 60.305 57.895 12.13 0.00 36.89 3.86
59 60 1.142748 CTCGAAGCTAGCCACCAGG 59.857 63.158 12.13 0.00 38.23 4.45
60 61 1.520342 GCTCGAAGCTAGCCACCAG 60.520 63.158 12.13 5.10 38.45 4.00
61 62 2.282783 TGCTCGAAGCTAGCCACCA 61.283 57.895 12.13 0.00 42.97 4.17
62 63 1.811679 GTGCTCGAAGCTAGCCACC 60.812 63.158 12.13 0.00 42.97 4.61
63 64 0.390472 AAGTGCTCGAAGCTAGCCAC 60.390 55.000 12.13 11.13 42.97 5.01
64 65 0.390340 CAAGTGCTCGAAGCTAGCCA 60.390 55.000 12.13 0.00 42.97 4.75
65 66 1.700600 GCAAGTGCTCGAAGCTAGCC 61.701 60.000 12.13 0.00 42.97 3.93
66 67 1.016130 TGCAAGTGCTCGAAGCTAGC 61.016 55.000 6.62 6.62 42.97 3.42
67 68 0.997932 CTGCAAGTGCTCGAAGCTAG 59.002 55.000 4.69 0.00 42.97 3.42
68 69 3.128259 CTGCAAGTGCTCGAAGCTA 57.872 52.632 4.69 0.00 42.97 3.32
69 70 3.963222 CTGCAAGTGCTCGAAGCT 58.037 55.556 4.69 0.00 42.97 3.74
80 81 0.738389 ACCAACCGTTTCACTGCAAG 59.262 50.000 0.00 0.00 42.29 4.01
81 82 1.944024 CTACCAACCGTTTCACTGCAA 59.056 47.619 0.00 0.00 0.00 4.08
82 83 1.134340 ACTACCAACCGTTTCACTGCA 60.134 47.619 0.00 0.00 0.00 4.41
83 84 1.589803 ACTACCAACCGTTTCACTGC 58.410 50.000 0.00 0.00 0.00 4.40
84 85 2.220133 CGAACTACCAACCGTTTCACTG 59.780 50.000 0.00 0.00 0.00 3.66
85 86 2.101249 TCGAACTACCAACCGTTTCACT 59.899 45.455 0.00 0.00 0.00 3.41
86 87 2.472816 TCGAACTACCAACCGTTTCAC 58.527 47.619 0.00 0.00 0.00 3.18
87 88 2.886862 TCGAACTACCAACCGTTTCA 57.113 45.000 0.00 0.00 0.00 2.69
88 89 3.124128 GGATTCGAACTACCAACCGTTTC 59.876 47.826 0.00 0.00 0.00 2.78
89 90 3.069289 GGATTCGAACTACCAACCGTTT 58.931 45.455 0.00 0.00 0.00 3.60
90 91 2.613725 GGGATTCGAACTACCAACCGTT 60.614 50.000 16.09 0.00 0.00 4.44
91 92 1.066645 GGGATTCGAACTACCAACCGT 60.067 52.381 16.09 0.00 0.00 4.83
92 93 1.206371 AGGGATTCGAACTACCAACCG 59.794 52.381 14.68 0.00 0.00 4.44
93 94 2.027469 ACAGGGATTCGAACTACCAACC 60.027 50.000 14.68 4.52 0.00 3.77
94 95 3.259902 GACAGGGATTCGAACTACCAAC 58.740 50.000 14.68 2.97 0.00 3.77
95 96 2.235402 GGACAGGGATTCGAACTACCAA 59.765 50.000 14.68 0.00 0.00 3.67
96 97 1.829222 GGACAGGGATTCGAACTACCA 59.171 52.381 14.68 0.00 0.00 3.25
97 98 1.202382 CGGACAGGGATTCGAACTACC 60.202 57.143 0.00 2.98 0.00 3.18
98 99 1.747355 TCGGACAGGGATTCGAACTAC 59.253 52.381 0.00 0.00 0.00 2.73
99 100 2.022195 CTCGGACAGGGATTCGAACTA 58.978 52.381 0.00 0.00 0.00 2.24
100 101 0.818296 CTCGGACAGGGATTCGAACT 59.182 55.000 0.00 0.00 0.00 3.01
