Multiple sequence alignment - TraesCS2B01G333100

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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 TraesCS2B01G333100 chr2B 100.000 3070 0 0 578 3647 476455040 476458109 0.000000e+00 5670.0
1 TraesCS2B01G333100 chr2B 100.000 340 0 0 1 340 476454463 476454802 2.390000e-176 628.0
2 TraesCS2B01G333100 chr2B 89.490 314 30 3 1 312 501347614 501347302 9.490000e-106 394.0
3 TraesCS2B01G333100 chr2D 96.521 3076 101 5 578 3647 402243972 402240897 0.000000e+00 5083.0
4 TraesCS2B01G333100 chr2A 97.034 2259 58 2 581 2839 539016946 539014697 0.000000e+00 3792.0
5 TraesCS2B01G333100 chr2A 97.677 818 10 5 2837 3647 539014583 539013768 0.000000e+00 1397.0
6 TraesCS2B01G333100 chr2A 89.457 313 32 1 1 313 398510428 398510739 9.490000e-106 394.0
7 TraesCS2B01G333100 chr2A 89.381 113 12 0 580 692 207335683 207335795 3.800000e-30 143.0
8 TraesCS2B01G333100 chr3B 90.764 314 27 2 2 314 338805274 338805586 5.630000e-113 418.0
9 TraesCS2B01G333100 chr3B 89.524 315 30 3 1 314 108911281 108911593 2.640000e-106 396.0
10 TraesCS2B01G333100 chr3B 90.179 112 11 0 578 689 252360017 252360128 2.930000e-31 147.0
11 TraesCS2B01G333100 chr5B 90.446 314 28 2 1 313 158077236 158077548 2.620000e-111 412.0
12 TraesCS2B01G333100 chr5B 89.524 315 31 2 1 314 225494291 225493978 7.340000e-107 398.0
13 TraesCS2B01G333100 chr7B 90.159 315 29 2 1 314 283491586 283491273 3.390000e-110 409.0
14 TraesCS2B01G333100 chr4B 89.490 314 31 2 1 313 484032302 484032614 2.640000e-106 396.0
15 TraesCS2B01G333100 chr1B 89.206 315 32 2 1 314 309106171 309106484 3.410000e-105 392.0
16 TraesCS2B01G333100 chr5A 92.174 115 9 0 578 692 569527356 569527242 2.910000e-36 163.0
17 TraesCS2B01G333100 chr3A 90.435 115 11 0 578 692 49327264 49327378 6.310000e-33 152.0
18 TraesCS2B01G333100 chr7D 89.744 117 10 2 578 692 469225011 469224895 8.160000e-32 148.0
19 TraesCS2B01G333100 chr6B 89.565 115 12 0 578 692 114966878 114966764 2.930000e-31 147.0
20 TraesCS2B01G333100 chr7A 89.474 114 12 0 579 692 80568968 80569081 1.060000e-30 145.0
21 TraesCS2B01G333100 chr1D 100.000 29 0 0 312 340 238652193 238652221 2.000000e-03 54.7


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 TraesCS2B01G333100 chr2B 476454463 476458109 3646 False 3149.0 5670 100.0000 1 3647 2 chr2B.!!$F1 3646
1 TraesCS2B01G333100 chr2D 402240897 402243972 3075 True 5083.0 5083 96.5210 578 3647 1 chr2D.!!$R1 3069
2 TraesCS2B01G333100 chr2A 539013768 539016946 3178 True 2594.5 3792 97.3555 581 3647 2 chr2A.!!$R1 3066

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
89 90 0.033503 CAACTTTATCCCGCCCCCTT 60.034 55.0 0.00 0.0 0.00 3.95 F
99 100 0.036483 CCGCCCCCTTCCAATTTTTG 60.036 55.0 0.00 0.0 0.00 2.44 F
158 159 0.454196 GCCGGGTTGCGATTATTTGT 59.546 50.0 2.18 0.0 0.00 2.83 F
239 240 0.487325 TGGTCTCCTCACTGAAGGGA 59.513 55.0 0.00 0.0 37.02 4.20 F
1098 1099 0.616371 CCTACAACCCCATTGACCGA 59.384 55.0 0.00 0.0 41.23 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1558 1559 0.038343 CGGCCAATGAACAAACCCAG 60.038 55.000 2.24 0.0 0.00 4.45 R
1641 1642 0.439985 CATTGAAGCTCCACACGTCG 59.560 55.000 0.00 0.0 0.00 5.12 R
1931 1932 1.282570 CCACACGCAACCATGTCAC 59.717 57.895 0.00 0.0 0.00 3.67 R
2127 2128 6.347696 AGACATCTCAGTCCAAATCTTCATC 58.652 40.000 0.00 0.0 39.34 2.92 R
3000 3117 5.309323 TGTGCAGTAAAATATTGCTCACC 57.691 39.130 6.46 0.0 41.40 4.02 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
31 32 9.995957 ACCAAAAATACAAAAATACTTTGTTGC 57.004 25.926 8.05 0.00 42.10 4.17
32 33 9.994432 CCAAAAATACAAAAATACTTTGTTGCA 57.006 25.926 8.05 0.00 42.10 4.08
47 48 8.491331 ACTTTGTTGCACTTTATTTCATTTGT 57.509 26.923 0.00 0.00 0.00 2.83
48 49 8.389603 ACTTTGTTGCACTTTATTTCATTTGTG 58.610 29.630 0.00 0.00 0.00 3.33
49 50 8.484641 TTTGTTGCACTTTATTTCATTTGTGA 57.515 26.923 0.00 0.00 0.00 3.58
50 51 8.659925 TTGTTGCACTTTATTTCATTTGTGAT 57.340 26.923 0.00 0.00 0.00 3.06
51 52 8.296799 TGTTGCACTTTATTTCATTTGTGATC 57.703 30.769 0.00 0.00 0.00 2.92
52 53 8.143193 TGTTGCACTTTATTTCATTTGTGATCT 58.857 29.630 0.00 0.00 0.00 2.75
53 54 9.624697 GTTGCACTTTATTTCATTTGTGATCTA 57.375 29.630 0.00 0.00 0.00 1.98
65 66 9.699410 TTCATTTGTGATCTATTTACCCAATCT 57.301 29.630 0.00 0.00 0.00 2.40
81 82 9.856162 TTACCCAATCTATTACAACTTTATCCC 57.144 33.333 0.00 0.00 0.00 3.85
82 83 6.996282 ACCCAATCTATTACAACTTTATCCCG 59.004 38.462 0.00 0.00 0.00 5.14
83 84 6.072673 CCCAATCTATTACAACTTTATCCCGC 60.073 42.308 0.00 0.00 0.00 6.13
84 85 6.072673 CCAATCTATTACAACTTTATCCCGCC 60.073 42.308 0.00 0.00 0.00 6.13
85 86 4.964593 TCTATTACAACTTTATCCCGCCC 58.035 43.478 0.00 0.00 0.00 6.13
86 87 2.423446 TTACAACTTTATCCCGCCCC 57.577 50.000 0.00 0.00 0.00 5.80
87 88 0.547553 TACAACTTTATCCCGCCCCC 59.452 55.000 0.00 0.00 0.00 5.40
88 89 1.212250 ACAACTTTATCCCGCCCCCT 61.212 55.000 0.00 0.00 0.00 4.79
89 90 0.033503 CAACTTTATCCCGCCCCCTT 60.034 55.000 0.00 0.00 0.00 3.95
90 91 0.257905 AACTTTATCCCGCCCCCTTC 59.742 55.000 0.00 0.00 0.00 3.46
91 92 1.150764 CTTTATCCCGCCCCCTTCC 59.849 63.158 0.00 0.00 0.00 3.46
