Multiple sequence alignment - TraesCS3B01G466800

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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 TraesCS3B01G466800 chr3B 100.000 3413 0 0 1 3413 709274809 709271397 0.000000e+00 6303
1 TraesCS3B01G466800 chr3D 93.057 3111 116 40 207 3276 536886436 536883385 0.000000e+00 4457
2 TraesCS3B01G466800 chr3D 85.928 334 26 5 3099 3413 536883247 536882916 1.520000e-88 337
3 TraesCS3B01G466800 chr3A 93.136 1792 80 11 785 2551 672097271 672095498 0.000000e+00 2588
4 TraesCS3B01G466800 chr3A 90.682 880 46 16 2551 3413 672095356 672094496 0.000000e+00 1138
5 TraesCS3B01G466800 chr3A 90.957 564 30 4 207 770 672098150 672097608 0.000000e+00 739


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 TraesCS3B01G466800 chr3B 709271397 709274809 3412 True 6303.000000 6303 100.000000 1 3413 1 chr3B.!!$R1 3412
1 TraesCS3B01G466800 chr3D 536882916 536886436 3520 True 2397.000000 4457 89.492500 207 3413 2 chr3D.!!$R1 3206
2 TraesCS3B01G466800 chr3A 672094496 672098150 3654 True 1488.333333 2588 91.591667 207 3413 3 chr3A.!!$R1 3206

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
290 291 0.033208 TCCATTCATTGTGAGCCCCC 60.033 55.0 0.0 0.0 0.0 5.40 F
952 1281 0.389556 CGAGGAGATGATGGATGCGG 60.390 60.0 0.0 0.0 0.0 5.69 F
1643 2001 0.687354 TGAGGAAGCTGGAGAACACC 59.313 55.0 0.0 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1625 1983 0.687354 TGGTGTTCTCCAGCTTCCTC 59.313 55.000 0.0 0.0 42.19 3.71 R
1968 2326 1.066286 CAGGTTCTTCTCCAGCCTCTG 60.066 57.143 0.0 0.0 0.00 3.35 R
3372 3897 0.958822 GCGGGAGGAAAGAAAAAGCA 59.041 50.000 0.0 0.0 0.00 3.91 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
21 22 1.961793 TAGCAATTATGTCGCCCACC 58.038 50.000 0.00 0.00 0.00 4.61
22 23 0.034574 AGCAATTATGTCGCCCACCA 60.035 50.000 0.00 0.00 0.00 4.17
23 24 1.032014 GCAATTATGTCGCCCACCAT 58.968 50.000 0.00 0.00 0.00 3.55
24 25 1.001378 GCAATTATGTCGCCCACCATC 60.001 52.381 0.00 0.00 0.00 3.51
25 26 2.575532 CAATTATGTCGCCCACCATCT 58.424 47.619 0.00 0.00 0.00 2.90
26 27 3.738982 CAATTATGTCGCCCACCATCTA 58.261 45.455 0.00 0.00 0.00 1.98
27 28 2.902705 TTATGTCGCCCACCATCTAC 57.097 50.000 0.00 0.00 0.00 2.59
28 29 2.082140 TATGTCGCCCACCATCTACT 57.918 50.000 0.00 0.00 0.00 2.57
29 30 0.465705 ATGTCGCCCACCATCTACTG 59.534 55.000 0.00 0.00 0.00 2.74
30 31 1.521681 GTCGCCCACCATCTACTGC 60.522 63.158 0.00 0.00 0.00 4.40
31 32 1.987306 TCGCCCACCATCTACTGCA 60.987 57.895 0.00 0.00 0.00 4.41
32 33 1.078497 CGCCCACCATCTACTGCAA 60.078 57.895 0.00 0.00 0.00 4.08
33 34 1.369091 CGCCCACCATCTACTGCAAC 61.369 60.000 0.00 0.00 0.00 4.17
34 35 1.369091 GCCCACCATCTACTGCAACG 61.369 60.000 0.00 0.00 0.00 4.10
35 36 0.744414 CCCACCATCTACTGCAACGG 60.744 60.000 0.00 0.00 0.00 4.44
36 37 0.744414 CCACCATCTACTGCAACGGG 60.744 60.000 0.00 0.00 0.00 5.28