101 102 0.806492 GCTCGGACAGGGATTCGAAC 60.806 60.000 0.00 0.00 0.00 3.95
102 103 1.254975 TGCTCGGACAGGGATTCGAA 61.255 55.000 0.00 0.00 0.00 3.71
103 104 1.680989 TGCTCGGACAGGGATTCGA 60.681 57.895 0.00 0.00 0.00 3.71
104 105 1.519455 GTGCTCGGACAGGGATTCG 60.519 63.158 0.00 0.00 0.00 3.34
105 106 1.112113 TAGTGCTCGGACAGGGATTC 58.888 55.000 0.00 0.00 0.00 2.52
106 107 1.794714 ATAGTGCTCGGACAGGGATT 58.205 50.000 0.00 0.00 0.00 3.01
107 108 1.794714 AATAGTGCTCGGACAGGGAT 58.205 50.000 0.00 0.00 0.00 3.85
108 109 1.568504 AAATAGTGCTCGGACAGGGA 58.431 50.000 0.00 0.00 0.00 4.20
109 110 2.403252 AAAATAGTGCTCGGACAGGG 57.597 50.000 0.00 0.00 0.00 4.45
127 128 6.995511 TCTTCTTTCTCGAAAGGTCAAAAA 57.004 33.333 16.80 4.77 45.80 1.94
128 129 6.821665 TCTTCTTCTTTCTCGAAAGGTCAAAA 59.178 34.615 16.80 5.34 45.80 2.44
129 130 6.258068 GTCTTCTTCTTTCTCGAAAGGTCAAA 59.742 38.462 16.80 5.63 45.80 2.69
130 131 5.753921 GTCTTCTTCTTTCTCGAAAGGTCAA 59.246 40.000 16.80 5.92 45.80 3.18
131 132 5.290386 GTCTTCTTCTTTCTCGAAAGGTCA 58.710 41.667 16.80 4.00 45.80 4.02
132 133 4.687018 GGTCTTCTTCTTTCTCGAAAGGTC 59.313 45.833 16.80 2.02 45.80 3.85
133 134 4.101119 TGGTCTTCTTCTTTCTCGAAAGGT 59.899 41.667 16.80 0.00 45.80 3.50
134 135 4.632153 TGGTCTTCTTCTTTCTCGAAAGG 58.368 43.478 16.80 4.90 45.80 3.11
135 136 4.688413 CCTGGTCTTCTTCTTTCTCGAAAG 59.312 45.833 12.10 12.10 46.82 2.62
136 137 4.344102 TCCTGGTCTTCTTCTTTCTCGAAA 59.656 41.667 0.00 0.00 0.00 3.46
137 138 3.895656 TCCTGGTCTTCTTCTTTCTCGAA 59.104 43.478 0.00 0.00 0.00 3.71
138 139 3.497332 TCCTGGTCTTCTTCTTTCTCGA 58.503 45.455 0.00 0.00 0.00 4.04
139 140 3.944055 TCCTGGTCTTCTTCTTTCTCG 57.056 47.619 0.00 0.00 0.00 4.04
140 141 4.284746 TCCTTCCTGGTCTTCTTCTTTCTC 59.715 45.833 0.00 0.00 37.07 2.87
141 142 4.235372 TCCTTCCTGGTCTTCTTCTTTCT 58.765 43.478 0.00 0.00 37.07 2.52
142 143 4.625607 TCCTTCCTGGTCTTCTTCTTTC 57.374 45.455 0.00 0.00 37.07 2.62
143 144 5.590976 ATTCCTTCCTGGTCTTCTTCTTT 57.409 39.130 0.00 0.00 37.07 2.52
144 145 5.590976 AATTCCTTCCTGGTCTTCTTCTT 57.409 39.130 0.00 0.00 37.07 2.52
145 146 6.044404 TGTTAATTCCTTCCTGGTCTTCTTCT 59.956 38.462 0.00 0.00 37.07 2.85
146 147 6.238648 TGTTAATTCCTTCCTGGTCTTCTTC 58.761 40.000 0.00 0.00 37.07 2.87
147 148 6.200878 TGTTAATTCCTTCCTGGTCTTCTT 57.799 37.500 0.00 0.00 37.07 2.52
148 149 5.843019 TGTTAATTCCTTCCTGGTCTTCT 57.157 39.130 0.00 0.00 37.07 2.85