92 93 1.619975 TTTATCCCGCCCCCTTCCA 60.620 57.895 0.00 0.00 0.00 3.53
93 94 1.215679 TTTATCCCGCCCCCTTCCAA 61.216 55.000 0.00 0.00 0.00 3.53
94 95 0.996762 TTATCCCGCCCCCTTCCAAT 60.997 55.000 0.00 0.00 0.00 3.16
95 96 0.996762 TATCCCGCCCCCTTCCAATT 60.997 55.000 0.00 0.00 0.00 2.32
96 97 1.885593 ATCCCGCCCCCTTCCAATTT 61.886 55.000 0.00 0.00 0.00 1.82
97 98 1.612146 CCCGCCCCCTTCCAATTTT 60.612 57.895 0.00 0.00 0.00 1.82
98 99 1.198094 CCCGCCCCCTTCCAATTTTT 61.198 55.000 0.00 0.00 0.00 1.94
99 100 0.036483 CCGCCCCCTTCCAATTTTTG 60.036 55.000 0.00 0.00 0.00 2.44
110 111 2.409012 CCAATTTTTGGCACCGTTACC 58.591 47.619 0.00 0.00 45.17 2.85
111 112 2.409012 CAATTTTTGGCACCGTTACCC 58.591 47.619 0.00 0.00 0.00 3.69
112 113 1.705873 ATTTTTGGCACCGTTACCCA 58.294 45.000 0.00 0.00 0.00 4.51
113 114 1.481871 TTTTTGGCACCGTTACCCAA 58.518 45.000 0.00 0.00 36.88 4.12
114 115 1.481871 TTTTGGCACCGTTACCCAAA 58.518 45.000 0.29 0.29 44.41 3.28
115 116 1.481871 TTTGGCACCGTTACCCAAAA 58.518 45.000 1.88 0.00 43.47 2.44
116 117 1.033574 TTGGCACCGTTACCCAAAAG 58.966 50.000 0.00 0.00 35.80 2.27
117 118 0.824182 TGGCACCGTTACCCAAAAGG 60.824 55.000 0.00 0.00 42.00 3.11
118 119 1.529152 GGCACCGTTACCCAAAAGGG 61.529 60.000 0.00 0.00 40.71 3.95
119 120 0.537828 GCACCGTTACCCAAAAGGGA 60.538 55.000 7.71 0.00 40.71 4.20
120 121 1.889262 GCACCGTTACCCAAAAGGGAT 60.889 52.381 7.71 0.00 40.71 3.85
121 122 2.521126 CACCGTTACCCAAAAGGGATT 58.479 47.619 7.71 0.00 40.71 3.01
122 123 2.230266 CACCGTTACCCAAAAGGGATTG 59.770 50.000 7.71 0.00 40.71 2.67
123 124 2.108601 ACCGTTACCCAAAAGGGATTGA 59.891 45.455 7.71 0.00 40.71 2.57
124 125 2.490509 CCGTTACCCAAAAGGGATTGAC 59.509 50.000 7.71 0.00 41.63 3.18
125 126 3.150767 CGTTACCCAAAAGGGATTGACA 58.849 45.455 7.71 0.00 41.63 3.58
126 127 3.570550 CGTTACCCAAAAGGGATTGACAA 59.429 43.478 7.71 0.00 41.63 3.18
127 128 4.557895 CGTTACCCAAAAGGGATTGACAAC 60.558 45.833 7.71 1.38 41.63 3.32
128 129 2.325484 ACCCAAAAGGGATTGACAACC 58.675 47.619 7.71 0.00 41.63 3.77
129 130 1.623311 CCCAAAAGGGATTGACAACCC 59.377 52.381 14.59 14.59 45.88 4.11
130 131 1.623311 CCAAAAGGGATTGACAACCCC 59.377 52.381 10.02 10.02 46.64 4.95
137 138 3.502356 GGGATTGACAACCCCTTTAACA 58.498 45.455 10.82 0.00 40.19 2.41
138 139 3.257375 GGGATTGACAACCCCTTTAACAC 59.743 47.826 10.82 0.00 40.19 3.32
139 140 3.057806 GGATTGACAACCCCTTTAACACG 60.058 47.826 0.00 0.00 0.00 4.49
140 141 1.310904 TGACAACCCCTTTAACACGC 58.689 50.000 0.00 0.00 0.00 5.34
141 142 0.594602 GACAACCCCTTTAACACGCC 59.405 55.000 0.00 0.00 0.00 5.68
142 143 1.167781 ACAACCCCTTTAACACGCCG 61.168 55.000 0.00 0.00 0.00 6.46
143 144 1.601477 AACCCCTTTAACACGCCGG 60.601 57.895 0.00 0.00 0.00 6.13
144 145 2.748647 CCCCTTTAACACGCCGGG 60.749 66.667 2.18 0.00 34.62 5.73
145 146 2.032987 CCCTTTAACACGCCGGGT 59.967 61.111 2.18 0.00 0.00 5.28
146 147 1.601477 CCCTTTAACACGCCGGGTT 60.601 57.895 10.61 10.61 0.00 4.11
147 148 1.577421 CCTTTAACACGCCGGGTTG 59.423 57.895 16.25 0.00 0.00 3.77
148 149 1.081708 CTTTAACACGCCGGGTTGC 60.082 57.895 16.25 0.00 0.00 4.17
157 158 3.250220 GCCGGGTTGCGATTATTTG 57.750 52.632 2.18 0.00 0.00 2.32
158 159 0.454196 GCCGGGTTGCGATTATTTGT 59.546 50.000 2.18 0.00 0.00 2.83
159 160 1.135228 GCCGGGTTGCGATTATTTGTT 60.135 47.619 2.18 0.00 0.00 2.83
160 161 2.097791 GCCGGGTTGCGATTATTTGTTA 59.902 45.455 2.18 0.00 0.00 2.41
161 162 3.243267 GCCGGGTTGCGATTATTTGTTAT 60.243 43.478 2.18 0.00 0.00 1.89
162 163 4.735283 GCCGGGTTGCGATTATTTGTTATT 60.735 41.667 2.18 0.00 0.00 1.40
163 164 5.344884 CCGGGTTGCGATTATTTGTTATTT 58.655 37.500 0.00 0.00 0.00 1.40
164 165 5.231147 CCGGGTTGCGATTATTTGTTATTTG 59.769 40.000 0.00 0.00 0.00 2.32
165 166 5.802956 CGGGTTGCGATTATTTGTTATTTGT 59.197 36.000 0.00 0.00 0.00 2.83
166 167 6.237437 CGGGTTGCGATTATTTGTTATTTGTG 60.237 38.462 0.00 0.00 0.00 3.33
167 168 6.588373 GGGTTGCGATTATTTGTTATTTGTGT 59.412 34.615 0.00 0.00 0.00 3.72
168 169 7.411372 GGGTTGCGATTATTTGTTATTTGTGTG 60.411 37.037 0.00 0.00 0.00 3.82
169 170 6.624710 TGCGATTATTTGTTATTTGTGTGC 57.375 33.333 0.00 0.00 0.00 4.57
170 171 6.152379 TGCGATTATTTGTTATTTGTGTGCA 58.848 32.000 0.00 0.00 0.00 4.57
171 172 6.307558 TGCGATTATTTGTTATTTGTGTGCAG 59.692 34.615 0.00 0.00 0.00 4.41
172 173 6.526325 GCGATTATTTGTTATTTGTGTGCAGA 59.474 34.615 0.00 0.00 0.00 4.26
173 174 7.061673 GCGATTATTTGTTATTTGTGTGCAGAA 59.938 33.333 0.00 0.00 0.00 3.02
174 175 8.577939 CGATTATTTGTTATTTGTGTGCAGAAG 58.422 33.333 0.00 0.00 0.00 2.85
175 176 7.636259 TTATTTGTTATTTGTGTGCAGAAGC 57.364 32.000 0.00 0.00 42.57 3.86
176 177 4.916983 TTGTTATTTGTGTGCAGAAGCT 57.083 36.364 0.00 0.00 42.74 3.74
177 178 4.227512 TGTTATTTGTGTGCAGAAGCTG 57.772 40.909 0.00 0.00 42.74 4.24
178 179 3.631686 TGTTATTTGTGTGCAGAAGCTGT 59.368 39.130 0.00 0.00 42.74 4.40
179 180 4.097741 TGTTATTTGTGTGCAGAAGCTGTT 59.902 37.500 0.00 0.00 42.74 3.16
180 181 3.806625 ATTTGTGTGCAGAAGCTGTTT 57.193 38.095 0.00 0.00 42.74 2.83
181 182 4.916983 ATTTGTGTGCAGAAGCTGTTTA 57.083 36.364 0.00 0.00 42.74 2.01
182 183 4.916983 TTTGTGTGCAGAAGCTGTTTAT 57.083 36.364 0.00 0.00 42.74 1.40
