Multiple sequence alignment - TraesCS2B01G268600

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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 TraesCS2B01G268600 chr2B 100.000 2597 0 0 1 2597 363488365 363485769 0.000000e+00 4796.0
1 TraesCS2B01G268600 chr2D 96.479 2357 34 13 289 2597 298836697 298839052 0.000000e+00 3847.0
2 TraesCS2B01G268600 chr2A 95.457 2157 51 20 479 2597 372370732 372372879 0.000000e+00 3397.0
3 TraesCS2B01G268600 chr1D 97.619 42 1 0 1026 1067 474282833 474282792 3.580000e-09 73.1
4 TraesCS2B01G268600 chr1A 94.872 39 2 0 1029 1067 568638179 568638141 7.760000e-06 62.1


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 TraesCS2B01G268600 chr2B 363485769 363488365 2596 True 4796 4796 100.000 1 2597 1 chr2B.!!$R1 2596
1 TraesCS2B01G268600 chr2D 298836697 298839052 2355 False 3847 3847 96.479 289 2597 1 chr2D.!!$F1 2308
2 TraesCS2B01G268600 chr2A 372370732 372372879 2147 False 3397 3397 95.457 479 2597 1 chr2A.!!$F1 2118

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
267 268 0.031616 AGTTGGCCCCACCTCAAAAA 60.032 50.0 0.0 0.0 40.22 1.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1806 1854 3.447586 GGTACTGAGAATGGCTACACTCA 59.552 47.826 7.55 7.55 37.71 3.41 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
20 21 2.710220 TGCTGTAATTTGTGCTGCTG 57.290 45.000 0.00 0.00 37.62 4.41
21 22 1.955778 TGCTGTAATTTGTGCTGCTGT 59.044 42.857 0.00 0.00 37.62 4.40
22 23 2.361757 TGCTGTAATTTGTGCTGCTGTT 59.638 40.909 0.00 0.00 37.62 3.16
23 24 2.727798 GCTGTAATTTGTGCTGCTGTTG 59.272 45.455 0.00 0.00 34.58 3.33
24 25 3.796504 GCTGTAATTTGTGCTGCTGTTGT 60.797 43.478 0.00 0.00 34.58 3.32
25 26 4.362279 CTGTAATTTGTGCTGCTGTTGTT 58.638 39.130 0.00 0.00 0.00 2.83
26 27 4.111198 TGTAATTTGTGCTGCTGTTGTTG 58.889 39.130 0.00 0.00 0.00 3.33
27 28 3.523606 AATTTGTGCTGCTGTTGTTGA 57.476 38.095 0.00 0.00 0.00 3.18
28 29 3.738830 ATTTGTGCTGCTGTTGTTGAT 57.261 38.095 0.00 0.00 0.00 2.57
29 30 4.852134 ATTTGTGCTGCTGTTGTTGATA 57.148 36.364 0.00 0.00 0.00 2.15
30 31 4.645762 TTTGTGCTGCTGTTGTTGATAA 57.354 36.364 0.00 0.00 0.00 1.75
31 32 4.645762 TTGTGCTGCTGTTGTTGATAAA 57.354 36.364 0.00 0.00 0.00 1.40
32 33 3.963665 TGTGCTGCTGTTGTTGATAAAC 58.036 40.909 0.00 0.00 0.00 2.01
33 34 3.243367 TGTGCTGCTGTTGTTGATAAACC 60.243 43.478 0.00 0.00 0.00 3.27
34 35 2.954989 TGCTGCTGTTGTTGATAAACCA 59.045 40.909 0.00 0.00 0.00 3.67
35 36 3.243367 TGCTGCTGTTGTTGATAAACCAC 60.243 43.478 0.00 0.00 0.00 4.16
36 37 3.243367 GCTGCTGTTGTTGATAAACCACA 60.243 43.478 0.17 0.17 0.00 4.17
37 38 4.736168 GCTGCTGTTGTTGATAAACCACAA 60.736 41.667 1.73 0.00 29.56 3.33
38 39 4.677584 TGCTGTTGTTGATAAACCACAAC 58.322 39.130 7.33 7.33 44.21 3.32
46 47 6.595772 GTTGATAAACCACAACAAATTGCA 57.404 33.333 0.00 0.00 43.66 4.08
47 48 6.648502 GTTGATAAACCACAACAAATTGCAG 58.351 36.000 0.00 0.00 43.66 4.41
48 49 5.295950 TGATAAACCACAACAAATTGCAGG 58.704 37.500 0.00 0.00 39.66 4.85
49 50 3.625649 AAACCACAACAAATTGCAGGT 57.374 38.095 0.00 0.00 44.91 4.00
50 51 4.744795 AAACCACAACAAATTGCAGGTA 57.255 36.364 0.00 0.00 43.22 3.08
51 52 4.744795 AACCACAACAAATTGCAGGTAA 57.255 36.364 0.00 0.00 43.22 2.85
52 53 4.744795 ACCACAACAAATTGCAGGTAAA 57.255 36.364 0.00 0.00 42.59 2.01
53 54 5.289083 ACCACAACAAATTGCAGGTAAAT 57.711 34.783 0.00 0.00 42.59 1.40
54 55 5.055812 ACCACAACAAATTGCAGGTAAATG 58.944 37.500 0.00 0.00 42.59 2.32
55 56 4.451774 CCACAACAAATTGCAGGTAAATGG 59.548 41.667 0.00 0.00 39.66 3.16
56 57 4.451774 CACAACAAATTGCAGGTAAATGGG 59.548 41.667 0.00 0.00 39.66 4.00
57 58 4.346418 ACAACAAATTGCAGGTAAATGGGA 59.654 37.500 0.00 0.00 39.66 4.37
58 59 5.163258 ACAACAAATTGCAGGTAAATGGGAA 60.163 36.000 0.00 0.00 39.66 3.97
59 60 5.559148 ACAAATTGCAGGTAAATGGGAAA 57.441 34.783 0.00 0.00 0.00 3.13
60 61 5.550290 ACAAATTGCAGGTAAATGGGAAAG 58.450 37.500 0.00 0.00 0.00 2.62
61 62 5.306678 ACAAATTGCAGGTAAATGGGAAAGA 59.693 36.000 0.00 0.00 0.00 2.52
62 63 6.013466 ACAAATTGCAGGTAAATGGGAAAGAT 60.013 34.615 0.00 0.00 0.00 2.40
63 64 6.625532 AATTGCAGGTAAATGGGAAAGATT 57.374 33.333 0.00 0.00 0.00 2.40
64 65 5.404466 TTGCAGGTAAATGGGAAAGATTG 57.596 39.130 0.00 0.00 0.00 2.67