37 38 1.078426 ACCATCTACTGCAACGGGC 60.078 57.895 0.00 0.00 45.13 6.13
58 59 5.057149 GGCACCTTGATACACTAGTAATGG 58.943 45.833 0.00 0.00 33.13 3.16
59 60 4.511826 GCACCTTGATACACTAGTAATGGC 59.488 45.833 0.00 0.00 33.13 4.40
60 61 5.670485 CACCTTGATACACTAGTAATGGCA 58.330 41.667 0.00 0.00 33.13 4.92
61 62 5.755375 CACCTTGATACACTAGTAATGGCAG 59.245 44.000 0.00 0.00 33.13 4.85
62 63 5.661312 ACCTTGATACACTAGTAATGGCAGA 59.339 40.000 0.00 0.00 33.13 4.26
63 64 5.986135 CCTTGATACACTAGTAATGGCAGAC 59.014 44.000 0.00 0.00 33.13 3.51
64 65 6.183360 CCTTGATACACTAGTAATGGCAGACT 60.183 42.308 9.51 9.51 33.13 3.24
65 66 6.392625 TGATACACTAGTAATGGCAGACTC 57.607 41.667 8.02 0.00 33.13 3.36
66 67 6.129874 TGATACACTAGTAATGGCAGACTCT 58.870 40.000 8.02 0.00 33.13 3.24
67 68 6.607600 TGATACACTAGTAATGGCAGACTCTT 59.392 38.462 8.02 0.00 33.13 2.85
68 69 7.778382 TGATACACTAGTAATGGCAGACTCTTA 59.222 37.037 8.02 0.00 33.13 2.10
69 70 8.713708 ATACACTAGTAATGGCAGACTCTTAT 57.286 34.615 8.02 0.60 33.13 1.73
70 71 6.810911 ACACTAGTAATGGCAGACTCTTATG 58.189 40.000 8.02 6.02 0.00 1.90
71 72 6.607600 ACACTAGTAATGGCAGACTCTTATGA 59.392 38.462 8.02 0.00 0.00 2.15
72 73 7.288852 ACACTAGTAATGGCAGACTCTTATGAT 59.711 37.037 8.02 0.00 0.00 2.45
73 74 8.147058 CACTAGTAATGGCAGACTCTTATGATT 58.853 37.037 8.02 0.00 0.00 2.57
74 75 9.368416 ACTAGTAATGGCAGACTCTTATGATTA 57.632 33.333 8.02 0.00 0.00 1.75
75 76 9.853555 CTAGTAATGGCAGACTCTTATGATTAG 57.146 37.037 8.02 0.00 0.00 1.73
76 77 7.675062 AGTAATGGCAGACTCTTATGATTAGG 58.325 38.462 0.00 0.00 0.00 2.69
77 78 4.963318 TGGCAGACTCTTATGATTAGGG 57.037 45.455 0.00 0.00 0.00 3.53
78 79 4.556697 TGGCAGACTCTTATGATTAGGGA 58.443 43.478 0.00 0.00 0.00 4.20
79 80 4.968719 TGGCAGACTCTTATGATTAGGGAA 59.031 41.667 0.00 0.00 0.00 3.97
80 81 5.428457 TGGCAGACTCTTATGATTAGGGAAA 59.572 40.000 0.00 0.00 0.00 3.13
81 82 5.760743 GGCAGACTCTTATGATTAGGGAAAC 59.239 44.000 0.00 0.00 0.00 2.78
82 83 5.463724 GCAGACTCTTATGATTAGGGAAACG 59.536 44.000 0.00 0.00 0.00 3.60
83 84 6.574350 CAGACTCTTATGATTAGGGAAACGT 58.426 40.000 0.00 0.00 0.00 3.99
84 85 6.697892 CAGACTCTTATGATTAGGGAAACGTC 59.302 42.308 0.00 0.00 0.00 4.34
85 86 5.915175 ACTCTTATGATTAGGGAAACGTCC 58.085 41.667 0.00 0.00 44.10 4.79
86 87 5.661759 ACTCTTATGATTAGGGAAACGTCCT 59.338 40.000 0.00 0.00 44.28 3.85
87 88 6.837568 ACTCTTATGATTAGGGAAACGTCCTA 59.162 38.462 0.00 0.00 44.28 2.94
88 89 7.343833 ACTCTTATGATTAGGGAAACGTCCTAA 59.656 37.037 14.58 14.58 46.92 2.69
95 96 3.279434 AGGGAAACGTCCTAATCAATGC 58.721 45.455 0.00 0.00 44.28 3.56
96 97 3.054361 AGGGAAACGTCCTAATCAATGCT 60.054 43.478 0.00 0.00 44.28 3.79
97 98 3.694566 GGGAAACGTCCTAATCAATGCTT 59.305 43.478 0.00 0.00 44.28 3.91
98 99 4.201920 GGGAAACGTCCTAATCAATGCTTC 60.202 45.833 0.00 0.00 44.28 3.86
99 100 4.494199 GGAAACGTCCTAATCAATGCTTCG 60.494 45.833 0.00 0.00 41.24 3.79