149 150 7.565680 TCTATGTTAATTCCTTCCTGGTCTTC 58.434 38.462 0.00 0.00 37.07 2.87
150 151 7.510675 TCTATGTTAATTCCTTCCTGGTCTT 57.489 36.000 0.00 0.00 37.07 3.01
151 152 7.510675 TTCTATGTTAATTCCTTCCTGGTCT 57.489 36.000 0.00 0.00 37.07 3.85
152 153 7.229506 CCATTCTATGTTAATTCCTTCCTGGTC 59.770 40.741 0.00 0.00 37.07 4.02
153 154 7.062957 CCATTCTATGTTAATTCCTTCCTGGT 58.937 38.462 0.00 0.00 37.07 4.00
154 155 6.491403 CCCATTCTATGTTAATTCCTTCCTGG 59.509 42.308 0.00 0.00 37.10 4.45
155 156 6.015940 GCCCATTCTATGTTAATTCCTTCCTG 60.016 42.308 0.00 0.00 0.00 3.86
156 157 6.071320 GCCCATTCTATGTTAATTCCTTCCT 58.929 40.000 0.00 0.00 0.00 3.36
157 158 5.243954 GGCCCATTCTATGTTAATTCCTTCC 59.756 44.000 0.00 0.00 0.00 3.46
158 159 5.048713 CGGCCCATTCTATGTTAATTCCTTC 60.049 44.000 0.00 0.00 0.00 3.46
159 160 4.827284 CGGCCCATTCTATGTTAATTCCTT 59.173 41.667 0.00 0.00 0.00 3.36
160 161 4.398319 CGGCCCATTCTATGTTAATTCCT 58.602 43.478 0.00 0.00 0.00 3.36
161 162 3.506067 CCGGCCCATTCTATGTTAATTCC 59.494 47.826 0.00 0.00 0.00 3.01
162 163 3.057526 GCCGGCCCATTCTATGTTAATTC 60.058 47.826 18.11 0.00 0.00 2.17
163 164 2.890945 GCCGGCCCATTCTATGTTAATT 59.109 45.455 18.11 0.00 0.00 1.40
164 165 2.514803 GCCGGCCCATTCTATGTTAAT 58.485 47.619 18.11 0.00 0.00 1.40
165 166 1.477923 GGCCGGCCCATTCTATGTTAA 60.478 52.381 36.64 0.00 0.00 2.01
166 167 0.109723 GGCCGGCCCATTCTATGTTA 59.890 55.000 36.64 0.00 0.00 2.41
167 168 1.152756 GGCCGGCCCATTCTATGTT 60.153 57.895 36.64 0.00 0.00 2.71
168 169 2.515901 GGCCGGCCCATTCTATGT 59.484 61.111 36.64 0.00 0.00 2.29
179 180 4.021925 AGTCTGAACTGGGCCGGC 62.022 66.667 21.18 21.18 33.32 6.13
187 188 0.244994 CGCCTGTAGCAGTCTGAACT 59.755 55.000 3.32 0.00 44.04 3.01
188 189 1.355066 GCGCCTGTAGCAGTCTGAAC 61.355 60.000 3.32 1.37 44.04 3.18
189 190 1.079819 GCGCCTGTAGCAGTCTGAA 60.080 57.895 3.32 0.00 44.04 3.02
190 191 2.573869 GCGCCTGTAGCAGTCTGA 59.426 61.111 3.32 0.00 44.04 3.27
191 192 2.510238 GGCGCCTGTAGCAGTCTG 60.510 66.667 22.15 0.00 44.04 3.51
192 193 3.775654 GGGCGCCTGTAGCAGTCT 61.776 66.667 28.56 0.00 44.04 3.24
195 196 4.760047 AACGGGCGCCTGTAGCAG 62.760 66.667 39.84 17.40 44.04 4.24
196 197 4.323477 AAACGGGCGCCTGTAGCA 62.323 61.111 39.84 0.00 44.04 3.49
197 198 3.799755 CAAACGGGCGCCTGTAGC 61.800 66.667 39.84 15.80 34.70 3.58
198 199 3.799755 GCAAACGGGCGCCTGTAG 61.800 66.667 39.84 32.85 34.70 2.74