65 66 4.671831 TGCAGGTAAATGGGAAAGATTGA 58.328 39.130 0.00 0.00 0.00 2.57
66 67 5.083122 TGCAGGTAAATGGGAAAGATTGAA 58.917 37.500 0.00 0.00 0.00 2.69
67 68 5.185635 TGCAGGTAAATGGGAAAGATTGAAG 59.814 40.000 0.00 0.00 0.00 3.02
68 69 5.185828 GCAGGTAAATGGGAAAGATTGAAGT 59.814 40.000 0.00 0.00 0.00 3.01
69 70 6.625960 GCAGGTAAATGGGAAAGATTGAAGTC 60.626 42.308 0.00 0.00 0.00 3.01
70 71 6.660949 CAGGTAAATGGGAAAGATTGAAGTCT 59.339 38.462 0.00 0.00 0.00 3.24
71 72 7.829211 CAGGTAAATGGGAAAGATTGAAGTCTA 59.171 37.037 0.00 0.00 0.00 2.59
72 73 8.049721 AGGTAAATGGGAAAGATTGAAGTCTAG 58.950 37.037 0.00 0.00 0.00 2.43
73 74 8.047310 GGTAAATGGGAAAGATTGAAGTCTAGA 58.953 37.037 0.00 0.00 0.00 2.43
74 75 9.103861 GTAAATGGGAAAGATTGAAGTCTAGAG 57.896 37.037 0.00 0.00 0.00 2.43
75 76 5.683876 TGGGAAAGATTGAAGTCTAGAGG 57.316 43.478 0.00 0.00 0.00 3.69
76 77 5.342017 TGGGAAAGATTGAAGTCTAGAGGA 58.658 41.667 0.00 0.00 0.00 3.71
77 78 5.966935 TGGGAAAGATTGAAGTCTAGAGGAT 59.033 40.000 0.00 0.00 0.00 3.24
78 79 6.126940 TGGGAAAGATTGAAGTCTAGAGGATG 60.127 42.308 0.00 0.00 0.00 3.51
79 80 6.287525 GGAAAGATTGAAGTCTAGAGGATGG 58.712 44.000 0.00 0.00 0.00 3.51
80 81 6.098982 GGAAAGATTGAAGTCTAGAGGATGGA 59.901 42.308 0.00 0.00 0.00 3.41
81 82 6.478512 AAGATTGAAGTCTAGAGGATGGAC 57.521 41.667 0.00 0.00 39.61 4.02
82 83 5.523588 AGATTGAAGTCTAGAGGATGGACA 58.476 41.667 0.00 0.00 41.68 4.02
83 84 5.598005 AGATTGAAGTCTAGAGGATGGACAG 59.402 44.000 0.00 0.00 41.68 3.51
84 85 3.636679 TGAAGTCTAGAGGATGGACAGG 58.363 50.000 0.00 0.00 41.68 4.00
85 86 3.269643 TGAAGTCTAGAGGATGGACAGGA 59.730 47.826 0.00 0.00 41.68 3.86
86 87 4.264397 TGAAGTCTAGAGGATGGACAGGAA 60.264 45.833 0.00 0.00 41.68 3.36
87 88 4.338795 AGTCTAGAGGATGGACAGGAAA 57.661 45.455 0.00 0.00 41.68 3.13
88 89 4.689062 AGTCTAGAGGATGGACAGGAAAA 58.311 43.478 0.00 0.00 41.68 2.29
89 90 4.714308 AGTCTAGAGGATGGACAGGAAAAG 59.286 45.833 0.00 0.00 41.68 2.27
90 91 4.033709 TCTAGAGGATGGACAGGAAAAGG 58.966 47.826 0.00 0.00 0.00 3.11
91 92 2.921221 AGAGGATGGACAGGAAAAGGA 58.079 47.619 0.00 0.00 0.00 3.36
92 93 3.260205 AGAGGATGGACAGGAAAAGGAA 58.740 45.455 0.00 0.00 0.00 3.36
93 94 3.265479 AGAGGATGGACAGGAAAAGGAAG 59.735 47.826 0.00 0.00 0.00 3.46
94 95 2.310052 AGGATGGACAGGAAAAGGAAGG 59.690 50.000 0.00 0.00 0.00 3.46
95 96 2.095461 GATGGACAGGAAAAGGAAGGC 58.905 52.381 0.00 0.00 0.00 4.35
96 97 0.850100 TGGACAGGAAAAGGAAGGCA 59.150 50.000 0.00 0.00 0.00 4.75
97 98 1.216678 TGGACAGGAAAAGGAAGGCAA 59.783 47.619 0.00 0.00 0.00 4.52
98 99 1.613925 GGACAGGAAAAGGAAGGCAAC 59.386 52.381 0.00 0.00 0.00 4.17
99 100 2.306847 GACAGGAAAAGGAAGGCAACA 58.693 47.619 0.00 0.00 41.41 3.33
100 101 2.693074 GACAGGAAAAGGAAGGCAACAA 59.307 45.455 0.00 0.00 41.41 2.83
101 102 3.103742 ACAGGAAAAGGAAGGCAACAAA 58.896 40.909 0.00 0.00 41.41 2.83
102 103 3.132824 ACAGGAAAAGGAAGGCAACAAAG 59.867 43.478 0.00 0.00 41.41 2.77
103 104 2.700371 AGGAAAAGGAAGGCAACAAAGG 59.300 45.455 0.00 0.00 41.41 3.11
104 105 2.483876 GAAAAGGAAGGCAACAAAGGC 58.516 47.619 0.00 0.00 41.41 4.35
105 106 1.494960 AAAGGAAGGCAACAAAGGCA 58.505 45.000 0.00 0.00 41.41 4.75
106 107 1.494960 AAGGAAGGCAACAAAGGCAA 58.505 45.000 0.00 0.00 41.41 4.52
107 108 1.494960 AGGAAGGCAACAAAGGCAAA 58.505 45.000 0.00 0.00 41.41 3.68
108 109 1.413812 AGGAAGGCAACAAAGGCAAAG 59.586 47.619 0.00 0.00 41.41 2.77
109 110 1.412343 GGAAGGCAACAAAGGCAAAGA 59.588 47.619 0.00 0.00 41.41 2.52
110 111 2.546584 GGAAGGCAACAAAGGCAAAGAG 60.547 50.000 0.00 0.00 41.41 2.85
111 112 1.780503 AGGCAACAAAGGCAAAGAGT 58.219 45.000 0.00 0.00 41.41 3.24
112 113 1.683385 AGGCAACAAAGGCAAAGAGTC 59.317 47.619 0.00 0.00 41.41 3.36
113 114 1.683385 GGCAACAAAGGCAAAGAGTCT 59.317 47.619 0.00 0.00 0.00 3.24
114 115 2.884639 GGCAACAAAGGCAAAGAGTCTA 59.115 45.455 0.00 0.00 0.00 2.59
115 116 3.317993 GGCAACAAAGGCAAAGAGTCTAA 59.682 43.478 0.00 0.00 0.00 2.10
116 117 4.202111 GGCAACAAAGGCAAAGAGTCTAAA 60.202 41.667 0.00 0.00 0.00 1.85
117 118 5.509670 GGCAACAAAGGCAAAGAGTCTAAAT 60.510 40.000 0.00 0.00 0.00 1.40
118 119 5.985530 GCAACAAAGGCAAAGAGTCTAAATT 59.014 36.000 0.00 0.00 0.00 1.82