100 101 2.550978 ACGTCCTAATCAATGCTTCGG 58.449 47.619 0.00 0.00 0.00 4.30
101 102 1.867233 CGTCCTAATCAATGCTTCGGG 59.133 52.381 0.00 0.00 0.00 5.14
102 103 2.741878 CGTCCTAATCAATGCTTCGGGT 60.742 50.000 0.00 0.00 0.00 5.28
103 104 2.872858 GTCCTAATCAATGCTTCGGGTC 59.127 50.000 0.00 0.00 0.00 4.46
104 105 1.867233 CCTAATCAATGCTTCGGGTCG 59.133 52.381 0.00 0.00 0.00 4.79
105 106 2.550978 CTAATCAATGCTTCGGGTCGT 58.449 47.619 0.00 0.00 0.00 4.34
106 107 1.369625 AATCAATGCTTCGGGTCGTC 58.630 50.000 0.00 0.00 0.00 4.20
107 108 0.806102 ATCAATGCTTCGGGTCGTCG 60.806 55.000 0.00 0.00 0.00 5.12
108 109 2.813908 AATGCTTCGGGTCGTCGC 60.814 61.111 0.00 0.00 0.00 5.19
116 117 2.737376 GGGTCGTCGCGCTTCTTT 60.737 61.111 5.56 0.00 0.00 2.52
117 118 2.315386 GGGTCGTCGCGCTTCTTTT 61.315 57.895 5.56 0.00 0.00 2.27
118 119 1.154654 GGTCGTCGCGCTTCTTTTG 60.155 57.895 5.56 0.00 0.00 2.44
119 120 1.563173 GTCGTCGCGCTTCTTTTGT 59.437 52.632 5.56 0.00 0.00 2.83
120 121 0.042448 GTCGTCGCGCTTCTTTTGTT 60.042 50.000 5.56 0.00 0.00 2.83
121 122 0.231279 TCGTCGCGCTTCTTTTGTTC 59.769 50.000 5.56 0.00 0.00 3.18
122 123 1.047542 CGTCGCGCTTCTTTTGTTCG 61.048 55.000 5.56 0.00 0.00 3.95
123 124 0.231279 GTCGCGCTTCTTTTGTTCGA 59.769 50.000 5.56 0.00 0.00 3.71
124 125 0.506932 TCGCGCTTCTTTTGTTCGAG 59.493 50.000 5.56 0.00 0.00 4.04
125 126 0.232303 CGCGCTTCTTTTGTTCGAGT 59.768 50.000 5.56 0.00 0.00 4.18
126 127 1.663494 GCGCTTCTTTTGTTCGAGTG 58.337 50.000 0.00 0.00 0.00 3.51
127 128 1.260561 GCGCTTCTTTTGTTCGAGTGA 59.739 47.619 0.00 0.00 0.00 3.41
128 129 2.286184 GCGCTTCTTTTGTTCGAGTGAA 60.286 45.455 0.00 0.00 0.00 3.18
129 130 3.535860 CGCTTCTTTTGTTCGAGTGAAG 58.464 45.455 0.00 0.00 33.98 3.02
130 131 3.245284 CGCTTCTTTTGTTCGAGTGAAGA 59.755 43.478 0.00 6.82 33.98 2.87
131 132 4.260212 CGCTTCTTTTGTTCGAGTGAAGAA 60.260 41.667 0.00 11.95 35.75 2.52
132 133 5.559035 CGCTTCTTTTGTTCGAGTGAAGAAT 60.559 40.000 12.56 0.00 37.24 2.40
133 134 5.848559 GCTTCTTTTGTTCGAGTGAAGAATC 59.151 40.000 12.56 7.68 37.24 2.52
134 135 6.511767 GCTTCTTTTGTTCGAGTGAAGAATCA 60.512 38.462 12.56 0.00 37.24 2.57
135 136 6.530913 TCTTTTGTTCGAGTGAAGAATCAG 57.469 37.500 0.00 0.00 37.24 2.90
136 137 4.732285 TTTGTTCGAGTGAAGAATCAGC 57.268 40.909 0.00 0.00 37.24 4.26
137 138 2.688507 TGTTCGAGTGAAGAATCAGCC 58.311 47.619 0.00 0.00 35.88 4.85
138 139 1.656095 GTTCGAGTGAAGAATCAGCCG 59.344 52.381 0.00 0.00 35.88 5.52
139 140 1.173913 TCGAGTGAAGAATCAGCCGA 58.826 50.000 0.00 0.00 37.88 5.54
140 141 1.544246 TCGAGTGAAGAATCAGCCGAA 59.456 47.619 0.00 0.00 37.53 4.30
141 142 2.166459 TCGAGTGAAGAATCAGCCGAAT 59.834 45.455 0.00 0.00 37.53 3.34
142 143 2.283617 CGAGTGAAGAATCAGCCGAATG 59.716 50.000 0.00 0.00 35.88 2.67
143 144 2.611292 GAGTGAAGAATCAGCCGAATGG 59.389 50.000 0.00 0.00 35.88 3.16
144 145 2.237143 AGTGAAGAATCAGCCGAATGGA 59.763 45.455 0.00 0.00 35.88 3.41