183 184 3.902261 TGTGTGCAGAAGCTGTTTATG 57.098 42.857 0.00 0.00 42.74 1.90
184 185 3.213506 TGTGTGCAGAAGCTGTTTATGT 58.786 40.909 1.05 0.00 42.74 2.29
185 186 3.631686 TGTGTGCAGAAGCTGTTTATGTT 59.368 39.130 1.05 0.00 42.74 2.71
186 187 4.819088 TGTGTGCAGAAGCTGTTTATGTTA 59.181 37.500 1.05 0.00 42.74 2.41
187 188 5.473162 TGTGTGCAGAAGCTGTTTATGTTAT 59.527 36.000 1.05 0.00 42.74 1.89
188 189 5.796935 GTGTGCAGAAGCTGTTTATGTTATG 59.203 40.000 1.05 0.00 42.74 1.90
189 190 5.473162 TGTGCAGAAGCTGTTTATGTTATGT 59.527 36.000 1.05 0.00 42.74 2.29
190 191 6.016360 TGTGCAGAAGCTGTTTATGTTATGTT 60.016 34.615 1.05 0.00 42.74 2.71
191 192 6.306356 GTGCAGAAGCTGTTTATGTTATGTTG 59.694 38.462 1.05 0.00 42.74 3.33
192 193 5.287035 GCAGAAGCTGTTTATGTTATGTTGC 59.713 40.000 1.05 0.00 37.91 4.17
193 194 5.509272 CAGAAGCTGTTTATGTTATGTTGCG 59.491 40.000 0.00 0.00 0.00 4.85
194 195 5.181245 AGAAGCTGTTTATGTTATGTTGCGT 59.819 36.000 0.00 0.00 0.00 5.24
195 196 4.722194 AGCTGTTTATGTTATGTTGCGTG 58.278 39.130 0.00 0.00 0.00 5.34
196 197 3.851403 GCTGTTTATGTTATGTTGCGTGG 59.149 43.478 0.00 0.00 0.00 4.94
197 198 4.614993 GCTGTTTATGTTATGTTGCGTGGT 60.615 41.667 0.00 0.00 0.00 4.16
198 199 5.440234 TGTTTATGTTATGTTGCGTGGTT 57.560 34.783 0.00 0.00 0.00 3.67
199 200 5.453648 TGTTTATGTTATGTTGCGTGGTTC 58.546 37.500 0.00 0.00 0.00 3.62
200 201 5.239744 TGTTTATGTTATGTTGCGTGGTTCT 59.760 36.000 0.00 0.00 0.00 3.01
201 202 5.950758 TTATGTTATGTTGCGTGGTTCTT 57.049 34.783 0.00 0.00 0.00 2.52
202 203 3.889196 TGTTATGTTGCGTGGTTCTTC 57.111 42.857 0.00 0.00 0.00 2.87
203 204 3.472652 TGTTATGTTGCGTGGTTCTTCT 58.527 40.909 0.00 0.00 0.00 2.85
204 205 4.633175 TGTTATGTTGCGTGGTTCTTCTA 58.367 39.130 0.00 0.00 0.00 2.10
205 206 4.449743 TGTTATGTTGCGTGGTTCTTCTAC 59.550 41.667 0.00 0.00 0.00 2.59
206 207 2.902705 TGTTGCGTGGTTCTTCTACT 57.097 45.000 0.00 0.00 0.00 2.57
207 208 2.479837 TGTTGCGTGGTTCTTCTACTG 58.520 47.619 0.00 0.00 0.00 2.74
208 209 1.798813 GTTGCGTGGTTCTTCTACTGG 59.201 52.381 0.00 0.00 0.00 4.00
209 210 1.045407 TGCGTGGTTCTTCTACTGGT 58.955 50.000 0.00 0.00 0.00 4.00
210 211 1.414919 TGCGTGGTTCTTCTACTGGTT 59.585 47.619 0.00 0.00 0.00 3.67
211 212 2.067013 GCGTGGTTCTTCTACTGGTTC 58.933 52.381 0.00 0.00 0.00 3.62
212 213 2.325761 CGTGGTTCTTCTACTGGTTCG 58.674 52.381 0.00 0.00 0.00 3.95
213 214 2.030540 CGTGGTTCTTCTACTGGTTCGA 60.031 50.000 0.00 0.00 0.00 3.71
214 215 3.367087 CGTGGTTCTTCTACTGGTTCGAT 60.367 47.826 0.00 0.00 0.00 3.59
215 216 4.142534 CGTGGTTCTTCTACTGGTTCGATA 60.143 45.833 0.00 0.00 0.00 2.92
216 217 5.620654 CGTGGTTCTTCTACTGGTTCGATAA 60.621 44.000 0.00 0.00 0.00 1.75
217 218 5.575995 GTGGTTCTTCTACTGGTTCGATAAC 59.424 44.000 0.00 0.00 34.66 1.89
228 229 3.889520 GTTCGATAACCTTGGTCTCCT 57.110 47.619 0.00 0.00 0.00 3.69
229 230 3.783191 GTTCGATAACCTTGGTCTCCTC 58.217 50.000 0.00 0.00 0.00 3.71
230 231 3.095912 TCGATAACCTTGGTCTCCTCA 57.904 47.619 0.00 0.00 0.00 3.86
231 232 2.758979 TCGATAACCTTGGTCTCCTCAC 59.241 50.000 0.00 0.00 0.00 3.51
232 233 2.761208 CGATAACCTTGGTCTCCTCACT 59.239 50.000 0.00 0.00 0.00 3.41
233 234 3.429547 CGATAACCTTGGTCTCCTCACTG 60.430 52.174 0.00 0.00 0.00 3.66
234 235 2.103153 AACCTTGGTCTCCTCACTGA 57.897 50.000 0.00 0.00 0.00 3.41
235 236 2.103153 ACCTTGGTCTCCTCACTGAA 57.897 50.000 0.00 0.00 0.00 3.02
236 237 1.974236 ACCTTGGTCTCCTCACTGAAG 59.026 52.381 0.00 0.00 0.00 3.02
237 238 1.277557 CCTTGGTCTCCTCACTGAAGG 59.722 57.143 0.00 0.00 37.81 3.46
238 239 1.277557 CTTGGTCTCCTCACTGAAGGG 59.722 57.143 0.00 0.00 37.02 3.95
239 240 0.487325 TGGTCTCCTCACTGAAGGGA 59.513 55.000 0.00 0.00 37.02 4.20
240 241 1.132849 TGGTCTCCTCACTGAAGGGAA 60.133 52.381 0.00 0.00 37.02 3.97
241 242 1.978580 GGTCTCCTCACTGAAGGGAAA 59.021 52.381 0.00 0.00 37.02 3.13
242 243 2.573915 GGTCTCCTCACTGAAGGGAAAT 59.426 50.000 0.00 0.00 37.02 2.17
243 244 3.775316 GGTCTCCTCACTGAAGGGAAATA 59.225 47.826 0.00 0.00 37.02 1.40
244 245 4.383226 GGTCTCCTCACTGAAGGGAAATAC 60.383 50.000 0.00 0.00 37.02 1.89
245 246 3.775316 TCTCCTCACTGAAGGGAAATACC 59.225 47.826 0.00 0.00 37.02 2.73
246 247 3.777522 CTCCTCACTGAAGGGAAATACCT 59.222 47.826 0.00 0.00 44.56 3.08
247 248 4.955335 TCCTCACTGAAGGGAAATACCTA 58.045 43.478 0.00 0.00 40.87 3.08
248 249 4.715297 TCCTCACTGAAGGGAAATACCTAC 59.285 45.833 0.00 0.00 40.87 3.18
249 250 4.141688 CCTCACTGAAGGGAAATACCTACC 60.142 50.000 0.00 0.00 40.87 3.18
250 251 4.431378 TCACTGAAGGGAAATACCTACCA 58.569 43.478 0.00 0.00 40.87 3.25
251 252 5.036916 TCACTGAAGGGAAATACCTACCAT 58.963 41.667 0.00 0.00 40.87 3.55
252 253 5.491078 TCACTGAAGGGAAATACCTACCATT 59.509 40.000 0.00 0.00 40.87 3.16
253 254 5.590259 CACTGAAGGGAAATACCTACCATTG 59.410 44.000 0.00 0.00 40.87 2.82
254 255 5.491078 ACTGAAGGGAAATACCTACCATTGA 59.509 40.000 0.00 0.00 40.87 2.57
255 256 6.160459 ACTGAAGGGAAATACCTACCATTGAT 59.840 38.462 0.00 0.00 40.87 2.57
256 257 6.364701 TGAAGGGAAATACCTACCATTGATG 58.635 40.000 0.00 0.00 40.87 3.07
257 258 5.994416 AGGGAAATACCTACCATTGATGT 57.006 39.130 0.00 0.00 39.65 3.06
258 259 5.694995 AGGGAAATACCTACCATTGATGTG 58.305 41.667 0.00 0.00 39.65 3.21