119 120 6.479990 GCAACAAAGGCAAAGAGTCTAAATTT 59.520 34.615 0.00 0.00 0.00 1.82
120 121 7.517259 GCAACAAAGGCAAAGAGTCTAAATTTG 60.517 37.037 0.00 4.19 37.07 2.32
121 122 7.112452 ACAAAGGCAAAGAGTCTAAATTTGT 57.888 32.000 0.00 12.45 36.52 2.83
122 123 8.232913 ACAAAGGCAAAGAGTCTAAATTTGTA 57.767 30.769 14.91 0.00 36.78 2.41
123 124 8.691797 ACAAAGGCAAAGAGTCTAAATTTGTAA 58.308 29.630 14.91 0.00 36.78 2.41
124 125 9.528018 CAAAGGCAAAGAGTCTAAATTTGTAAA 57.472 29.630 0.00 0.00 36.52 2.01
168 169 9.462174 TTGTGATTTGTGTTTAGAAATAGCTTG 57.538 29.630 0.00 0.00 30.71 4.01
169 170 8.845227 TGTGATTTGTGTTTAGAAATAGCTTGA 58.155 29.630 0.00 0.00 30.71 3.02
170 171 9.118236 GTGATTTGTGTTTAGAAATAGCTTGAC 57.882 33.333 0.00 0.00 30.71 3.18
171 172 8.845227 TGATTTGTGTTTAGAAATAGCTTGACA 58.155 29.630 0.00 0.00 30.71 3.58
172 173 9.334693 GATTTGTGTTTAGAAATAGCTTGACAG 57.665 33.333 0.00 0.00 30.71 3.51
173 174 7.801716 TTGTGTTTAGAAATAGCTTGACAGT 57.198 32.000 0.00 0.00 0.00 3.55
174 175 7.189693 TGTGTTTAGAAATAGCTTGACAGTG 57.810 36.000 0.00 0.00 0.00 3.66
175 176 6.080406 GTGTTTAGAAATAGCTTGACAGTGC 58.920 40.000 0.00 0.00 0.00 4.40
176 177 5.762711 TGTTTAGAAATAGCTTGACAGTGCA 59.237 36.000 0.00 0.00 0.00 4.57
177 178 6.073058 TGTTTAGAAATAGCTTGACAGTGCAG 60.073 38.462 0.00 0.00 0.00 4.41
178 179 4.277515 AGAAATAGCTTGACAGTGCAGA 57.722 40.909 0.00 0.00 0.00 4.26
179 180 4.645535 AGAAATAGCTTGACAGTGCAGAA 58.354 39.130 0.00 0.00 0.00 3.02
180 181 5.251764 AGAAATAGCTTGACAGTGCAGAAT 58.748 37.500 0.00 0.00 0.00 2.40
181 182 5.709164 AGAAATAGCTTGACAGTGCAGAATT 59.291 36.000 0.00 0.00 0.00 2.17
182 183 5.557891 AATAGCTTGACAGTGCAGAATTC 57.442 39.130 0.00 0.00 0.00 2.17
183 184 2.854963 AGCTTGACAGTGCAGAATTCA 58.145 42.857 8.44 0.00 0.00 2.57
184 185 3.216800 AGCTTGACAGTGCAGAATTCAA 58.783 40.909 8.44 0.00 0.00 2.69
185 186 3.825014 AGCTTGACAGTGCAGAATTCAAT 59.175 39.130 8.44 0.00 0.00 2.57
186 187 3.918591 GCTTGACAGTGCAGAATTCAATG 59.081 43.478 8.44 0.00 32.59 2.82
187 188 4.320714 GCTTGACAGTGCAGAATTCAATGA 60.321 41.667 8.44 0.00 29.60 2.57
188 189 5.621555 GCTTGACAGTGCAGAATTCAATGAT 60.622 40.000 8.44 0.00 29.60 2.45
189 190 5.556355 TGACAGTGCAGAATTCAATGATC 57.444 39.130 8.44 0.00 29.60 2.92
190 191 5.250982 TGACAGTGCAGAATTCAATGATCT 58.749 37.500 8.44 0.00 29.60 2.75
191 192 5.708697 TGACAGTGCAGAATTCAATGATCTT 59.291 36.000 8.44 0.00 29.60 2.40
192 193 6.880529 TGACAGTGCAGAATTCAATGATCTTA 59.119 34.615 8.44 0.00 29.60 2.10
193 194 7.065443 TGACAGTGCAGAATTCAATGATCTTAG 59.935 37.037 8.44 0.00 29.60 2.18
194 195 6.883217 ACAGTGCAGAATTCAATGATCTTAGT 59.117 34.615 8.44 0.00 29.60 2.24
195 196 7.148289 ACAGTGCAGAATTCAATGATCTTAGTG 60.148 37.037 8.44 0.00 29.60 2.74
196 197 6.318144 AGTGCAGAATTCAATGATCTTAGTGG 59.682 38.462 8.44 0.00 0.00 4.00
197 198 5.066893 TGCAGAATTCAATGATCTTAGTGGC 59.933 40.000 8.44 0.00 0.00 5.01
198 199 5.066893 GCAGAATTCAATGATCTTAGTGGCA 59.933 40.000 8.44 0.00 0.00 4.92
199 200 6.238953 GCAGAATTCAATGATCTTAGTGGCAT 60.239 38.462 8.44 0.00 0.00 4.40
200 201 7.683704 GCAGAATTCAATGATCTTAGTGGCATT 60.684 37.037 8.44 0.00 0.00 3.56
201 202 8.195436 CAGAATTCAATGATCTTAGTGGCATTT 58.805 33.333 8.44 0.00 0.00 2.32
202 203 8.755977 AGAATTCAATGATCTTAGTGGCATTTT 58.244 29.630 8.44 0.00 0.00 1.82
203 204 8.937634 AATTCAATGATCTTAGTGGCATTTTC 57.062 30.769 0.00 0.00 0.00 2.29
204 205 7.465353 TTCAATGATCTTAGTGGCATTTTCA 57.535 32.000 0.00 0.00 0.00 2.69
205 206 6.855836 TCAATGATCTTAGTGGCATTTTCAC 58.144 36.000 0.00 0.00 35.51 3.18
206 207 6.433716 TCAATGATCTTAGTGGCATTTTCACA 59.566 34.615 0.00 0.00 37.58 3.58
207 208 7.123098 TCAATGATCTTAGTGGCATTTTCACAT 59.877 33.333 0.00 0.00 37.58 3.21
208 209 6.839124 TGATCTTAGTGGCATTTTCACATT 57.161 33.333 0.00 0.00 37.58 2.71
209 210 7.936496 TGATCTTAGTGGCATTTTCACATTA 57.064 32.000 0.00 0.00 37.58 1.90
210 211 8.523915 TGATCTTAGTGGCATTTTCACATTAT 57.476 30.769 0.00 0.00 37.58 1.28
211 212 8.623903 TGATCTTAGTGGCATTTTCACATTATC 58.376 33.333 0.00 0.00 37.58 1.75
212 213 7.936496 TCTTAGTGGCATTTTCACATTATCA 57.064 32.000 0.00 0.00 37.58 2.15
213 214 8.347004 TCTTAGTGGCATTTTCACATTATCAA 57.653 30.769 0.00 0.00 37.58 2.57