145 146 3.118112 AGTGAAGAATCAGCCGAATGGAT 60.118 43.478 0.00 0.00 35.88 3.41
146 147 3.629398 GTGAAGAATCAGCCGAATGGATT 59.371 43.478 0.00 0.00 35.88 3.01
147 148 3.879295 TGAAGAATCAGCCGAATGGATTC 59.121 43.478 0.00 0.00 44.49 2.52
148 149 3.565764 AGAATCAGCCGAATGGATTCA 57.434 42.857 13.98 0.00 45.82 2.57
149 150 4.096190 AGAATCAGCCGAATGGATTCAT 57.904 40.909 13.98 0.00 45.82 2.57
150 151 3.819337 AGAATCAGCCGAATGGATTCATG 59.181 43.478 13.98 0.00 45.82 3.07
151 152 2.715749 TCAGCCGAATGGATTCATGT 57.284 45.000 0.00 0.00 37.49 3.21
152 153 3.003394 TCAGCCGAATGGATTCATGTT 57.997 42.857 0.00 0.00 37.49 2.71
153 154 2.945008 TCAGCCGAATGGATTCATGTTC 59.055 45.455 0.00 0.00 37.49 3.18
154 155 2.947652 CAGCCGAATGGATTCATGTTCT 59.052 45.455 0.00 0.00 37.49 3.01
155 156 3.379372 CAGCCGAATGGATTCATGTTCTT 59.621 43.478 0.00 0.00 37.49 2.52
156 157 3.629398 AGCCGAATGGATTCATGTTCTTC 59.371 43.478 0.00 0.00 37.49 2.87
157 158 3.243201 GCCGAATGGATTCATGTTCTTCC 60.243 47.826 0.00 0.00 37.49 3.46
158 159 4.202441 CCGAATGGATTCATGTTCTTCCT 58.798 43.478 0.00 0.00 37.49 3.36
159 160 4.641989 CCGAATGGATTCATGTTCTTCCTT 59.358 41.667 0.00 0.00 37.49 3.36
160 161 5.220931 CCGAATGGATTCATGTTCTTCCTTC 60.221 44.000 0.00 1.90 37.49 3.46
161 162 5.220931 CGAATGGATTCATGTTCTTCCTTCC 60.221 44.000 0.00 0.00 36.61 3.46
162 163 4.656100 TGGATTCATGTTCTTCCTTCCA 57.344 40.909 0.00 0.00 0.00 3.53
163 164 4.996793 TGGATTCATGTTCTTCCTTCCAA 58.003 39.130 0.00 0.00 0.00 3.53
164 165 5.392995 TGGATTCATGTTCTTCCTTCCAAA 58.607 37.500 0.00 0.00 0.00 3.28
165 166 6.018469 TGGATTCATGTTCTTCCTTCCAAAT 58.982 36.000 0.00 0.00 0.00 2.32
166 167 6.071221 TGGATTCATGTTCTTCCTTCCAAATG 60.071 38.462 0.00 0.00 0.00 2.32
167 168 5.726980 TTCATGTTCTTCCTTCCAAATGG 57.273 39.130 0.00 0.00 0.00 3.16
168 169 4.996793 TCATGTTCTTCCTTCCAAATGGA 58.003 39.130 0.00 0.00 43.73 3.41
169 170 5.582953 TCATGTTCTTCCTTCCAAATGGAT 58.417 37.500 2.38 0.00 44.98 3.41
170 171 5.653769 TCATGTTCTTCCTTCCAAATGGATC 59.346 40.000 2.38 0.00 44.98 3.36
171 172 5.261040 TGTTCTTCCTTCCAAATGGATCT 57.739 39.130 2.38 0.00 44.98 2.75
172 173 5.256474 TGTTCTTCCTTCCAAATGGATCTC 58.744 41.667 2.38 0.00 44.98 2.75
173 174 4.510167 TCTTCCTTCCAAATGGATCTCC 57.490 45.455 2.38 0.00 44.98 3.71
174 175 3.118261 TCTTCCTTCCAAATGGATCTCCG 60.118 47.826 2.38 0.00 44.98 4.63
175 176 2.196595 TCCTTCCAAATGGATCTCCGT 58.803 47.619 2.38 0.00 44.98 4.69
176 177 2.576191 TCCTTCCAAATGGATCTCCGTT 59.424 45.455 2.38 0.00 46.66 4.44
182 183 2.128771 AATGGATCTCCGTTTGGGTG 57.871 50.000 0.00 0.00 42.31 4.61
183 184 0.991920 ATGGATCTCCGTTTGGGTGT 59.008 50.000 0.00 0.00 39.43 4.16
184 185 0.323629 TGGATCTCCGTTTGGGTGTC 59.676 55.000 0.00 0.00 39.43 3.67
185 186 0.392595 GGATCTCCGTTTGGGTGTCC 60.393 60.000 0.00 0.00 37.00 4.02
186 187 0.392595 GATCTCCGTTTGGGTGTCCC 60.393 60.000 0.00 0.00 45.71 4.46
195 196 3.391382 GGGTGTCCCCCGAGTGAG 61.391 72.222 0.00 0.00 45.80 3.51