259 260 4.278419 GGGAAATACCTACCATTGATGTGC 59.722 45.833 0.00 0.00 38.98 4.57
260 261 5.133221 GGAAATACCTACCATTGATGTGCT 58.867 41.667 0.00 0.00 35.41 4.40
261 262 5.009010 GGAAATACCTACCATTGATGTGCTG 59.991 44.000 0.00 0.00 35.41 4.41
262 263 1.755179 ACCTACCATTGATGTGCTGC 58.245 50.000 0.00 0.00 0.00 5.25
263 264 1.004628 ACCTACCATTGATGTGCTGCA 59.995 47.619 0.00 0.00 0.00 4.41
264 265 2.304092 CCTACCATTGATGTGCTGCAT 58.696 47.619 5.27 0.00 41.24 3.96
272 273 3.918134 ATGTGCTGCATCATCCCTT 57.082 47.368 5.27 0.00 30.67 3.95
273 274 2.154567 ATGTGCTGCATCATCCCTTT 57.845 45.000 5.27 0.00 30.67 3.11
274 275 1.466856 TGTGCTGCATCATCCCTTTC 58.533 50.000 5.27 0.00 0.00 2.62
275 276 1.005097 TGTGCTGCATCATCCCTTTCT 59.995 47.619 5.27 0.00 0.00 2.52
276 277 1.404391 GTGCTGCATCATCCCTTTCTG 59.596 52.381 5.27 0.00 0.00 3.02
277 278 1.005097 TGCTGCATCATCCCTTTCTGT 59.995 47.619 0.00 0.00 0.00 3.41
278 279 2.097825 GCTGCATCATCCCTTTCTGTT 58.902 47.619 0.00 0.00 0.00 3.16
279 280 2.494870 GCTGCATCATCCCTTTCTGTTT 59.505 45.455 0.00 0.00 0.00 2.83
280 281 3.675228 GCTGCATCATCCCTTTCTGTTTG 60.675 47.826 0.00 0.00 0.00 2.93
281 282 3.760151 CTGCATCATCCCTTTCTGTTTGA 59.240 43.478 0.00 0.00 0.00 2.69
282 283 3.760151 TGCATCATCCCTTTCTGTTTGAG 59.240 43.478 0.00 0.00 0.00 3.02
283 284 3.129988 GCATCATCCCTTTCTGTTTGAGG 59.870 47.826 0.00 0.00 0.00 3.86
284 285 4.592942 CATCATCCCTTTCTGTTTGAGGA 58.407 43.478 0.00 0.00 32.11 3.71
285 286 4.722526 TCATCCCTTTCTGTTTGAGGAA 57.277 40.909 0.00 0.00 32.11 3.36
286 287 5.060427 TCATCCCTTTCTGTTTGAGGAAA 57.940 39.130 0.00 0.00 32.11 3.13
287 288 5.644188 TCATCCCTTTCTGTTTGAGGAAAT 58.356 37.500 0.00 0.00 32.15 2.17
288 289 6.789268 TCATCCCTTTCTGTTTGAGGAAATA 58.211 36.000 0.00 0.00 32.15 1.40
289 290 6.886459 TCATCCCTTTCTGTTTGAGGAAATAG 59.114 38.462 0.00 0.00 32.88 1.73
290 291 5.010282 TCCCTTTCTGTTTGAGGAAATAGC 58.990 41.667 0.00 0.00 31.94 2.97
291 292 4.766891 CCCTTTCTGTTTGAGGAAATAGCA 59.233 41.667 0.00 0.00 31.94 3.49
292 293 5.243730 CCCTTTCTGTTTGAGGAAATAGCAA 59.756 40.000 0.00 0.00 31.94 3.91
293 294 6.152379 CCTTTCTGTTTGAGGAAATAGCAAC 58.848 40.000 0.00 0.00 31.94 4.17
294 295 5.356882 TTCTGTTTGAGGAAATAGCAACG 57.643 39.130 0.00 0.00 31.94 4.10
295 296 3.751175 TCTGTTTGAGGAAATAGCAACGG 59.249 43.478 0.00 0.00 31.94 4.44
296 297 3.745799 TGTTTGAGGAAATAGCAACGGA 58.254 40.909 0.00 0.00 0.00 4.69
297 298 3.751175 TGTTTGAGGAAATAGCAACGGAG 59.249 43.478 0.00 0.00 0.00 4.63
298 299 8.640912 TCTGTTTGAGGAAATAGCAACGGAGT 62.641 42.308 0.00 0.00 34.45 3.85
299 300 9.999040 TCTGTTTGAGGAAATAGCAACGGAGTT 62.999 40.741 0.00 0.00 38.95 3.01
312 313 2.571212 ACGGAGTTCAAGCAAACATCA 58.429 42.857 0.00 0.00 37.78 3.07
313 314 2.948979 ACGGAGTTCAAGCAAACATCAA 59.051 40.909 0.00 0.00 37.78 2.57
314 315 3.243068 ACGGAGTTCAAGCAAACATCAAC 60.243 43.478 0.00 0.00 37.78 3.18
315 316 3.003689 CGGAGTTCAAGCAAACATCAACT 59.996 43.478 0.00 0.00 0.00 3.16
316 317 4.293415 GGAGTTCAAGCAAACATCAACTG 58.707 43.478 0.00 0.00 0.00 3.16
317 318 4.202050 GGAGTTCAAGCAAACATCAACTGT 60.202 41.667 0.00 0.00 40.84 3.55
318 319 4.925068 AGTTCAAGCAAACATCAACTGTC 58.075 39.130 0.00 0.00 36.98 3.51
319 320 4.641989 AGTTCAAGCAAACATCAACTGTCT 59.358 37.500 0.00 0.00 36.98 3.41
320 321 5.822519 AGTTCAAGCAAACATCAACTGTCTA 59.177 36.000 0.00 0.00 36.98 2.59
321 322 5.673337 TCAAGCAAACATCAACTGTCTAC 57.327 39.130 0.00 0.00 36.98 2.59
322 323 5.368145 TCAAGCAAACATCAACTGTCTACT 58.632 37.500 0.00 0.00 36.98 2.57
323 324 6.521162 TCAAGCAAACATCAACTGTCTACTA 58.479 36.000 0.00 0.00 36.98 1.82
324 325 6.423905 TCAAGCAAACATCAACTGTCTACTAC 59.576 38.462 0.00 0.00 36.98 2.73
325 326 5.853936 AGCAAACATCAACTGTCTACTACA 58.146 37.500 0.00 0.00 36.98 2.74
326 327 6.288294 AGCAAACATCAACTGTCTACTACAA 58.712 36.000 0.00 0.00 36.98 2.41
327 328 6.202954 AGCAAACATCAACTGTCTACTACAAC 59.797 38.462 0.00 0.00 36.98 3.32
328 329 6.018262 GCAAACATCAACTGTCTACTACAACA 60.018 38.462 0.00 0.00 36.98 3.33
329 330 7.466725 GCAAACATCAACTGTCTACTACAACAA 60.467 37.037 0.00 0.00 36.98 2.83
330 331 8.559536 CAAACATCAACTGTCTACTACAACAAT 58.440 33.333 0.00 0.00 36.98 2.71
331 332 7.658179 ACATCAACTGTCTACTACAACAATG 57.342 36.000 0.00 0.00 37.74 2.82
332 333 7.217200 ACATCAACTGTCTACTACAACAATGT 58.783 34.615 0.00 0.00 37.74 2.71
333 334 7.715249 ACATCAACTGTCTACTACAACAATGTT 59.285 33.333 0.00 0.00 37.74 2.71
334 335 8.559536 CATCAACTGTCTACTACAACAATGTTT 58.440 33.333 0.00 0.00 41.05 2.83
335 336 7.915508 TCAACTGTCTACTACAACAATGTTTG 58.084 34.615 0.00 0.00 41.05 2.93
337 338 7.478520 ACTGTCTACTACAACAATGTTTGTC 57.521 36.000 0.00 0.00 44.59 3.18
338 339 7.272978 ACTGTCTACTACAACAATGTTTGTCT 58.727 34.615 0.00 0.00 44.59 3.41
339 340 7.224753 ACTGTCTACTACAACAATGTTTGTCTG 59.775 37.037 0.00 0.00 44.59 3.51
620 621 2.289945 GGTGGTCTATGGATCTGGATGC 60.290 54.545 0.00 0.00 0.00 3.91
694 695 6.388259 TTGAAAGTTTTCTCGCAAAAACAG 57.612 33.333 20.19 0.00 46.68 3.16
707 708 4.668686 CGCAAAAACAGCAACAACACATTT 60.669 37.500 0.00 0.00 0.00 2.32
715 716 7.467557 ACAGCAACAACACATTTCAAATAAG 57.532 32.000 0.00 0.00 0.00 1.73