214 215 8.970020 TCTTAGTGGCATTTTCACATTATCAAT 58.030 29.630 0.00 0.00 37.58 2.57
218 219 8.145767 AGTGGCATTTTCACATTATCAATATGG 58.854 33.333 0.00 0.00 37.58 2.74
219 220 6.930164 TGGCATTTTCACATTATCAATATGGC 59.070 34.615 0.00 0.00 36.80 4.40
220 221 7.156673 GGCATTTTCACATTATCAATATGGCT 58.843 34.615 0.00 0.00 34.43 4.75
221 222 7.658575 GGCATTTTCACATTATCAATATGGCTT 59.341 33.333 0.00 0.00 34.43 4.35
222 223 9.048446 GCATTTTCACATTATCAATATGGCTTT 57.952 29.630 0.00 0.00 0.00 3.51
224 225 8.422973 TTTTCACATTATCAATATGGCTTTGC 57.577 30.769 0.00 0.00 0.00 3.68
225 226 6.712179 TCACATTATCAATATGGCTTTGCA 57.288 33.333 0.00 0.00 0.00 4.08
226 227 7.292713 TCACATTATCAATATGGCTTTGCAT 57.707 32.000 0.00 0.00 0.00 3.96
227 228 7.372714 TCACATTATCAATATGGCTTTGCATC 58.627 34.615 0.00 0.00 0.00 3.91
228 229 7.014422 TCACATTATCAATATGGCTTTGCATCA 59.986 33.333 0.00 0.00 0.00 3.07
229 230 7.817478 CACATTATCAATATGGCTTTGCATCAT 59.183 33.333 0.00 0.00 0.00 2.45
230 231 9.027202 ACATTATCAATATGGCTTTGCATCATA 57.973 29.630 0.00 0.00 0.00 2.15
231 232 9.863845 CATTATCAATATGGCTTTGCATCATAA 57.136 29.630 0.00 0.00 0.00 1.90
241 242 8.572828 TGGCTTTGCATCATAATTTATTTACG 57.427 30.769 0.00 0.00 0.00 3.18
242 243 7.168972 TGGCTTTGCATCATAATTTATTTACGC 59.831 33.333 0.00 0.00 0.00 4.42
243 244 7.382218 GGCTTTGCATCATAATTTATTTACGCT 59.618 33.333 0.00 0.00 0.00 5.07
244 245 8.755018 GCTTTGCATCATAATTTATTTACGCTT 58.245 29.630 0.00 0.00 0.00 4.68
254 255 9.946165 ATAATTTATTTACGCTTTAGAGTTGGC 57.054 29.630 0.00 0.00 0.00 4.52
255 256 5.806366 TTATTTACGCTTTAGAGTTGGCC 57.194 39.130 0.00 0.00 0.00 5.36
256 257 2.103537 TTACGCTTTAGAGTTGGCCC 57.896 50.000 0.00 0.00 0.00 5.80
257 258 0.251073 TACGCTTTAGAGTTGGCCCC 59.749 55.000 0.00 0.00 0.00 5.80
258 259 1.002624 CGCTTTAGAGTTGGCCCCA 60.003 57.895 0.00 0.00 0.00 4.96
259 260 1.305930 CGCTTTAGAGTTGGCCCCAC 61.306 60.000 0.00 0.00 0.00 4.61
260 261 0.965866 GCTTTAGAGTTGGCCCCACC 60.966 60.000 0.00 0.00 39.84 4.61
261 262 0.698818 CTTTAGAGTTGGCCCCACCT 59.301 55.000 0.00 0.00 40.22 4.00
262 263 0.696501 TTTAGAGTTGGCCCCACCTC 59.303 55.000 0.00 3.88 40.22 3.85
263 264 0.474854 TTAGAGTTGGCCCCACCTCA 60.475 55.000 13.40 0.00 37.85 3.86
264 265 0.474854 TAGAGTTGGCCCCACCTCAA 60.475 55.000 13.40 0.00 37.85 3.02
265 266 1.152830 GAGTTGGCCCCACCTCAAA 59.847 57.895 0.00 0.00 35.85 2.69
266 267 0.469144 GAGTTGGCCCCACCTCAAAA 60.469 55.000 0.00 0.00 35.85 2.44
267 268 0.031616 AGTTGGCCCCACCTCAAAAA 60.032 50.000 0.00 0.00 40.22 1.94
283 284 2.563297 AAAAATTCCGTCCTCCGCC 58.437 52.632 0.00 0.00 34.38 6.13
284 285 0.250989 AAAAATTCCGTCCTCCGCCA 60.251 50.000 0.00 0.00 34.38 5.69
285 286 0.958876 AAAATTCCGTCCTCCGCCAC 60.959 55.000 0.00 0.00 34.38 5.01
286 287 1.838073 AAATTCCGTCCTCCGCCACT 61.838 55.000 0.00 0.00 34.38 4.00
287 288 2.521958 AATTCCGTCCTCCGCCACTG 62.522 60.000 0.00 0.00 34.38 3.66
298 299 1.526575 CCGCCACTGCTTGAAACCAT 61.527 55.000 0.00 0.00 34.43 3.55
300 301 0.037975 GCCACTGCTTGAAACCATGG 60.038 55.000 11.19 11.19 33.53 3.66
314 315 5.751586 GAAACCATGGACTAAGGGTTCATA 58.248 41.667 21.47 0.00 46.07 2.15
329 330 3.886505 GGTTCATAGACAGAGATCCTCGT 59.113 47.826 0.00 0.00 35.36 4.18
330 331 4.339814 GGTTCATAGACAGAGATCCTCGTT 59.660 45.833 0.00 0.00 35.36 3.85
331 332 5.277825 GTTCATAGACAGAGATCCTCGTTG 58.722 45.833 0.00 0.00 35.36 4.10
340 341 2.758979 GAGATCCTCGTTGTAACCCTCA 59.241 50.000 0.00 0.00 0.00 3.86
341 342 2.496470 AGATCCTCGTTGTAACCCTCAC 59.504 50.000 0.00 0.00 0.00 3.51
352 353 4.168101 TGTAACCCTCACTTGAGATCCTT 58.832 43.478 7.87 0.00 44.74 3.36
375 376 6.899393 TGAGCAAAACCATCTTTATCAACT 57.101 33.333 0.00 0.00 0.00 3.16
418 419 2.032681 AGTTGCGTGGGGCTCTTC 59.967 61.111 0.00 0.00 44.05 2.87
461 463 0.721483 GAGCGCTTGCGTGTGTAAAC 60.721 55.000 13.26 0.00 45.69 2.01
512 514 2.589157 CCCCGCTGGTTCACCTACA 61.589 63.158 0.00 0.00 36.82 2.74
605 607 9.559958 CTTGTGATTTCGCTTTAAGAAATGTAT 57.440 29.630 8.64 0.00 45.18 2.29
778 808 2.167487 GCTCCTTTTGTCGGATCTCTCT 59.833 50.000 0.00 0.00 0.00 3.10
819 849 7.085116 CCTTAGATAGATAAGATTGCGACGTT 58.915 38.462 0.00 0.00 35.19 3.99