196 197 2.603776 GGTGTCCCCCGAGTGAGT 60.604 66.667 0.00 0.00 0.00 3.41
197 198 1.304713 GGTGTCCCCCGAGTGAGTA 60.305 63.158 0.00 0.00 0.00 2.59
198 199 0.901580 GGTGTCCCCCGAGTGAGTAA 60.902 60.000 0.00 0.00 0.00 2.24
199 200 0.531200 GTGTCCCCCGAGTGAGTAAG 59.469 60.000 0.00 0.00 0.00 2.34
200 201 1.255667 TGTCCCCCGAGTGAGTAAGC 61.256 60.000 0.00 0.00 0.00 3.09
201 202 1.684734 TCCCCCGAGTGAGTAAGCC 60.685 63.158 0.00 0.00 0.00 4.35
202 203 1.686110 CCCCCGAGTGAGTAAGCCT 60.686 63.158 0.00 0.00 0.00 4.58
203 204 1.677637 CCCCCGAGTGAGTAAGCCTC 61.678 65.000 0.00 0.00 40.89 4.70
204 205 1.677637 CCCCGAGTGAGTAAGCCTCC 61.678 65.000 0.00 0.00 39.65 4.30
205 206 0.970937 CCCGAGTGAGTAAGCCTCCA 60.971 60.000 0.00 0.00 39.65 3.86
209 210 3.322254 CCGAGTGAGTAAGCCTCCATTAT 59.678 47.826 0.00 0.00 39.65 1.28
243 244 2.369203 TCCGTTACTTGGTGAATGTGGA 59.631 45.455 0.00 0.00 0.00 4.02
251 252 1.380302 GTGAATGTGGACCTGGGCT 59.620 57.895 0.00 0.00 0.00 5.19
277 278 2.350057 GGCTTTCCCTAGGTCCATTC 57.650 55.000 8.29 0.00 0.00 2.67
278 279 1.564348 GGCTTTCCCTAGGTCCATTCA 59.436 52.381 8.29 0.00 0.00 2.57
279 280 2.175715 GGCTTTCCCTAGGTCCATTCAT 59.824 50.000 8.29 0.00 0.00 2.57
280 281 3.373110 GGCTTTCCCTAGGTCCATTCATT 60.373 47.826 8.29 0.00 0.00 2.57
281 282 3.633986 GCTTTCCCTAGGTCCATTCATTG 59.366 47.826 8.29 0.00 0.00 2.82
282 283 4.860022 CTTTCCCTAGGTCCATTCATTGT 58.140 43.478 8.29 0.00 0.00 2.71
283 284 3.931907 TCCCTAGGTCCATTCATTGTG 57.068 47.619 8.29 0.00 0.00 3.33
284 285 3.459828 TCCCTAGGTCCATTCATTGTGA 58.540 45.455 8.29 0.00 0.00 3.58
285 286 3.455910 TCCCTAGGTCCATTCATTGTGAG 59.544 47.826 8.29 0.00 0.00 3.51
286 287 3.209410 CCTAGGTCCATTCATTGTGAGC 58.791 50.000 0.00 0.00 0.00 4.26
287 288 2.134789 AGGTCCATTCATTGTGAGCC 57.865 50.000 0.00 0.00 0.00 4.70
288 289 1.106285 GGTCCATTCATTGTGAGCCC 58.894 55.000 0.00 0.00 0.00 5.19
289 290 1.106285 GTCCATTCATTGTGAGCCCC 58.894 55.000 0.00 0.00 0.00 5.80
290 291 0.033208 TCCATTCATTGTGAGCCCCC 60.033 55.000 0.00 0.00 0.00 5.40
323 324 1.306997 GACCTCATCACCCTCCCCA 60.307 63.158 0.00 0.00 0.00 4.96
345 346 1.167851 CACATGCAAACCCTGATCGT 58.832 50.000 0.00 0.00 0.00 3.73
357 358 0.743688 CTGATCGTGCTAGAGCCAGT 59.256 55.000 0.00 0.00 41.18 4.00
423 424 0.965866 CAGCCCGGAGACTCTACACA 60.966 60.000 0.73 0.00 0.00 3.72
487 488 0.643820 GTACGTCAGTATTGGCACGC 59.356 55.000 0.00 0.00 35.64 5.34
515 516 2.364324 AGCGACCAAAGTCAGAAGTGTA 59.636 45.455 0.00 0.00 43.73 2.90
522 523 5.249393 ACCAAAGTCAGAAGTGTAGGATGAT 59.751 40.000 0.00 0.00 0.00 2.45
631 632 1.296392 CCATCACCACCGAAGCAGA 59.704 57.895 0.00 0.00 0.00 4.26
673 674 0.911769 ATCGGATGGACAGCCTTTCA 59.088 50.000 4.97 0.00 33.99 2.69
830 1157 0.727398 GATTGTAGGTGCACCGAAGC 59.273 55.000 29.68 21.27 42.08 3.86
873 1202 0.632294 AGGTAGGTGGGTCTCTCTCC 59.368 60.000 0.00 0.00 0.00 3.71