199 200 4.627801 TGCAAACGGGCGCCTGTA 62.628 61.111 39.84 22.81 34.70 2.74
201 202 3.572196 ATTTGCAAACGGGCGCCTG 62.572 57.895 33.73 33.73 36.28 4.85
202 203 1.528292 TAATTTGCAAACGGGCGCCT 61.528 50.000 28.56 3.74 36.28 5.52
203 204 1.080434 TAATTTGCAAACGGGCGCC 60.080 52.632 21.18 21.18 36.28 6.53
204 205 0.664767 TGTAATTTGCAAACGGGCGC 60.665 50.000 15.41 0.00 36.28 6.53
205 206 1.056869 GTGTAATTTGCAAACGGGCG 58.943 50.000 15.41 0.00 36.28 6.13
206 207 2.058057 CAGTGTAATTTGCAAACGGGC 58.942 47.619 15.41 6.01 0.00 6.13
207 208 3.363341 ACAGTGTAATTTGCAAACGGG 57.637 42.857 15.41 2.98 0.00 5.28
208 209 4.377445 CGTTACAGTGTAATTTGCAAACGG 59.623 41.667 18.35 5.40 35.30 4.44
209 210 4.377445 CCGTTACAGTGTAATTTGCAAACG 59.623 41.667 18.35 15.84 37.04 3.60
210 211 4.677832 CCCGTTACAGTGTAATTTGCAAAC 59.322 41.667 18.35 3.07 0.00 2.93
211 212 4.793353 GCCCGTTACAGTGTAATTTGCAAA 60.793 41.667 18.35 15.44 0.00 3.68
212 213 3.304794 GCCCGTTACAGTGTAATTTGCAA 60.305 43.478 18.35 0.00 0.00 4.08
213 214 2.226912 GCCCGTTACAGTGTAATTTGCA 59.773 45.455 18.35 0.00 0.00 4.08
214 215 2.726681 CGCCCGTTACAGTGTAATTTGC 60.727 50.000 18.35 17.57 0.00 3.68
215 216 2.726681 GCGCCCGTTACAGTGTAATTTG 60.727 50.000 18.35 11.34 0.00 2.32
216 217 1.465777 GCGCCCGTTACAGTGTAATTT 59.534 47.619 18.35 0.00 0.00 1.82
217 218 1.081094 GCGCCCGTTACAGTGTAATT 58.919 50.000 18.35 0.00 0.00 1.40
218 219 0.741927 GGCGCCCGTTACAGTGTAAT 60.742 55.000 18.11 0.00 0.00 1.89
219 220 1.374505 GGCGCCCGTTACAGTGTAA 60.375 57.895 18.11 11.75 0.00 2.41
220 221 2.262292 GGCGCCCGTTACAGTGTA 59.738 61.111 18.11 0.00 0.00 2.90
221 222 3.622826 AGGCGCCCGTTACAGTGT 61.623 61.111 26.15 0.00 0.00 3.55
222 223 3.118454 CAGGCGCCCGTTACAGTG 61.118 66.667 26.15 8.46 0.00 3.66
237 238 0.170116 TTTTCTATTTGGCGCCGCAG 59.830 50.000 23.90 15.50 0.00 5.18
238 239 0.814457 ATTTTCTATTTGGCGCCGCA 59.186 45.000 23.90 11.46 0.00 5.69
239 240 1.477105 GATTTTCTATTTGGCGCCGC 58.523 50.000 23.90 0.00 0.00 6.53
240 241 1.269051 GGGATTTTCTATTTGGCGCCG 60.269 52.381 23.90 6.99 0.00 6.46
241 242 1.068588 GGGGATTTTCTATTTGGCGCC 59.931 52.381 22.73 22.73 0.00 6.53
242 243 1.269051 CGGGGATTTTCTATTTGGCGC 60.269 52.381 0.00 0.00 0.00 6.53
243 244 1.269051 GCGGGGATTTTCTATTTGGCG 60.269 52.381 0.00 0.00 0.00 5.69
244 245 1.269051 CGCGGGGATTTTCTATTTGGC 60.269 52.381 0.00 0.00 0.00 4.52