986 1016 5.701224 ACTGGGGTTGTTGAATTCTTTAGA 58.299 37.500 7.05 0.00 0.00 2.10
1024 1054 1.452108 GAGGAACAATCTGGCCCGG 60.452 63.158 0.00 0.00 0.00 5.73
1663 1693 5.392380 GGTTCATATGTTTTCTGTCAGCAGG 60.392 44.000 1.90 0.00 42.78 4.85
1806 1854 3.733337 CTTATGCTCGCCCTCTGTTTAT 58.267 45.455 0.00 0.00 0.00 1.40
1817 1865 3.197766 CCCTCTGTTTATGAGTGTAGCCA 59.802 47.826 0.00 0.00 0.00 4.75
2311 2359 2.408050 CTATGGATAAGACGCTGGCAC 58.592 52.381 0.00 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.361757 ACAGCAGCACAAATTACAGCAA 59.638 40.909 0.00 0.00 0.00 3.91
1 2 1.955778 ACAGCAGCACAAATTACAGCA 59.044 42.857 0.00 0.00 0.00 4.41
2 3 2.712057 ACAGCAGCACAAATTACAGC 57.288 45.000 0.00 0.00 0.00 4.40
3 4 3.968649 ACAACAGCAGCACAAATTACAG 58.031 40.909 0.00 0.00 0.00 2.74
4 5 4.111198 CAACAACAGCAGCACAAATTACA 58.889 39.130 0.00 0.00 0.00 2.41
5 6 4.358851 TCAACAACAGCAGCACAAATTAC 58.641 39.130 0.00 0.00 0.00 1.89
6 7 4.645762 TCAACAACAGCAGCACAAATTA 57.354 36.364 0.00 0.00 0.00 1.40
7 8 3.523606 TCAACAACAGCAGCACAAATT 57.476 38.095 0.00 0.00 0.00 1.82
8 9 3.738830 ATCAACAACAGCAGCACAAAT 57.261 38.095 0.00 0.00 0.00 2.32
9 10 4.645762 TTATCAACAACAGCAGCACAAA 57.354 36.364 0.00 0.00 0.00 2.83
10 11 4.358851 GTTTATCAACAACAGCAGCACAA 58.641 39.130 0.00 0.00 32.54 3.33
11 12 3.243367 GGTTTATCAACAACAGCAGCACA 60.243 43.478 0.00 0.00 34.15 4.57
12 13 3.243367 TGGTTTATCAACAACAGCAGCAC 60.243 43.478 0.00 0.00 34.15 4.40
13 14 2.954989 TGGTTTATCAACAACAGCAGCA 59.045 40.909 0.00 0.00 34.15 4.41
14 15 3.243367 TGTGGTTTATCAACAACAGCAGC 60.243 43.478 0.00 0.00 41.26 5.25
15 16 4.566545 TGTGGTTTATCAACAACAGCAG 57.433 40.909 0.00 0.00 41.26 4.24
16 17 4.677584 GTTGTGGTTTATCAACAACAGCA 58.322 39.130 8.73 0.00 45.81 4.41
17 18 4.677584 TGTTGTGGTTTATCAACAACAGC 58.322 39.130 14.65 7.08 45.81 4.40
23 24 6.292811 CCTGCAATTTGTTGTGGTTTATCAAC 60.293 38.462 0.00 0.00 42.62 3.18
24 25 5.757320 CCTGCAATTTGTTGTGGTTTATCAA 59.243 36.000 0.00 0.00 0.00 2.57
25 26 5.163364 ACCTGCAATTTGTTGTGGTTTATCA 60.163 36.000 0.00 0.00 30.91 2.15
26 27 5.296748 ACCTGCAATTTGTTGTGGTTTATC 58.703 37.500 0.00 0.00 30.91 1.75
27 28 5.289083 ACCTGCAATTTGTTGTGGTTTAT 57.711 34.783 0.00 0.00 30.91 1.40
28 29 4.744795 ACCTGCAATTTGTTGTGGTTTA 57.255 36.364 0.00 0.00 30.91 2.01
29 30 3.625649 ACCTGCAATTTGTTGTGGTTT 57.374 38.095 0.00 0.00 30.91 3.27
30 31 4.744795 TTACCTGCAATTTGTTGTGGTT 57.255 36.364 11.10 1.18 34.58 3.67
31 32 4.744795 TTTACCTGCAATTTGTTGTGGT 57.255 36.364 0.00 10.79 35.94 4.16
32 33 4.451774 CCATTTACCTGCAATTTGTTGTGG 59.548 41.667 0.00 0.00 0.00 4.17
33 34 4.451774 CCCATTTACCTGCAATTTGTTGTG 59.548 41.667 0.00 0.00 0.00 3.33
34 35 4.346418 TCCCATTTACCTGCAATTTGTTGT 59.654 37.500 0.00 0.00 0.00 3.32
35 36 4.892433 TCCCATTTACCTGCAATTTGTTG 58.108 39.130 0.00 0.00 0.00 3.33
36 37 5.559148 TTCCCATTTACCTGCAATTTGTT 57.441 34.783 0.00 0.00 0.00 2.83
37 38 5.306678 TCTTTCCCATTTACCTGCAATTTGT 59.693 36.000 0.00 0.00 0.00 2.83
38 39 5.792741 TCTTTCCCATTTACCTGCAATTTG 58.207 37.500 0.00 0.00 0.00 2.32
39 40 6.625532 ATCTTTCCCATTTACCTGCAATTT 57.374 33.333 0.00 0.00 0.00 1.82
40 41 6.213195 TCAATCTTTCCCATTTACCTGCAATT 59.787 34.615 0.00 0.00 0.00 2.32
41 42 5.721000 TCAATCTTTCCCATTTACCTGCAAT 59.279 36.000 0.00 0.00 0.00 3.56
42 43 5.083122 TCAATCTTTCCCATTTACCTGCAA 58.917 37.500 0.00 0.00 0.00 4.08
43 44 4.671831 TCAATCTTTCCCATTTACCTGCA 58.328 39.130 0.00 0.00 0.00 4.41
44 45 5.185828 ACTTCAATCTTTCCCATTTACCTGC 59.814 40.000 0.00 0.00 0.00 4.85
45 46 6.660949 AGACTTCAATCTTTCCCATTTACCTG 59.339 38.462 0.00 0.00 0.00 4.00
46 47 6.794534 AGACTTCAATCTTTCCCATTTACCT 58.205 36.000 0.00 0.00 0.00 3.08
47 48 8.047310 TCTAGACTTCAATCTTTCCCATTTACC 58.953 37.037 0.00 0.00 0.00 2.85
48 49 9.103861 CTCTAGACTTCAATCTTTCCCATTTAC 57.896 37.037 0.00 0.00 0.00 2.01
49 50 8.267894 CCTCTAGACTTCAATCTTTCCCATTTA 58.732 37.037 0.00 0.00 0.00 1.40
50 51 7.037297 TCCTCTAGACTTCAATCTTTCCCATTT 60.037 37.037 0.00 0.00 0.00 2.32
51 52 6.445139 TCCTCTAGACTTCAATCTTTCCCATT 59.555 38.462 0.00 0.00 0.00 3.16
52 53 5.966935 TCCTCTAGACTTCAATCTTTCCCAT 59.033 40.000 0.00 0.00 0.00 4.00