971 972 4.200283 GCGCCGTCTCCTCCTCTG 62.200 72.222 0.00 0.00 0.00 3.35
978 979 2.370349 CGTCTCCTCCTCTGAAGCTAA 58.630 52.381 0.00 0.00 0.00 3.09
987 988 0.902984 TCTGAAGCTAACCTCCGCCA 60.903 55.000 0.00 0.00 0.00 5.69
1011 1012 1.384502 TTCTCCGATGCCTCCCCAT 60.385 57.895 0.00 0.00 0.00 4.00
1017 1018 1.414061 CGATGCCTCCCCATCTCCTT 61.414 60.000 0.00 0.00 39.51 3.36
1039 1040 2.121385 ACAGCCTCCTCCAGCTCA 59.879 61.111 0.00 0.00 37.18 4.26
1047 1048 2.284921 CTCCAGCTCAGGGTCCCA 60.285 66.667 11.55 0.00 0.00 4.37
1098 1099 0.616371 CCTACAACCCCATTGACCGA 59.384 55.000 0.00 0.00 41.23 4.69
1128 1129 4.101448 GACCAGCCCCTGCACGAT 62.101 66.667 0.00 0.00 41.13 3.73
1558 1559 3.997021 AGCGTATGCATATAACAAGCTCC 59.003 43.478 10.16 0.00 46.23 4.70
1563 1564 2.509548 TGCATATAACAAGCTCCTGGGT 59.490 45.455 0.00 0.00 0.00 4.51
1735 1736 5.070001 TGGTCGAAAGAATGGATGAGTTTT 58.930 37.500 0.00 0.00 45.01 2.43
1742 1743 5.796424 AGAATGGATGAGTTTTGTTGCTT 57.204 34.783 0.00 0.00 0.00 3.91
2127 2128 1.640069 CGGACAGCTTGATGATGCG 59.360 57.895 0.00 0.00 35.06 4.73
2673 2674 9.551734 CTGAATGATACAATGGAGAATGTAAGA 57.448 33.333 0.00 0.00 35.79 2.10
3020 3137 4.006989 ACGGTGAGCAATATTTTACTGCA 58.993 39.130 0.00 0.00 38.58 4.41
3071 3188 3.067106 GAGACCTGACTTGCGAAATTCA 58.933 45.455 0.00 0.00 0.00 2.57
3195 3315 2.024414 AGTGGTTTTGCAGAACACTCC 58.976 47.619 20.43 5.07 0.00 3.85
3509 3632 5.026121 AGATCATCCAGTCACTTGAACCTA 58.974 41.667 0.00 0.00 0.00 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 9.995957 GCAACAAAGTATTTTTGTATTTTTGGT 57.004 25.926 5.78 0.00 41.30 3.67
6 7 9.994432 TGCAACAAAGTATTTTTGTATTTTTGG 57.006 25.926 5.78 0.00 41.30 3.28
21 22 9.593134 ACAAATGAAATAAAGTGCAACAAAGTA 57.407 25.926 0.00 0.00 41.43 2.24
22 23 8.389603 CACAAATGAAATAAAGTGCAACAAAGT 58.610 29.630 0.00 0.00 41.43 2.66
23 24 8.602328 TCACAAATGAAATAAAGTGCAACAAAG 58.398 29.630 0.00 0.00 41.43 2.77
24 25 8.484641 TCACAAATGAAATAAAGTGCAACAAA 57.515 26.923 0.00 0.00 41.43 2.83
25 26 8.659925 ATCACAAATGAAATAAAGTGCAACAA 57.340 26.923 0.00 0.00 37.67 2.83
26 27 8.143193 AGATCACAAATGAAATAAAGTGCAACA 58.857 29.630 0.00 0.00 37.67 3.33
27 28 8.524870 AGATCACAAATGAAATAAAGTGCAAC 57.475 30.769 0.00 0.00 38.69 4.17
39 40 9.699410 AGATTGGGTAAATAGATCACAAATGAA 57.301 29.630 0.00 0.00 38.69 2.57
55 56 9.856162 GGGATAAAGTTGTAATAGATTGGGTAA 57.144 33.333 0.00 0.00 0.00 2.85
56 57 8.152246 CGGGATAAAGTTGTAATAGATTGGGTA 58.848 37.037 0.00 0.00 0.00 3.69
57 58 6.996282 CGGGATAAAGTTGTAATAGATTGGGT 59.004 38.462 0.00 0.00 0.00 4.51
58 59 6.072673 GCGGGATAAAGTTGTAATAGATTGGG 60.073 42.308 0.00 0.00 0.00 4.12
59 60 6.072673 GGCGGGATAAAGTTGTAATAGATTGG 60.073 42.308 0.00 0.00 0.00 3.16
60 61 6.072673 GGGCGGGATAAAGTTGTAATAGATTG 60.073 42.308 0.00 0.00 0.00 2.67
61 62 6.002082 GGGCGGGATAAAGTTGTAATAGATT 58.998 40.000 0.00 0.00 0.00 2.40
62 63 5.514310 GGGGCGGGATAAAGTTGTAATAGAT 60.514 44.000 0.00 0.00 0.00 1.98
63 64 4.202388 GGGGCGGGATAAAGTTGTAATAGA 60.202 45.833 0.00 0.00 0.00 1.98
64 65 4.070009 GGGGCGGGATAAAGTTGTAATAG 58.930 47.826 0.00 0.00 0.00 1.73
65 66 3.181441 GGGGGCGGGATAAAGTTGTAATA 60.181 47.826 0.00 0.00 0.00 0.98
66 67 2.423803 GGGGGCGGGATAAAGTTGTAAT 60.424 50.000 0.00 0.00 0.00 1.89
67 68 1.064537 GGGGGCGGGATAAAGTTGTAA 60.065 52.381 0.00 0.00 0.00 2.41
68 69 0.547553 GGGGGCGGGATAAAGTTGTA 59.452 55.000 0.00 0.00 0.00 2.41
69 70 1.212250 AGGGGGCGGGATAAAGTTGT 61.212 55.000 0.00 0.00 0.00 3.32
70 71 0.033503 AAGGGGGCGGGATAAAGTTG 60.034 55.000 0.00 0.00 0.00 3.16
71 72 0.257905 GAAGGGGGCGGGATAAAGTT 59.742 55.000 0.00 0.00 0.00 2.66
72 73 1.642513 GGAAGGGGGCGGGATAAAGT 61.643 60.000 0.00 0.00 0.00 2.66
73 74 1.150764 GGAAGGGGGCGGGATAAAG 59.849 63.158 0.00 0.00 0.00 1.85
74 75 1.215679 TTGGAAGGGGGCGGGATAAA 61.216 55.000 0.00 0.00 0.00 1.40
75 76 0.996762 ATTGGAAGGGGGCGGGATAA 60.997 55.000 0.00 0.00 0.00 1.75
76 77 0.996762 AATTGGAAGGGGGCGGGATA 60.997 55.000 0.00 0.00 0.00 2.59
77 78 1.885593 AAATTGGAAGGGGGCGGGAT 61.886 55.000 0.00 0.00 0.00 3.85
78 79 2.100525 AAAATTGGAAGGGGGCGGGA 62.101 55.000 0.00 0.00 0.00 5.14
79 80 1.198094 AAAAATTGGAAGGGGGCGGG 61.198 55.000 0.00 0.00 0.00 6.13
80 81 0.036483 CAAAAATTGGAAGGGGGCGG 60.036 55.000 0.00 0.00 0.00 6.13
81 82 3.531073 CAAAAATTGGAAGGGGGCG 57.469 52.632 0.00 0.00 0.00 6.13
91 92 2.224066 TGGGTAACGGTGCCAAAAATTG 60.224 45.455 10.62 0.00 37.60 2.32
92 93 2.040178 TGGGTAACGGTGCCAAAAATT 58.960 42.857 10.62 0.00 37.60 1.82
93 94 1.705873 TGGGTAACGGTGCCAAAAAT 58.294 45.000 10.62 0.00 37.60 1.82
94 95 1.481871 TTGGGTAACGGTGCCAAAAA 58.518 45.000 10.62 0.00 37.60 1.94
95 96 1.481871 TTTGGGTAACGGTGCCAAAA 58.518 45.000 10.62 8.21 30.48 2.44
96 97 1.409427 CTTTTGGGTAACGGTGCCAAA 59.591 47.619 10.62 0.01 37.60 3.28
97 98 1.033574 CTTTTGGGTAACGGTGCCAA 58.966 50.000 10.62 0.00 37.60 4.52
98 99 0.824182 CCTTTTGGGTAACGGTGCCA 60.824 55.000 10.62 0.00 35.46 4.92
99 100 1.961378 CCTTTTGGGTAACGGTGCC 59.039 57.895 0.00 0.00 35.46 5.01
110 111 1.623311 GGGGTTGTCAATCCCTTTTGG 59.377 52.381 24.72 0.00 43.00 3.28
116 117 3.257375 GTGTTAAAGGGGTTGTCAATCCC 59.743 47.826 24.64 24.64 42.73 3.85