245 246 2.021457 ACGCGGGGATTTTCTATTTGG 58.979 47.619 12.47 0.00 0.00 3.28
246 247 3.691498 GAACGCGGGGATTTTCTATTTG 58.309 45.455 12.47 0.00 0.00 2.32
247 248 2.353579 CGAACGCGGGGATTTTCTATTT 59.646 45.455 12.47 0.00 0.00 1.40
248 249 1.937899 CGAACGCGGGGATTTTCTATT 59.062 47.619 12.47 0.00 0.00 1.73
249 250 1.578583 CGAACGCGGGGATTTTCTAT 58.421 50.000 12.47 0.00 0.00 1.98
250 251 3.053662 CGAACGCGGGGATTTTCTA 57.946 52.632 12.47 0.00 0.00 2.10
251 252 3.884900 CGAACGCGGGGATTTTCT 58.115 55.556 12.47 0.00 0.00 2.52
264 265 4.612412 TGGTGACCGGTGCCGAAC 62.612 66.667 14.63 1.71 42.83 3.95
265 266 4.308458 CTGGTGACCGGTGCCGAA 62.308 66.667 14.63 0.00 42.83 4.30
268 269 4.699522 GTCCTGGTGACCGGTGCC 62.700 72.222 14.63 15.42 38.09 5.01
395 399 4.717313 GTCTGGTCCGGGTTGGCC 62.717 72.222 0.00 0.00 37.80 5.36
585 589 8.297470 ACCATCAGTACAATCAAGCAAATAAT 57.703 30.769 0.00 0.00 0.00 1.28
759 1048 8.026607 TGCAGCAAACCTTACTAAATATTCAAC 58.973 33.333 0.00 0.00 0.00 3.18
760 1049 8.026607 GTGCAGCAAACCTTACTAAATATTCAA 58.973 33.333 0.00 0.00 0.00 2.69
775 1064 0.179076 AAAAGGCAGTGCAGCAAACC 60.179 50.000 18.61 0.00 35.83 3.27
837 2029 8.717821 CATTGTCGAAAATACTCCTTTAACAGA 58.282 33.333 0.00 0.00 0.00 3.41
846 2038 8.543774 CACTAGATTCATTGTCGAAAATACTCC 58.456 37.037 0.00 0.00 0.00 3.85
962 2154 1.553248 AGTCGATTTGGGATCAACGGA 59.447 47.619 0.00 0.00 31.78 4.69
983 2175 1.339610 CCATCGTGTTGCAGGGAAAAA 59.660 47.619 0.00 0.00 0.00 1.94
1004 2196 0.969894 CCAGTCAACGTCCTCCTTCT 59.030 55.000 0.00 0.00 0.00 2.85
1006 2198 0.680061 GTCCAGTCAACGTCCTCCTT 59.320 55.000 0.00 0.00 0.00 3.36
1149 2341 2.901192 TCCATTCCTGACCTTGTCGTAA 59.099 45.455 0.00 0.00 34.95 3.18
1187 2379 3.005578 GGTTGGTCTAGAATAGTAGGCGG 59.994 52.174 0.00 0.00 40.38 6.13
1188 2380 3.304525 CGGTTGGTCTAGAATAGTAGGCG 60.305 52.174 0.00 0.00 40.38 5.52
1355 2547 2.678336 GTGCCATACTTCCTAACAGCAC 59.322 50.000 0.00 0.00 42.06 4.40
1403 2595 5.995282 ACACTCGGAACAATTGTATCTTCAA 59.005 36.000 12.39 0.00 0.00 2.69
1421 2613 0.510359 GCTGCTGTTCTCAACACTCG 59.490 55.000 0.00 0.00 36.25 4.18
1502 2694 4.458989 GCCTGTCATTTATTGGAGTGTTGA 59.541 41.667 0.00 0.00 0.00 3.18
1519 2711 2.393768 CCATCGTGCACTGCCTGTC 61.394 63.158 16.19 0.00 0.00 3.51
1532 2724 2.047274 ACGGCCAAGACACCATCG 60.047 61.111 2.24 0.00 0.00 3.84
1553 2745 7.294584 ACCTATAGAGATCATCCTAGGCATAC 58.705 42.308 2.96 0.00 37.35 2.39