53 54 5.342017 TCCTCTAGACTTCAATCTTTCCCA 58.658 41.667 0.00 0.00 0.00 4.37
54 55 5.941555 TCCTCTAGACTTCAATCTTTCCC 57.058 43.478 0.00 0.00 0.00 3.97
55 56 6.098982 TCCATCCTCTAGACTTCAATCTTTCC 59.901 42.308 0.00 0.00 0.00 3.13
56 57 6.983890 GTCCATCCTCTAGACTTCAATCTTTC 59.016 42.308 0.00 0.00 0.00 2.62
57 58 6.441924 TGTCCATCCTCTAGACTTCAATCTTT 59.558 38.462 0.00 0.00 0.00 2.52
58 59 5.960811 TGTCCATCCTCTAGACTTCAATCTT 59.039 40.000 0.00 0.00 0.00 2.40
59 60 5.523588 TGTCCATCCTCTAGACTTCAATCT 58.476 41.667 0.00 0.00 0.00 2.40
60 61 5.221422 CCTGTCCATCCTCTAGACTTCAATC 60.221 48.000 0.00 0.00 0.00 2.67
61 62 4.653341 CCTGTCCATCCTCTAGACTTCAAT 59.347 45.833 0.00 0.00 0.00 2.57
62 63 4.026744 CCTGTCCATCCTCTAGACTTCAA 58.973 47.826 0.00 0.00 0.00 2.69
63 64 3.269643 TCCTGTCCATCCTCTAGACTTCA 59.730 47.826 0.00 0.00 0.00 3.02
64 65 3.904717 TCCTGTCCATCCTCTAGACTTC 58.095 50.000 0.00 0.00 0.00 3.01
65 66 4.338795 TTCCTGTCCATCCTCTAGACTT 57.661 45.455 0.00 0.00 0.00 3.01
66 67 4.338795 TTTCCTGTCCATCCTCTAGACT 57.661 45.455 0.00 0.00 0.00 3.24
67 68 4.141824 CCTTTTCCTGTCCATCCTCTAGAC 60.142 50.000 0.00 0.00 0.00 2.59
68 69 4.033709 CCTTTTCCTGTCCATCCTCTAGA 58.966 47.826 0.00 0.00 0.00 2.43
69 70 4.033709 TCCTTTTCCTGTCCATCCTCTAG 58.966 47.826 0.00 0.00 0.00 2.43
70 71 4.074799 TCCTTTTCCTGTCCATCCTCTA 57.925 45.455 0.00 0.00 0.00 2.43
71 72 2.921221 TCCTTTTCCTGTCCATCCTCT 58.079 47.619 0.00 0.00 0.00 3.69
72 73 3.615155 CTTCCTTTTCCTGTCCATCCTC 58.385 50.000 0.00 0.00 0.00 3.71
73 74 2.310052 CCTTCCTTTTCCTGTCCATCCT 59.690 50.000 0.00 0.00 0.00 3.24
74 75 2.728007 CCTTCCTTTTCCTGTCCATCC 58.272 52.381 0.00 0.00 0.00 3.51
75 76 2.095461 GCCTTCCTTTTCCTGTCCATC 58.905 52.381 0.00 0.00 0.00 3.51
76 77 1.428912 TGCCTTCCTTTTCCTGTCCAT 59.571 47.619 0.00 0.00 0.00 3.41
77 78 0.850100 TGCCTTCCTTTTCCTGTCCA 59.150 50.000 0.00 0.00 0.00 4.02
78 79 1.613925 GTTGCCTTCCTTTTCCTGTCC 59.386 52.381 0.00 0.00 0.00 4.02
79 80 2.306847 TGTTGCCTTCCTTTTCCTGTC 58.693 47.619 0.00 0.00 0.00 3.51
80 81 2.452600 TGTTGCCTTCCTTTTCCTGT 57.547 45.000 0.00 0.00 0.00 4.00
81 82 3.493176 CCTTTGTTGCCTTCCTTTTCCTG 60.493 47.826 0.00 0.00 0.00 3.86
82 83 2.700371 CCTTTGTTGCCTTCCTTTTCCT 59.300 45.455 0.00 0.00 0.00 3.36
83 84 2.806745 GCCTTTGTTGCCTTCCTTTTCC 60.807 50.000 0.00 0.00 0.00 3.13
84 85 2.158971 TGCCTTTGTTGCCTTCCTTTTC 60.159 45.455 0.00 0.00 0.00 2.29
85 86 1.836802 TGCCTTTGTTGCCTTCCTTTT 59.163 42.857 0.00 0.00 0.00 2.27
86 87 1.494960 TGCCTTTGTTGCCTTCCTTT 58.505 45.000 0.00 0.00 0.00 3.11
87 88 1.494960 TTGCCTTTGTTGCCTTCCTT 58.505 45.000 0.00 0.00 0.00 3.36
88 89 1.413812 CTTTGCCTTTGTTGCCTTCCT 59.586 47.619 0.00 0.00 0.00 3.36
89 90 1.412343 TCTTTGCCTTTGTTGCCTTCC 59.588 47.619 0.00 0.00 0.00 3.46
90 91 2.101415 ACTCTTTGCCTTTGTTGCCTTC 59.899 45.455 0.00 0.00 0.00 3.46
91 92 2.101415 GACTCTTTGCCTTTGTTGCCTT 59.899 45.455 0.00 0.00 0.00 4.35
92 93 1.683385 GACTCTTTGCCTTTGTTGCCT 59.317 47.619 0.00 0.00 0.00 4.75
93 94 1.683385 AGACTCTTTGCCTTTGTTGCC 59.317 47.619 0.00 0.00 0.00 4.52
94 95 4.568152 TTAGACTCTTTGCCTTTGTTGC 57.432 40.909 0.00 0.00 0.00 4.17
95 96 7.492344 ACAAATTTAGACTCTTTGCCTTTGTTG 59.508 33.333 0.00 0.00 32.16 3.33
96 97 7.555965 ACAAATTTAGACTCTTTGCCTTTGTT 58.444 30.769 0.00 0.00 32.16 2.83
97 98 7.112452 ACAAATTTAGACTCTTTGCCTTTGT 57.888 32.000 0.00 0.00 34.08 2.83
98 99 9.528018 TTTACAAATTTAGACTCTTTGCCTTTG 57.472 29.630 0.00 0.00 34.08 2.77
142 143 9.462174 CAAGCTATTTCTAAACACAAATCACAA 57.538 29.630 0.00 0.00 0.00 3.33
143 144 8.845227 TCAAGCTATTTCTAAACACAAATCACA 58.155 29.630 0.00 0.00 0.00 3.58
144 145 9.118236 GTCAAGCTATTTCTAAACACAAATCAC 57.882 33.333 0.00 0.00 0.00 3.06
145 146 8.845227 TGTCAAGCTATTTCTAAACACAAATCA 58.155 29.630 0.00 0.00 0.00 2.57
146 147 9.334693 CTGTCAAGCTATTTCTAAACACAAATC 57.665 33.333 0.00 0.00 0.00 2.17
147 148 8.850156 ACTGTCAAGCTATTTCTAAACACAAAT 58.150 29.630 0.00 0.00 0.00 2.32
148 149 8.128582 CACTGTCAAGCTATTTCTAAACACAAA 58.871 33.333 0.00 0.00 0.00 2.83
149 150 7.639039 CACTGTCAAGCTATTTCTAAACACAA 58.361 34.615 0.00 0.00 0.00 3.33
150 151 6.293407 GCACTGTCAAGCTATTTCTAAACACA 60.293 38.462 0.00 0.00 0.00 3.72