952 1281 0.389556 CGAGGAGATGATGGATGCGG 60.390 60.000 0.00 0.00 0.00 5.69
1008 1337 1.134610 ACGGCCACGGGTCTATAAAAG 60.135 52.381 2.24 0.00 46.48 2.27
1102 1439 1.936547 CCAAATTCAGTCCTAGCGAGC 59.063 52.381 0.00 0.00 0.00 5.03
1337 1686 4.815108 GACCATTCCCCCGCCCAC 62.815 72.222 0.00 0.00 0.00 4.61
1643 2001 0.687354 TGAGGAAGCTGGAGAACACC 59.313 55.000 0.00 0.00 0.00 4.16
1883 2241 2.661566 GATGATGATCGGCGCCGTG 61.662 63.158 44.16 22.01 40.74 4.94
1947 2305 1.573108 GATGGAGGACAAGGAGGTGA 58.427 55.000 0.00 0.00 0.00 4.02
1995 2353 0.670854 GGAGAAGAACCTGGACGTGC 60.671 60.000 0.00 0.00 0.00 5.34
2280 2640 3.181451 GCCTGGTTGTCCATATGAGATCA 60.181 47.826 3.65 0.00 43.43 2.92
2342 2702 6.087555 GCATTTAGTGTATGTGTTGTTTTCGG 59.912 38.462 0.00 0.00 0.00 4.30
2403 2763 6.000840 TGTGTGCATCCTTGTACTTTTATCA 58.999 36.000 0.00 0.00 39.03 2.15
2404 2764 6.488344 TGTGTGCATCCTTGTACTTTTATCAA 59.512 34.615 0.00 0.00 39.03 2.57
2405 2765 7.176515 TGTGTGCATCCTTGTACTTTTATCAAT 59.823 33.333 0.00 0.00 39.03 2.57
2406 2766 7.698130 GTGTGCATCCTTGTACTTTTATCAATC 59.302 37.037 0.00 0.00 39.03 2.67
2438 2799 9.877178 AATAAACAACAAATGTACAACCAGAAA 57.123 25.926 0.00 0.00 42.99 2.52
2581 3090 4.074259 CGGATCCTCCAATTAATGCATCA 58.926 43.478 10.75 0.00 35.91 3.07
2599 3108 4.527816 GCATCATGGCATAAAAGGGGAATA 59.472 41.667 0.00 0.00 0.00 1.75
2600 3109 5.567423 GCATCATGGCATAAAAGGGGAATAC 60.567 44.000 0.00 0.00 0.00 1.89
2601 3110 5.402054 TCATGGCATAAAAGGGGAATACT 57.598 39.130 0.00 0.00 0.00 2.12
2619 3128 7.387948 GGGAATACTACTAATGCACATTACTGG 59.612 40.741 0.00 0.00 32.50 4.00
2623 3132 7.611213 ACTACTAATGCACATTACTGGTTTC 57.389 36.000 0.00 0.00 32.50 2.78
2682 3193 9.213777 AGGAGATCACATTAATTAACTCCACTA 57.786 33.333 22.55 1.43 43.23 2.74
2771 3283 5.635700 TGTGTGTGCCTTAAAAGTTTCAAAC 59.364 36.000 0.00 0.00 0.00 2.93
2835 3347 4.455533 TGTCGATGGATTCTCTGTTTTTGG 59.544 41.667 0.00 0.00 0.00 3.28
2879 3391 7.701078 TCAATTGAAAACAAATGCAATGGTTTG 59.299 29.630 19.85 14.44 37.79 2.93
2887 3399 5.503498 CAAATGCAATGGTTTGAAGTTGTG 58.497 37.500 4.80 0.00 40.18 3.33
2901 3413 9.730420 GTTTGAAGTTGTGTGTAGAATTACATT 57.270 29.630 0.00 0.00 41.56 2.71
2912 3424 8.720562 TGTGTAGAATTACATTCACATGTCAAG 58.279 33.333 0.00 0.00 43.06 3.02
2976 3488 6.793505 AGTTAAAGTATGTACTCAGGGAGG 57.206 41.667 0.00 0.00 34.99 4.30
2977 3489 6.500336 AGTTAAAGTATGTACTCAGGGAGGA 58.500 40.000 0.00 0.00 34.99 3.71
2980 3492 5.728937 AAGTATGTACTCAGGGAGGAGTA 57.271 43.478 0.00 0.00 45.95 2.59
3079 3598 9.997482 TTAATCGATGCCTTAACAAATAGAAAC 57.003 29.630 0.00 0.00 0.00 2.78
3290 3815 7.761704 CGACCATGGATCTCTACTATTAAATGG 59.238 40.741 21.47 0.00 37.46 3.16
3291 3816 8.742125 ACCATGGATCTCTACTATTAAATGGA 57.258 34.615 21.47 0.00 35.79 3.41
3330 3855 0.739813 CGCCTCCAAGGTTTACTCCG 60.740 60.000 0.00 0.00 37.80 4.63
3363 3888 2.224428 TTTTTGCCGTCGTACGTCC 58.776 52.632 16.05 6.40 40.58 4.79