1563 2755 9.685828 GAAACAGTTGTACCTATAGAGATCATC 57.314 37.037 0.00 0.00 0.00 2.92
1698 2890 3.622206 GCAGAATACCAATGACCTCACCA 60.622 47.826 0.00 0.00 0.00 4.17
1701 2893 3.998913 TGCAGAATACCAATGACCTCA 57.001 42.857 0.00 0.00 0.00 3.86
1733 2925 2.395367 GAAGATCGAGCGGGTCCGAG 62.395 65.000 14.15 3.80 42.83 4.63
1756 2948 3.469970 ATGCAGATGCGACCCCGA 61.470 61.111 0.00 0.00 45.83 5.14
2022 3219 5.069914 ACATGCCTATGGTTTCGTCATACTA 59.930 40.000 0.00 0.00 38.66 1.82
2037 3234 5.704515 GCATATCTGAAGAACACATGCCTAT 59.295 40.000 0.00 0.00 33.00 2.57
2038 3235 5.059161 GCATATCTGAAGAACACATGCCTA 58.941 41.667 0.00 0.00 33.00 3.93
2114 3311 8.630054 ACACTTACCAAACACACAACATATAT 57.370 30.769 0.00 0.00 0.00 0.86
2115 3312 8.991026 GTACACTTACCAAACACACAACATATA 58.009 33.333 0.00 0.00 0.00 0.86
2142 3339 2.026822 CCCTGCTGGTGAAACATAGACT 60.027 50.000 9.00 0.00 39.98 3.24
2143 3340 2.359900 CCCTGCTGGTGAAACATAGAC 58.640 52.381 9.00 0.00 39.98 2.59
2166 3363 5.467705 GCATCTTGAGAAAAAGAAGCACAT 58.532 37.500 8.75 0.00 45.61 3.21
2224 3421 2.635915 AGTACGGAAAATGGGACTGACA 59.364 45.455 0.00 0.00 0.00 3.58
2225 3422 3.329929 AGTACGGAAAATGGGACTGAC 57.670 47.619 0.00 0.00 0.00 3.51
2226 3423 4.360951 AAAGTACGGAAAATGGGACTGA 57.639 40.909 0.00 0.00 0.00 3.41
2227 3424 5.296035 GGATAAAGTACGGAAAATGGGACTG 59.704 44.000 0.00 0.00 0.00 3.51
2228 3425 5.045432 TGGATAAAGTACGGAAAATGGGACT 60.045 40.000 0.00 0.00 0.00 3.85
2229 3426 5.187687 TGGATAAAGTACGGAAAATGGGAC 58.812 41.667 0.00 0.00 0.00 4.46
2230 3427 5.045432 ACTGGATAAAGTACGGAAAATGGGA 60.045 40.000 0.00 0.00 0.00 4.37
2231 3428 5.190677 ACTGGATAAAGTACGGAAAATGGG 58.809 41.667 0.00 0.00 0.00 4.00
2232 3429 6.753107 AACTGGATAAAGTACGGAAAATGG 57.247 37.500 0.00 0.00 0.00 3.16
2236 3433 9.590451 CACTTATAACTGGATAAAGTACGGAAA 57.410 33.333 0.00 0.00 0.00 3.13
2237 3434 8.752187 ACACTTATAACTGGATAAAGTACGGAA 58.248 33.333 0.00 0.00 0.00 4.30
2238 3435 8.297470 ACACTTATAACTGGATAAAGTACGGA 57.703 34.615 0.00 0.00 0.00 4.69
2239 3436 8.937634 AACACTTATAACTGGATAAAGTACGG 57.062 34.615 0.00 0.00 0.00 4.02
2240 3437 9.577110 TGAACACTTATAACTGGATAAAGTACG 57.423 33.333 0.00 0.00 0.00 3.67
2243 3440 9.877178 CTCTGAACACTTATAACTGGATAAAGT 57.123 33.333 0.00 0.00 0.00 2.66
2244 3441 8.821894 GCTCTGAACACTTATAACTGGATAAAG 58.178 37.037 0.00 0.00 0.00 1.85