151 152 6.080406 GCACTGTCAAGCTATTTCTAAACAC 58.920 40.000 0.00 0.00 0.00 3.32
152 153 5.762711 TGCACTGTCAAGCTATTTCTAAACA 59.237 36.000 0.00 0.00 0.00 2.83
153 154 6.147821 TCTGCACTGTCAAGCTATTTCTAAAC 59.852 38.462 0.00 0.00 0.00 2.01
154 155 6.230472 TCTGCACTGTCAAGCTATTTCTAAA 58.770 36.000 0.00 0.00 0.00 1.85
155 156 5.793817 TCTGCACTGTCAAGCTATTTCTAA 58.206 37.500 0.00 0.00 0.00 2.10
156 157 5.405935 TCTGCACTGTCAAGCTATTTCTA 57.594 39.130 0.00 0.00 0.00 2.10
157 158 4.277515 TCTGCACTGTCAAGCTATTTCT 57.722 40.909 0.00 0.00 0.00 2.52
158 159 5.557891 ATTCTGCACTGTCAAGCTATTTC 57.442 39.130 0.00 0.00 0.00 2.17
159 160 5.474532 TGAATTCTGCACTGTCAAGCTATTT 59.525 36.000 7.05 0.00 0.00 1.40
160 161 5.005740 TGAATTCTGCACTGTCAAGCTATT 58.994 37.500 7.05 0.00 0.00 1.73
161 162 4.582869 TGAATTCTGCACTGTCAAGCTAT 58.417 39.130 7.05 0.00 0.00 2.97
162 163 4.006780 TGAATTCTGCACTGTCAAGCTA 57.993 40.909 7.05 0.00 0.00 3.32
163 164 2.854963 TGAATTCTGCACTGTCAAGCT 58.145 42.857 7.05 0.00 0.00 3.74
164 165 3.631145 TTGAATTCTGCACTGTCAAGC 57.369 42.857 7.05 0.00 0.00 4.01
165 166 5.366829 TCATTGAATTCTGCACTGTCAAG 57.633 39.130 7.05 0.00 32.13 3.02
166 167 5.708697 AGATCATTGAATTCTGCACTGTCAA 59.291 36.000 7.05 0.00 33.08 3.18
167 168 5.250982 AGATCATTGAATTCTGCACTGTCA 58.749 37.500 7.05 0.00 0.00 3.58
168 169 5.814764 AGATCATTGAATTCTGCACTGTC 57.185 39.130 7.05 0.00 0.00 3.51
169 170 6.883217 ACTAAGATCATTGAATTCTGCACTGT 59.117 34.615 7.05 0.00 0.00 3.55
170 171 7.187480 CACTAAGATCATTGAATTCTGCACTG 58.813 38.462 7.05 0.00 0.00 3.66
171 172 6.318144 CCACTAAGATCATTGAATTCTGCACT 59.682 38.462 7.05 0.00 0.00 4.40
172 173 6.493116 CCACTAAGATCATTGAATTCTGCAC 58.507 40.000 7.05 0.00 0.00 4.57
173 174 5.066893 GCCACTAAGATCATTGAATTCTGCA 59.933 40.000 7.05 0.00 0.00 4.41
174 175 5.066893 TGCCACTAAGATCATTGAATTCTGC 59.933 40.000 7.05 0.00 0.00 4.26
175 176 6.688637 TGCCACTAAGATCATTGAATTCTG 57.311 37.500 7.05 0.00 0.00 3.02
176 177 7.893124 AATGCCACTAAGATCATTGAATTCT 57.107 32.000 7.05 0.00 0.00 2.40
177 178 8.937634 AAAATGCCACTAAGATCATTGAATTC 57.062 30.769 0.00 0.00 30.47 2.17
178 179 8.533657 TGAAAATGCCACTAAGATCATTGAATT 58.466 29.630 0.00 0.00 30.47 2.17
179 180 7.977853 GTGAAAATGCCACTAAGATCATTGAAT 59.022 33.333 0.00 0.00 30.47 2.57
180 181 7.039853 TGTGAAAATGCCACTAAGATCATTGAA 60.040 33.333 0.00 0.00 35.66 2.69
181 182 6.433716 TGTGAAAATGCCACTAAGATCATTGA 59.566 34.615 0.00 0.00 35.66 2.57
182 183 6.623486 TGTGAAAATGCCACTAAGATCATTG 58.377 36.000 0.00 0.00 35.66 2.82
183 184 6.839124 TGTGAAAATGCCACTAAGATCATT 57.161 33.333 0.00 0.00 35.66 2.57
184 185 7.414222 AATGTGAAAATGCCACTAAGATCAT 57.586 32.000 0.00 0.00 35.66 2.45
185 186 6.839124 AATGTGAAAATGCCACTAAGATCA 57.161 33.333 0.00 0.00 35.66 2.92
186 187 8.623903 TGATAATGTGAAAATGCCACTAAGATC 58.376 33.333 0.00 0.00 35.66 2.75
187 188 8.523915 TGATAATGTGAAAATGCCACTAAGAT 57.476 30.769 0.00 0.00 35.66 2.40
188 189 7.936496 TGATAATGTGAAAATGCCACTAAGA 57.064 32.000 0.00 0.00 35.66 2.10
192 193 8.145767 CCATATTGATAATGTGAAAATGCCACT 58.854 33.333 0.00 0.00 35.66 4.00
193 194 7.095523 GCCATATTGATAATGTGAAAATGCCAC 60.096 37.037 0.00 0.00 32.37 5.01
194 195 6.930164 GCCATATTGATAATGTGAAAATGCCA 59.070 34.615 0.00 0.00 32.37 4.92
195 196 7.156673 AGCCATATTGATAATGTGAAAATGCC 58.843 34.615 0.00 0.00 32.37 4.40
196 197 8.597662 AAGCCATATTGATAATGTGAAAATGC 57.402 30.769 0.00 0.00 32.37 3.56
198 199 9.048446 GCAAAGCCATATTGATAATGTGAAAAT 57.952 29.630 0.00 0.00 32.37 1.82
199 200 8.039538 TGCAAAGCCATATTGATAATGTGAAAA 58.960 29.630 0.00 0.00 32.37 2.29
200 201 7.554211 TGCAAAGCCATATTGATAATGTGAAA 58.446 30.769 0.00 0.00 32.37 2.69
201 202 7.110043 TGCAAAGCCATATTGATAATGTGAA 57.890 32.000 0.00 0.00 32.37 3.18
202 203 6.712179 TGCAAAGCCATATTGATAATGTGA 57.288 33.333 0.00 0.00 32.37 3.58
203 204 7.149307 TGATGCAAAGCCATATTGATAATGTG 58.851 34.615 0.00 0.00 0.00 3.21
204 205 7.292713 TGATGCAAAGCCATATTGATAATGT 57.707 32.000 0.00 0.00 0.00 2.71
205 206 9.863845 TTATGATGCAAAGCCATATTGATAATG 57.136 29.630 0.00 0.00 0.00 1.90
215 216 9.195411 CGTAAATAAATTATGATGCAAAGCCAT 57.805 29.630 0.00 0.00 33.10 4.40