117 118 3.057806 CGTGTTAAAGGGGTTGTCAATCC 60.058 47.826 6.29 6.29 0.00 3.01
118 119 3.610821 GCGTGTTAAAGGGGTTGTCAATC 60.611 47.826 0.00 0.00 0.00 2.67
119 120 2.295070 GCGTGTTAAAGGGGTTGTCAAT 59.705 45.455 0.00 0.00 0.00 2.57
120 121 1.677052 GCGTGTTAAAGGGGTTGTCAA 59.323 47.619 0.00 0.00 0.00 3.18
121 122 1.310904 GCGTGTTAAAGGGGTTGTCA 58.689 50.000 0.00 0.00 0.00 3.58
122 123 0.594602 GGCGTGTTAAAGGGGTTGTC 59.405 55.000 0.00 0.00 0.00 3.18
123 124 1.167781 CGGCGTGTTAAAGGGGTTGT 61.168 55.000 0.00 0.00 0.00 3.32
124 125 1.577421 CGGCGTGTTAAAGGGGTTG 59.423 57.895 0.00 0.00 0.00 3.77
125 126 1.601477 CCGGCGTGTTAAAGGGGTT 60.601 57.895 6.01 0.00 0.00 4.11
126 127 2.032987 CCGGCGTGTTAAAGGGGT 59.967 61.111 6.01 0.00 0.00 4.95
127 128 2.748647 CCCGGCGTGTTAAAGGGG 60.749 66.667 6.01 0.00 38.44 4.79
129 130 1.577421 CAACCCGGCGTGTTAAAGG 59.423 57.895 7.56 0.49 0.00 3.11
130 131 1.081708 GCAACCCGGCGTGTTAAAG 60.082 57.895 7.56 0.00 0.00 1.85
131 132 3.032339 GCAACCCGGCGTGTTAAA 58.968 55.556 7.56 0.00 0.00 1.52
139 140 0.454196 ACAAATAATCGCAACCCGGC 59.546 50.000 0.00 0.00 37.59 6.13
140 141 2.931512 AACAAATAATCGCAACCCGG 57.068 45.000 0.00 0.00 37.59 5.73
141 142 5.802956 ACAAATAACAAATAATCGCAACCCG 59.197 36.000 0.00 0.00 38.61 5.28
142 143 6.588373 ACACAAATAACAAATAATCGCAACCC 59.412 34.615 0.00 0.00 0.00 4.11
143 144 7.444245 CACACAAATAACAAATAATCGCAACC 58.556 34.615 0.00 0.00 0.00 3.77
144 145 6.947680 GCACACAAATAACAAATAATCGCAAC 59.052 34.615 0.00 0.00 0.00 4.17
145 146 6.642540 TGCACACAAATAACAAATAATCGCAA 59.357 30.769 0.00 0.00 0.00 4.85
146 147 6.152379 TGCACACAAATAACAAATAATCGCA 58.848 32.000 0.00 0.00 0.00 5.10
147 148 6.526325 TCTGCACACAAATAACAAATAATCGC 59.474 34.615 0.00 0.00 0.00 4.58
148 149 8.446489 TTCTGCACACAAATAACAAATAATCG 57.554 30.769 0.00 0.00 0.00 3.34
149 150 8.375465 GCTTCTGCACACAAATAACAAATAATC 58.625 33.333 0.00 0.00 39.41 1.75
150 151 8.090214 AGCTTCTGCACACAAATAACAAATAAT 58.910 29.630 0.00 0.00 42.74 1.28
151 152 7.381948 CAGCTTCTGCACACAAATAACAAATAA 59.618 33.333 0.00 0.00 42.74 1.40
152 153 6.862608 CAGCTTCTGCACACAAATAACAAATA 59.137 34.615 0.00 0.00 42.74 1.40
153 154 5.693104 CAGCTTCTGCACACAAATAACAAAT 59.307 36.000 0.00 0.00 42.74 2.32
154 155 5.042593 CAGCTTCTGCACACAAATAACAAA 58.957 37.500 0.00 0.00 42.74 2.83
155 156 4.097741 ACAGCTTCTGCACACAAATAACAA 59.902 37.500 0.00 0.00 42.74 2.83
156 157 3.631686 ACAGCTTCTGCACACAAATAACA 59.368 39.130 0.00 0.00 42.74 2.41
157 158 4.228912 ACAGCTTCTGCACACAAATAAC 57.771 40.909 0.00 0.00 42.74 1.89
158 159 4.916983 AACAGCTTCTGCACACAAATAA 57.083 36.364 0.00 0.00 42.74 1.40
159 160 4.916983 AAACAGCTTCTGCACACAAATA 57.083 36.364 0.00 0.00 42.74 1.40
160 161 3.806625 AAACAGCTTCTGCACACAAAT 57.193 38.095 0.00 0.00 42.74 2.32
161 162 4.097741 ACATAAACAGCTTCTGCACACAAA 59.902 37.500 0.00 0.00 42.74 2.83
162 163 3.631686 ACATAAACAGCTTCTGCACACAA 59.368 39.130 0.00 0.00 42.74 3.33
163 164 3.213506 ACATAAACAGCTTCTGCACACA 58.786 40.909 0.00 0.00 42.74 3.72
164 165 3.904136 ACATAAACAGCTTCTGCACAC 57.096 42.857 0.00 0.00 42.74 3.82
165 166 5.473162 ACATAACATAAACAGCTTCTGCACA 59.527 36.000 0.00 0.00 42.74 4.57
166 167 5.942872 ACATAACATAAACAGCTTCTGCAC 58.057 37.500 0.00 0.00 42.74 4.57
167 168 6.380995 CAACATAACATAAACAGCTTCTGCA 58.619 36.000 0.00 0.00 42.74 4.41
168 169 5.287035 GCAACATAACATAAACAGCTTCTGC 59.713 40.000 0.00 0.00 34.37 4.26
169 170 5.509272 CGCAACATAACATAAACAGCTTCTG 59.491 40.000 0.00 0.00 37.52 3.02
170 171 5.181245 ACGCAACATAACATAAACAGCTTCT 59.819 36.000 0.00 0.00 0.00 2.85
171 172 5.283717 CACGCAACATAACATAAACAGCTTC 59.716 40.000 0.00 0.00 0.00 3.86
172 173 5.153513 CACGCAACATAACATAAACAGCTT 58.846 37.500 0.00 0.00 0.00 3.74
173 174 4.379394 CCACGCAACATAACATAAACAGCT 60.379 41.667 0.00 0.00 0.00 4.24
174 175 3.851403 CCACGCAACATAACATAAACAGC 59.149 43.478 0.00 0.00 0.00 4.40
175 176 5.041951 ACCACGCAACATAACATAAACAG 57.958 39.130 0.00 0.00 0.00 3.16
176 177 5.239744 AGAACCACGCAACATAACATAAACA 59.760 36.000 0.00 0.00 0.00 2.83
177 178 5.695818 AGAACCACGCAACATAACATAAAC 58.304 37.500 0.00 0.00 0.00 2.01
178 179 5.950758 AGAACCACGCAACATAACATAAA 57.049 34.783 0.00 0.00 0.00 1.40
179 180 5.703592 AGAAGAACCACGCAACATAACATAA 59.296 36.000 0.00 0.00 0.00 1.90
180 181 5.242434 AGAAGAACCACGCAACATAACATA 58.758 37.500 0.00 0.00 0.00 2.29
181 182 4.072131 AGAAGAACCACGCAACATAACAT 58.928 39.130 0.00 0.00 0.00 2.71
182 183 3.472652 AGAAGAACCACGCAACATAACA 58.527 40.909 0.00 0.00 0.00 2.41
183 184 4.689345 AGTAGAAGAACCACGCAACATAAC 59.311 41.667 0.00 0.00 0.00 1.89
184 185 4.688879 CAGTAGAAGAACCACGCAACATAA 59.311 41.667 0.00 0.00 0.00 1.90
185 186 4.242475 CAGTAGAAGAACCACGCAACATA 58.758 43.478 0.00 0.00 0.00 2.29
186 187 3.067106 CAGTAGAAGAACCACGCAACAT 58.933 45.455 0.00 0.00 0.00 2.71
187 188 2.479837 CAGTAGAAGAACCACGCAACA 58.520 47.619 0.00 0.00 0.00 3.33
188 189 1.798813 CCAGTAGAAGAACCACGCAAC 59.201 52.381 0.00 0.00 0.00 4.17
189 190 1.414919 ACCAGTAGAAGAACCACGCAA 59.585 47.619 0.00 0.00 0.00 4.85
190 191 1.045407 ACCAGTAGAAGAACCACGCA 58.955 50.000 0.00 0.00 0.00 5.24