2245 3442 8.540388 AGCTCTGAACACTTATAACTGGATAAA 58.460 33.333 0.00 0.00 0.00 1.40
2246 3443 8.079211 AGCTCTGAACACTTATAACTGGATAA 57.921 34.615 0.00 0.00 0.00 1.75
2247 3444 7.661536 AGCTCTGAACACTTATAACTGGATA 57.338 36.000 0.00 0.00 0.00 2.59
2248 3445 6.552445 AGCTCTGAACACTTATAACTGGAT 57.448 37.500 0.00 0.00 0.00 3.41
2249 3446 6.663953 ACTAGCTCTGAACACTTATAACTGGA 59.336 38.462 0.00 0.00 0.00 3.86
2250 3447 6.868622 ACTAGCTCTGAACACTTATAACTGG 58.131 40.000 0.00 0.00 0.00 4.00
2251 3448 8.651588 CAAACTAGCTCTGAACACTTATAACTG 58.348 37.037 0.00 0.00 0.00 3.16
2252 3449 7.819900 CCAAACTAGCTCTGAACACTTATAACT 59.180 37.037 0.00 0.00 0.00 2.24
2253 3450 7.603024 ACCAAACTAGCTCTGAACACTTATAAC 59.397 37.037 0.00 0.00 0.00 1.89
2254 3451 7.676947 ACCAAACTAGCTCTGAACACTTATAA 58.323 34.615 0.00 0.00 0.00 0.98
2255 3452 7.241042 ACCAAACTAGCTCTGAACACTTATA 57.759 36.000 0.00 0.00 0.00 0.98
2256 3453 6.115448 ACCAAACTAGCTCTGAACACTTAT 57.885 37.500 0.00 0.00 0.00 1.73
2257 3454 5.546621 ACCAAACTAGCTCTGAACACTTA 57.453 39.130 0.00 0.00 0.00 2.24
2258 3455 4.423625 ACCAAACTAGCTCTGAACACTT 57.576 40.909 0.00 0.00 0.00 3.16
2259 3456 5.746990 ATACCAAACTAGCTCTGAACACT 57.253 39.130 0.00 0.00 0.00 3.55
2332 3531 0.107654 GTAGGAGCGGCCAACATTCT 60.108 55.000 2.24 0.00 40.02 2.40
2418 3617 0.468226 TCAGAAAACGACACAGCCCT 59.532 50.000 0.00 0.00 0.00 5.19
2428 3627 4.378459 GGCTAACCTCACATTCAGAAAACG 60.378 45.833 0.00 0.00 0.00 3.60
2454 3689 4.129380 TCATGTCTCTGAACCAAACACTG 58.871 43.478 0.00 0.00 0.00 3.66
2523 3758 2.279935 TAGACCAAAACCGGCACAAT 57.720 45.000 0.00 0.00 0.00 2.71
2549 3784 3.945981 TCACACAAATTGCTGCATGAT 57.054 38.095 1.84 0.00 0.00 2.45
2596 3831 1.725931 GCAACATAGCAGTGCGTGAAC 60.726 52.381 24.22 12.37 0.00 3.18
2600 3835 0.518636 CAAGCAACATAGCAGTGCGT 59.481 50.000 10.00 0.00 36.85 5.24
2643 3878 2.502947 AGCTTCTGTGTCCATGCATAGA 59.497 45.455 0.00 0.00 35.35 1.98
2644 3879 2.915349 AGCTTCTGTGTCCATGCATAG 58.085 47.619 0.00 0.00 0.00 2.23
2651 3886 6.959639 AATTAGAAAAAGCTTCTGTGTCCA 57.040 33.333 0.00 0.00 0.00 4.02
2670 3905 5.727279 TCCTGTACACCCCACTCAATAATTA 59.273 40.000 0.00 0.00 0.00 1.40
2755 3990 5.009610 ACAACAAAGCGATGAGTTAACCAAT 59.990 36.000 0.88 0.00 0.00 3.16
2769 4004 3.712187 ACCACCAAATAACAACAAAGCG 58.288 40.909 0.00 0.00 0.00 4.68


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

AutoCloner maintained by Alex Coulton.