216 217 7.168972 GCGTAAATAAATTATGATGCAAAGCCA 59.831 33.333 0.00 0.00 33.10 4.75
217 218 7.382218 AGCGTAAATAAATTATGATGCAAAGCC 59.618 33.333 12.19 0.00 33.10 4.35
218 219 8.285776 AGCGTAAATAAATTATGATGCAAAGC 57.714 30.769 12.19 0.00 33.10 3.51
228 229 9.946165 GCCAACTCTAAAGCGTAAATAAATTAT 57.054 29.630 0.00 0.00 0.00 1.28
229 230 8.400186 GGCCAACTCTAAAGCGTAAATAAATTA 58.600 33.333 0.00 0.00 0.00 1.40
230 231 7.255569 GGCCAACTCTAAAGCGTAAATAAATT 58.744 34.615 0.00 0.00 0.00 1.82
231 232 6.183360 GGGCCAACTCTAAAGCGTAAATAAAT 60.183 38.462 4.39 0.00 0.00 1.40
232 233 5.124297 GGGCCAACTCTAAAGCGTAAATAAA 59.876 40.000 4.39 0.00 0.00 1.40
233 234 4.637091 GGGCCAACTCTAAAGCGTAAATAA 59.363 41.667 4.39 0.00 0.00 1.40
234 235 4.193865 GGGCCAACTCTAAAGCGTAAATA 58.806 43.478 4.39 0.00 0.00 1.40
235 236 3.014623 GGGCCAACTCTAAAGCGTAAAT 58.985 45.455 4.39 0.00 0.00 1.40
236 237 2.429478 GGGCCAACTCTAAAGCGTAAA 58.571 47.619 4.39 0.00 0.00 2.01
237 238 1.339342 GGGGCCAACTCTAAAGCGTAA 60.339 52.381 4.39 0.00 0.00 3.18
238 239 0.251073 GGGGCCAACTCTAAAGCGTA 59.749 55.000 4.39 0.00 0.00 4.42
239 240 1.002502 GGGGCCAACTCTAAAGCGT 60.003 57.895 4.39 0.00 0.00 5.07
240 241 1.002624 TGGGGCCAACTCTAAAGCG 60.003 57.895 4.39 0.00 0.00 4.68
241 242 0.965866 GGTGGGGCCAACTCTAAAGC 60.966 60.000 11.69 0.00 37.17 3.51
242 243 0.698818 AGGTGGGGCCAACTCTAAAG 59.301 55.000 11.69 0.00 40.42 1.85
243 244 2.877150 AGGTGGGGCCAACTCTAAA 58.123 52.632 11.69 0.00 40.42 1.85
244 245 4.681624 AGGTGGGGCCAACTCTAA 57.318 55.556 11.69 0.00 40.42 2.10
249 250 2.522271 TTTTTGAGGTGGGGCCAAC 58.478 52.632 4.39 3.29 40.61 3.77
265 266 0.250989 TGGCGGAGGACGGAATTTTT 60.251 50.000 0.00 0.00 44.51 1.94
266 267 0.958876 GTGGCGGAGGACGGAATTTT 60.959 55.000 0.00 0.00 44.51 1.82
267 268 1.376812 GTGGCGGAGGACGGAATTT 60.377 57.895 0.00 0.00 44.51 1.82
268 269 2.267961 GTGGCGGAGGACGGAATT 59.732 61.111 0.00 0.00 44.51 2.17
269 270 2.683933 AGTGGCGGAGGACGGAAT 60.684 61.111 0.00 0.00 44.51 3.01
270 271 3.691342 CAGTGGCGGAGGACGGAA 61.691 66.667 0.00 0.00 44.51 4.30
281 282 0.037975 CCATGGTTTCAAGCAGTGGC 60.038 55.000 2.57 0.00 40.07 5.01
282 283 1.270550 GTCCATGGTTTCAAGCAGTGG 59.729 52.381 12.58 11.13 40.07 4.00
283 284 2.233271 AGTCCATGGTTTCAAGCAGTG 58.767 47.619 12.58 0.00 40.07 3.66
284 285 2.664402 AGTCCATGGTTTCAAGCAGT 57.336 45.000 12.58 0.00 40.07 4.40
285 286 3.441572 CCTTAGTCCATGGTTTCAAGCAG 59.558 47.826 12.58 0.00 40.07 4.24
286 287 3.420893 CCTTAGTCCATGGTTTCAAGCA 58.579 45.455 12.58 0.00 41.10 3.91
287 288 2.755103 CCCTTAGTCCATGGTTTCAAGC 59.245 50.000 12.58 0.00 0.00 4.01
298 299 4.942944 TCTGTCTATGAACCCTTAGTCCA 58.057 43.478 0.00 0.00 0.00 4.02
300 301 6.015772 GGATCTCTGTCTATGAACCCTTAGTC 60.016 46.154 0.00 0.00 0.00 2.59
314 315 3.444388 GGTTACAACGAGGATCTCTGTCT 59.556 47.826 0.00 0.00 31.31 3.41
329 330 4.168101 AGGATCTCAAGTGAGGGTTACAA 58.832 43.478 8.42 0.00 42.30 2.41
330 331 3.791320 AGGATCTCAAGTGAGGGTTACA 58.209 45.455 8.42 0.00 42.30 2.41
331 332 4.223032 TCAAGGATCTCAAGTGAGGGTTAC 59.777 45.833 8.42 0.00 42.30 2.50
340 341 3.823304 GGTTTTGCTCAAGGATCTCAAGT 59.177 43.478 0.00 0.00 0.00 3.16
341 342 3.822735 TGGTTTTGCTCAAGGATCTCAAG 59.177 43.478 0.00 0.00 0.00 3.02
352 353 6.899393 AGTTGATAAAGATGGTTTTGCTCA 57.101 33.333 0.00 0.00 0.00 4.26
375 376 1.909302 GGGGAGGTGATCAGAGTTGAA 59.091 52.381 0.00 0.00 36.78 2.69
407 408 1.202940 AGACTTTTGGAAGAGCCCCAC 60.203 52.381 0.00 0.00 36.69 4.61
409 410 1.352687 AGAGACTTTTGGAAGAGCCCC 59.647 52.381 0.00 0.00 36.69 5.80
461 463 0.911769 TCCATCAACTACCAGCCCTG 59.088 55.000 0.00 0.00 0.00 4.45
509 511 1.200519 GCCCACATCACCTAGGTGTA 58.799 55.000 35.34 24.26 45.55 2.90
512 514 2.367202 CGGCCCACATCACCTAGGT 61.367 63.158 9.21 9.21 0.00 3.08
778 808 8.503573 TCTATCTAAGGTCCAGAAACATCTAGA 58.496 37.037 0.00 0.00 0.00 2.43
1806 1854 3.447586 GGTACTGAGAATGGCTACACTCA 59.552 47.826 7.55 7.55 37.71 3.41
1817 1865 4.602340 ACACGTTTGAGGTACTGAGAAT 57.398 40.909 0.00 0.00 41.55 2.40
2311 2359 6.596497 CCAAGAATGAAATGGAAATTGGAAGG 59.404 38.462 0.00 0.00 38.55 3.46


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

AutoCloner maintained by Alex Coulton.