191 192 2.067013 GAACCAGTAGAAGAACCACGC 58.933 52.381 0.00 0.00 0.00 5.34
192 193 2.030540 TCGAACCAGTAGAAGAACCACG 60.031 50.000 0.00 0.00 0.00 4.94
193 194 3.655276 TCGAACCAGTAGAAGAACCAC 57.345 47.619 0.00 0.00 0.00 4.16
194 195 5.717119 GTTATCGAACCAGTAGAAGAACCA 58.283 41.667 0.00 0.00 0.00 3.67
208 209 3.194968 TGAGGAGACCAAGGTTATCGAAC 59.805 47.826 0.00 0.00 34.56 3.95
209 210 3.194968 GTGAGGAGACCAAGGTTATCGAA 59.805 47.826 0.00 0.00 0.00 3.71
210 211 2.758979 GTGAGGAGACCAAGGTTATCGA 59.241 50.000 0.00 0.00 0.00 3.59
211 212 2.761208 AGTGAGGAGACCAAGGTTATCG 59.239 50.000 0.00 0.00 0.00 2.92
212 213 3.769844 TCAGTGAGGAGACCAAGGTTATC 59.230 47.826 0.00 0.00 0.00 1.75
213 214 3.791320 TCAGTGAGGAGACCAAGGTTAT 58.209 45.455 0.00 0.00 0.00 1.89
214 215 3.254093 TCAGTGAGGAGACCAAGGTTA 57.746 47.619 0.00 0.00 0.00 2.85
215 216 2.103153 TCAGTGAGGAGACCAAGGTT 57.897 50.000 0.00 0.00 0.00 3.50
216 217 1.974236 CTTCAGTGAGGAGACCAAGGT 59.026 52.381 0.00 0.00 0.00 3.50
217 218 1.277557 CCTTCAGTGAGGAGACCAAGG 59.722 57.143 3.36 0.00 39.25 3.61
218 219 1.277557 CCCTTCAGTGAGGAGACCAAG 59.722 57.143 3.36 0.00 39.25 3.61
219 220 1.132849 TCCCTTCAGTGAGGAGACCAA 60.133 52.381 3.36 0.00 39.25 3.67
220 221 0.487325 TCCCTTCAGTGAGGAGACCA 59.513 55.000 3.36 0.00 39.25 4.02
221 222 1.645710 TTCCCTTCAGTGAGGAGACC 58.354 55.000 3.36 0.00 39.25 3.85
222 223 3.990959 ATTTCCCTTCAGTGAGGAGAC 57.009 47.619 3.36 0.00 39.25 3.36
223 224 3.775316 GGTATTTCCCTTCAGTGAGGAGA 59.225 47.826 3.36 0.00 39.25 3.71
224 225 3.777522 AGGTATTTCCCTTCAGTGAGGAG 59.222 47.826 3.36 0.00 39.25 3.69
225 226 3.803340 AGGTATTTCCCTTCAGTGAGGA 58.197 45.455 3.36 0.00 39.25 3.71
226 227 4.141688 GGTAGGTATTTCCCTTCAGTGAGG 60.142 50.000 0.00 0.00 35.97 3.86
227 228 4.469945 TGGTAGGTATTTCCCTTCAGTGAG 59.530 45.833 0.00 0.00 35.97 3.51
228 229 4.431378 TGGTAGGTATTTCCCTTCAGTGA 58.569 43.478 0.00 0.00 35.97 3.41
229 230 4.837093 TGGTAGGTATTTCCCTTCAGTG 57.163 45.455 0.00 0.00 35.97 3.66
230 231 5.491078 TCAATGGTAGGTATTTCCCTTCAGT 59.509 40.000 0.00 0.00 35.97 3.41
231 232 6.001449 TCAATGGTAGGTATTTCCCTTCAG 57.999 41.667 0.00 0.00 35.97 3.02
232 233 6.069088 ACATCAATGGTAGGTATTTCCCTTCA 60.069 38.462 0.00 0.00 35.97 3.02
233 234 6.263168 CACATCAATGGTAGGTATTTCCCTTC 59.737 42.308 0.00 0.00 35.97 3.46
234 235 6.129179 CACATCAATGGTAGGTATTTCCCTT 58.871 40.000 0.00 0.00 35.97 3.95
235 236 5.694995 CACATCAATGGTAGGTATTTCCCT 58.305 41.667 0.00 0.00 38.70 4.20
236 237 4.278419 GCACATCAATGGTAGGTATTTCCC 59.722 45.833 0.00 0.00 36.75 3.97
237 238 5.009010 CAGCACATCAATGGTAGGTATTTCC 59.991 44.000 0.00 0.00 0.00 3.13
238 239 5.506317 GCAGCACATCAATGGTAGGTATTTC 60.506 44.000 0.00 0.00 0.00 2.17
239 240 4.339247 GCAGCACATCAATGGTAGGTATTT 59.661 41.667 0.00 0.00 0.00 1.40
240 241 3.885297 GCAGCACATCAATGGTAGGTATT 59.115 43.478 0.00 0.00 0.00 1.89
241 242 3.117926 TGCAGCACATCAATGGTAGGTAT 60.118 43.478 0.00 0.00 0.00 2.73
242 243 2.238395 TGCAGCACATCAATGGTAGGTA 59.762 45.455 0.00 0.00 0.00 3.08
243 244 1.004628 TGCAGCACATCAATGGTAGGT 59.995 47.619 0.00 0.00 0.00 3.08
244 245 1.753930 TGCAGCACATCAATGGTAGG 58.246 50.000 0.00 0.00 0.00 3.18
254 255 2.029623 GAAAGGGATGATGCAGCACAT 58.970 47.619 6.89 5.06 43.54 3.21
255 256 1.005097 AGAAAGGGATGATGCAGCACA 59.995 47.619 6.89 0.00 0.00 4.57
256 257 1.404391 CAGAAAGGGATGATGCAGCAC 59.596 52.381 6.89 0.81 0.00 4.40
257 258 1.005097 ACAGAAAGGGATGATGCAGCA 59.995 47.619 7.31 7.31 0.00 4.41
258 259 1.760192 ACAGAAAGGGATGATGCAGC 58.240 50.000 0.00 0.00 0.00 5.25
259 260 3.760151 TCAAACAGAAAGGGATGATGCAG 59.240 43.478 0.00 0.00 0.00 4.41
260 261 3.760151 CTCAAACAGAAAGGGATGATGCA 59.240 43.478 0.00 0.00 0.00 3.96
261 262 3.129988 CCTCAAACAGAAAGGGATGATGC 59.870 47.826 0.00 0.00 0.00 3.91
262 263 4.592942 TCCTCAAACAGAAAGGGATGATG 58.407 43.478 0.00 0.00 0.00 3.07
263 264 4.934797 TCCTCAAACAGAAAGGGATGAT 57.065 40.909 0.00 0.00 0.00 2.45
264 265 4.722526 TTCCTCAAACAGAAAGGGATGA 57.277 40.909 0.00 0.00 0.00 2.92
265 266 5.990120 ATTTCCTCAAACAGAAAGGGATG 57.010 39.130 0.00 0.00 35.57 3.51
266 267 5.654209 GCTATTTCCTCAAACAGAAAGGGAT 59.346 40.000 0.00 0.00 35.57 3.85
267 268 5.010282 GCTATTTCCTCAAACAGAAAGGGA 58.990 41.667 0.00 0.00 35.57 4.20
268 269 4.766891 TGCTATTTCCTCAAACAGAAAGGG 59.233 41.667 0.00 0.00 35.57 3.95
269 270 5.964958 TGCTATTTCCTCAAACAGAAAGG 57.035 39.130 0.00 0.00 35.57 3.11
270 271 5.853282 CGTTGCTATTTCCTCAAACAGAAAG 59.147 40.000 0.00 0.00 35.57 2.62
271 272 5.278266 CCGTTGCTATTTCCTCAAACAGAAA 60.278 40.000 0.00 0.00 36.48 2.52
272 273 4.215399 CCGTTGCTATTTCCTCAAACAGAA 59.785 41.667 0.00 0.00 0.00 3.02
273 274 3.751175 CCGTTGCTATTTCCTCAAACAGA 59.249 43.478 0.00 0.00 0.00 3.41
274 275 3.751175 TCCGTTGCTATTTCCTCAAACAG 59.249 43.478 0.00 0.00 0.00 3.16
275 276 3.745799 TCCGTTGCTATTTCCTCAAACA 58.254 40.909 0.00 0.00 0.00 2.83
276 277 3.751698 ACTCCGTTGCTATTTCCTCAAAC 59.248 43.478 0.00 0.00 0.00 2.93
277 278 4.015872 ACTCCGTTGCTATTTCCTCAAA 57.984 40.909 0.00 0.00 0.00 2.69
278 279 3.695830 ACTCCGTTGCTATTTCCTCAA 57.304 42.857 0.00 0.00 0.00 3.02