3370 3895 3.434319 GTCGTACGTCCCCGCTGA 61.434 66.667 16.05 0.00 37.70 4.26
3372 3897 3.437795 CGTACGTCCCCGCTGACT 61.438 66.667 7.22 0.00 37.70 3.41
3374 3899 3.755628 TACGTCCCCGCTGACTGC 61.756 66.667 0.00 0.00 37.70 4.40
3394 3919 0.948678 TTTTTCTTTCCTCCCGCGTG 59.051 50.000 4.92 0.00 0.00 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.071747 TGGTGGGCGACATAATTGCTATA 59.928 43.478 1.14 0.00 37.90 1.31
1 2 2.158682 TGGTGGGCGACATAATTGCTAT 60.159 45.455 1.14 0.00 37.90 2.97
2 3 1.210722 TGGTGGGCGACATAATTGCTA 59.789 47.619 1.14 0.00 37.90 3.49
3 4 0.034574 TGGTGGGCGACATAATTGCT 60.035 50.000 1.14 0.00 37.90 3.91
4 5 1.001378 GATGGTGGGCGACATAATTGC 60.001 52.381 1.14 0.00 36.91 3.56
5 6 2.575532 AGATGGTGGGCGACATAATTG 58.424 47.619 1.14 0.00 0.00 2.32
6 7 3.391296 AGTAGATGGTGGGCGACATAATT 59.609 43.478 1.14 0.00 0.00 1.40
7 8 2.972713 AGTAGATGGTGGGCGACATAAT 59.027 45.455 1.14 0.00 0.00 1.28
8 9 2.102420 CAGTAGATGGTGGGCGACATAA 59.898 50.000 1.14 0.00 0.00 1.90
9 10 1.686587 CAGTAGATGGTGGGCGACATA 59.313 52.381 1.14 0.00 0.00 2.29
10 11 0.465705 CAGTAGATGGTGGGCGACAT 59.534 55.000 1.14 0.00 0.00 3.06
11 12 1.897423 CAGTAGATGGTGGGCGACA 59.103 57.895 1.14 0.00 0.00 4.35
12 13 1.521681 GCAGTAGATGGTGGGCGAC 60.522 63.158 0.00 0.00 0.00 5.19
13 14 1.549243 TTGCAGTAGATGGTGGGCGA 61.549 55.000 0.00 0.00 0.00 5.54
14 15 1.078497 TTGCAGTAGATGGTGGGCG 60.078 57.895 0.00 0.00 0.00 6.13
15 16 1.369091 CGTTGCAGTAGATGGTGGGC 61.369 60.000 0.00 0.00 0.00 5.36
16 17 0.744414 CCGTTGCAGTAGATGGTGGG 60.744 60.000 0.00 0.00 0.00 4.61
17 18 0.744414 CCCGTTGCAGTAGATGGTGG 60.744 60.000 0.00 0.00 0.00 4.61
18 19 1.369091 GCCCGTTGCAGTAGATGGTG 61.369 60.000 0.00 0.00 40.77 4.17
19 20 1.078426 GCCCGTTGCAGTAGATGGT 60.078 57.895 0.00 0.00 40.77 3.55
20 21 3.813596 GCCCGTTGCAGTAGATGG 58.186 61.111 0.00 0.00 40.77 3.51
29 30 0.958382 TGTATCAAGGTGCCCGTTGC 60.958 55.000 0.00 0.00 36.60 4.17
30 31 0.802494 GTGTATCAAGGTGCCCGTTG 59.198 55.000 0.00 0.00 37.71 4.10
31 32 0.690762 AGTGTATCAAGGTGCCCGTT 59.309 50.000 0.00 0.00 0.00 4.44
32 33 1.480954 CTAGTGTATCAAGGTGCCCGT 59.519 52.381 0.00 0.00 0.00 5.28
33 34 1.480954 ACTAGTGTATCAAGGTGCCCG 59.519 52.381 0.00 0.00 0.00 6.13
34 35 4.748277 TTACTAGTGTATCAAGGTGCCC 57.252 45.455 5.39 0.00 0.00 5.36
35 36 5.057149 CCATTACTAGTGTATCAAGGTGCC 58.943 45.833 5.39 0.00 0.00 5.01
36 37 4.511826 GCCATTACTAGTGTATCAAGGTGC 59.488 45.833 5.39 0.00 0.00 5.01
37 38 5.670485 TGCCATTACTAGTGTATCAAGGTG 58.330 41.667 5.39 0.00 0.00 4.00
38 39 5.661312 TCTGCCATTACTAGTGTATCAAGGT 59.339 40.000 5.39 0.00 0.00 3.50
39 40 5.986135 GTCTGCCATTACTAGTGTATCAAGG 59.014 44.000 5.39 0.00 0.00 3.61
40 41 6.810911 AGTCTGCCATTACTAGTGTATCAAG 58.189 40.000 5.39 0.00 0.00 3.02
41 42 6.607600 AGAGTCTGCCATTACTAGTGTATCAA 59.392 38.462 5.39 0.00 0.00 2.57