279 280 3.007506 TGAACTCCGTTGCTATTTCCTCA 59.992 43.478 0.00 0.00 0.00 3.86
280 281 3.596214 TGAACTCCGTTGCTATTTCCTC 58.404 45.455 0.00 0.00 0.00 3.71
281 282 3.695830 TGAACTCCGTTGCTATTTCCT 57.304 42.857 0.00 0.00 0.00 3.36
282 283 3.426292 GCTTGAACTCCGTTGCTATTTCC 60.426 47.826 0.00 0.00 0.00 3.13
283 284 3.188460 TGCTTGAACTCCGTTGCTATTTC 59.812 43.478 0.00 0.00 0.00 2.17
284 285 3.146066 TGCTTGAACTCCGTTGCTATTT 58.854 40.909 0.00 0.00 0.00 1.40
285 286 2.778299 TGCTTGAACTCCGTTGCTATT 58.222 42.857 0.00 0.00 0.00 1.73
286 287 2.472695 TGCTTGAACTCCGTTGCTAT 57.527 45.000 0.00 0.00 0.00 2.97
287 288 2.248280 TTGCTTGAACTCCGTTGCTA 57.752 45.000 0.00 0.00 0.00 3.49
288 289 1.065551 GTTTGCTTGAACTCCGTTGCT 59.934 47.619 0.00 0.00 0.00 3.91
289 290 1.202245 TGTTTGCTTGAACTCCGTTGC 60.202 47.619 0.00 0.00 0.00 4.17
290 291 2.842208 TGTTTGCTTGAACTCCGTTG 57.158 45.000 0.00 0.00 0.00 4.10
291 292 2.948979 TGATGTTTGCTTGAACTCCGTT 59.051 40.909 0.00 0.00 0.00 4.44
292 293 2.571212 TGATGTTTGCTTGAACTCCGT 58.429 42.857 0.00 0.00 0.00 4.69
293 294 3.003689 AGTTGATGTTTGCTTGAACTCCG 59.996 43.478 0.00 0.00 0.00 4.63
294 295 4.202050 ACAGTTGATGTTTGCTTGAACTCC 60.202 41.667 0.00 0.00 39.96 3.85
295 296 4.925068 ACAGTTGATGTTTGCTTGAACTC 58.075 39.130 0.00 0.00 39.96 3.01
296 297 4.641989 AGACAGTTGATGTTTGCTTGAACT 59.358 37.500 0.00 0.00 44.17 3.01
297 298 4.925068 AGACAGTTGATGTTTGCTTGAAC 58.075 39.130 0.00 0.00 44.17 3.18
298 299 5.822519 AGTAGACAGTTGATGTTTGCTTGAA 59.177 36.000 0.00 0.00 44.17 2.69
299 300 5.368145 AGTAGACAGTTGATGTTTGCTTGA 58.632 37.500 0.00 0.00 44.17 3.02
300 301 5.679734 AGTAGACAGTTGATGTTTGCTTG 57.320 39.130 0.00 0.00 44.17 4.01
301 302 6.288294 TGTAGTAGACAGTTGATGTTTGCTT 58.712 36.000 0.00 0.00 44.17 3.91
302 303 5.853936 TGTAGTAGACAGTTGATGTTTGCT 58.146 37.500 0.00 0.00 44.17 3.91
303 304 6.018262 TGTTGTAGTAGACAGTTGATGTTTGC 60.018 38.462 0.00 0.00 44.17 3.68
304 305 7.477144 TGTTGTAGTAGACAGTTGATGTTTG 57.523 36.000 0.00 0.00 44.17 2.93
305 306 8.559536 CATTGTTGTAGTAGACAGTTGATGTTT 58.440 33.333 0.00 0.00 44.17 2.83
306 307 7.715249 ACATTGTTGTAGTAGACAGTTGATGTT 59.285 33.333 0.00 0.00 39.88 2.71
307 308 7.217200 ACATTGTTGTAGTAGACAGTTGATGT 58.783 34.615 0.00 0.00 39.88 3.06
308 309 7.658179 ACATTGTTGTAGTAGACAGTTGATG 57.342 36.000 0.00 0.00 39.88 3.07
309 310 8.559536 CAAACATTGTTGTAGTAGACAGTTGAT 58.440 33.333 2.13 0.00 39.88 2.57
310 311 7.551262 ACAAACATTGTTGTAGTAGACAGTTGA 59.449 33.333 2.13 0.00 42.22 3.18
311 312 7.693952 ACAAACATTGTTGTAGTAGACAGTTG 58.306 34.615 2.13 0.00 42.22 3.16
312 313 7.769044 AGACAAACATTGTTGTAGTAGACAGTT 59.231 33.333 2.13 0.00 45.52 3.16
313 314 7.224753 CAGACAAACATTGTTGTAGTAGACAGT 59.775 37.037 2.13 0.00 45.52 3.55
314 315 7.567571 CAGACAAACATTGTTGTAGTAGACAG 58.432 38.462 2.13 0.00 45.52 3.51
315 316 7.477144 CAGACAAACATTGTTGTAGTAGACA 57.523 36.000 2.13 0.00 45.52 3.41
586 587 6.013379 CCATAGACCACCTAGTGATGACTAT 58.987 44.000 0.00 0.00 35.23 2.12
592 593 5.083122 CAGATCCATAGACCACCTAGTGAT 58.917 45.833 0.00 0.00 35.23 3.06
595 596 3.467483 TCCAGATCCATAGACCACCTAGT 59.533 47.826 0.00 0.00 0.00 2.57
650 651 9.506018 TTTCAATCTATTCATCAACTGTCAAGA 57.494 29.630 0.00 0.00 0.00 3.02
694 695 6.357198 CAGCTTATTTGAAATGTGTTGTTGC 58.643 36.000 0.00 0.00 0.00 4.17
707 708 7.452880 ACTTATGAAACAGCAGCTTATTTGA 57.547 32.000 6.19 0.00 0.00 2.69
715 716 5.362556 TGAAGAACTTATGAAACAGCAGC 57.637 39.130 0.00 0.00 0.00 5.25
971 972 1.449778 GGTGGCGGAGGTTAGCTTC 60.450 63.158 0.00 0.00 0.00 3.86
987 988 4.162690 GGCATCGGAGAAGGCGGT 62.163 66.667 0.00 0.00 41.61 5.68
1011 1012 1.359474 AGGAGGCTGTGTAGAAGGAGA 59.641 52.381 0.00 0.00 0.00 3.71
1017 1018 0.972983 GCTGGAGGAGGCTGTGTAGA 60.973 60.000 0.00 0.00 0.00 2.59
1128 1129 1.746615 GGCGATCCAAAGCTCAGCA 60.747 57.895 0.00 0.00 0.00 4.41
1164 1165 1.127567 AGTGTGGCAGGAGTAAGGCA 61.128 55.000 0.00 0.00 38.03 4.75
1470 1471 2.768492 GGCATCAAGAAGGCCTGCG 61.768 63.158 5.69 0.00 44.32 5.18
1558 1559 0.038343 CGGCCAATGAACAAACCCAG 60.038 55.000 2.24 0.00 0.00 4.45
1563 1564 1.365633 GCCACGGCCAATGAACAAA 59.634 52.632 2.24 0.00 34.56 2.83
1602 1603 1.203001 TGGATCCACCCCTCAAACAAC 60.203 52.381 11.44 0.00 38.00 3.32
1641 1642 0.439985 CATTGAAGCTCCACACGTCG 59.560 55.000 0.00 0.00 0.00 5.12
1722 1723 4.060205 GCAAGCAACAAAACTCATCCATT 58.940 39.130 0.00 0.00 0.00 3.16
1735 1736 2.426522 GACAGTATCTGGCAAGCAACA 58.573 47.619 0.00 0.00 39.71 3.33
1931 1932 1.282570 CCACACGCAACCATGTCAC 59.717 57.895 0.00 0.00 0.00 3.67
2127 2128 6.347696 AGACATCTCAGTCCAAATCTTCATC 58.652 40.000 0.00 0.00 39.34 2.92
3000 3117 5.309323 TGTGCAGTAAAATATTGCTCACC 57.691 39.130 6.46 0.00 41.40 4.02
3020 3137 8.847196 TGTCTATAGAATAAGATTAGCGTGTGT 58.153 33.333 3.40 0.00 0.00 3.72
3171 3291 5.031066 AGTGTTCTGCAAAACCACTAGTA 57.969 39.130 0.00 0.00 0.00 1.82
3195 3315 5.844396 GGTTACATTTGAGTTCTTTTCGACG 59.156 40.000 0.00 0.00 0.00 5.12
3509 3632 1.541233 CGAAGCAGGTTCTTGACAGGT 60.541 52.381 10.58 0.00 32.33 4.00


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

AutoCloner maintained by Alex Coulton.