42 43 6.129874 AGAGTCTGCCATTACTAGTGTATCA 58.870 40.000 5.39 0.00 0.00 2.15
43 44 6.642707 AGAGTCTGCCATTACTAGTGTATC 57.357 41.667 5.39 0.00 0.00 2.24
44 45 8.580720 CATAAGAGTCTGCCATTACTAGTGTAT 58.419 37.037 5.39 0.00 0.00 2.29
45 46 7.778382 TCATAAGAGTCTGCCATTACTAGTGTA 59.222 37.037 5.39 0.00 0.00 2.90
46 47 6.607600 TCATAAGAGTCTGCCATTACTAGTGT 59.392 38.462 5.39 0.00 0.00 3.55
47 48 7.043961 TCATAAGAGTCTGCCATTACTAGTG 57.956 40.000 5.39 0.00 0.00 2.74
48 49 7.847711 ATCATAAGAGTCTGCCATTACTAGT 57.152 36.000 0.00 0.00 0.00 2.57
49 50 9.853555 CTAATCATAAGAGTCTGCCATTACTAG 57.146 37.037 0.00 0.00 0.00 2.57
50 51 8.807118 CCTAATCATAAGAGTCTGCCATTACTA 58.193 37.037 0.00 0.00 0.00 1.82
51 52 7.256475 CCCTAATCATAAGAGTCTGCCATTACT 60.256 40.741 0.00 0.00 0.00 2.24
52 53 6.876257 CCCTAATCATAAGAGTCTGCCATTAC 59.124 42.308 0.00 0.00 0.00 1.89
53 54 6.787458 TCCCTAATCATAAGAGTCTGCCATTA 59.213 38.462 0.00 0.00 0.00 1.90
54 55 5.608437 TCCCTAATCATAAGAGTCTGCCATT 59.392 40.000 0.00 0.00 0.00 3.16
55 56 5.158141 TCCCTAATCATAAGAGTCTGCCAT 58.842 41.667 0.00 0.00 0.00 4.40
56 57 4.556697 TCCCTAATCATAAGAGTCTGCCA 58.443 43.478 0.00 0.00 0.00 4.92
57 58 5.552870 TTCCCTAATCATAAGAGTCTGCC 57.447 43.478 0.00 0.00 0.00 4.85
58 59 5.463724 CGTTTCCCTAATCATAAGAGTCTGC 59.536 44.000 0.00 0.00 0.00 4.26
59 60 6.574350 ACGTTTCCCTAATCATAAGAGTCTG 58.426 40.000 0.00 0.00 0.00 3.51
60 61 6.183360 GGACGTTTCCCTAATCATAAGAGTCT 60.183 42.308 0.00 0.00 35.57 3.24
61 62 5.984323 GGACGTTTCCCTAATCATAAGAGTC 59.016 44.000 0.00 0.00 35.57 3.36
62 63 5.661759 AGGACGTTTCCCTAATCATAAGAGT 59.338 40.000 0.00 0.00 44.10 3.24
63 64 6.163135 AGGACGTTTCCCTAATCATAAGAG 57.837 41.667 0.00 0.00 44.10 2.85
64 65 7.664552 TTAGGACGTTTCCCTAATCATAAGA 57.335 36.000 9.55 0.00 44.10 2.10
72 73 4.879545 GCATTGATTAGGACGTTTCCCTAA 59.120 41.667 14.58 14.58 46.68 2.69
73 74 4.163458 AGCATTGATTAGGACGTTTCCCTA 59.837 41.667 0.00 0.00 44.10 3.53
74 75 3.054361 AGCATTGATTAGGACGTTTCCCT 60.054 43.478 0.00 0.00 44.10 4.20
75 76 3.279434 AGCATTGATTAGGACGTTTCCC 58.721 45.455 0.00 0.00 44.10 3.97
76 77 4.494199 CGAAGCATTGATTAGGACGTTTCC 60.494 45.833 0.00 0.00 43.22 3.13
77 78 4.494199 CCGAAGCATTGATTAGGACGTTTC 60.494 45.833 7.94 0.00 0.00 2.78
78 79 3.374058 CCGAAGCATTGATTAGGACGTTT 59.626 43.478 7.94 0.00 0.00 3.60
79 80 2.936498 CCGAAGCATTGATTAGGACGTT 59.064 45.455 7.94 0.00 0.00 3.99
80 81 2.550978 CCGAAGCATTGATTAGGACGT 58.449 47.619 7.94 0.00 0.00 4.34
81 82 1.867233 CCCGAAGCATTGATTAGGACG 59.133 52.381 14.41 1.44 0.00 4.79
82 83 2.872858 GACCCGAAGCATTGATTAGGAC 59.127 50.000 14.41 5.56 0.00 3.85
83 84 2.483013 CGACCCGAAGCATTGATTAGGA 60.483 50.000 14.41 0.00 0.00 2.94
84 85 1.867233 CGACCCGAAGCATTGATTAGG 59.133 52.381 6.80 6.80 0.00 2.69
85 86 2.540101 GACGACCCGAAGCATTGATTAG 59.460 50.000 0.00 0.00 0.00 1.73
86 87 2.546778 GACGACCCGAAGCATTGATTA 58.453 47.619 0.00 0.00 0.00 1.75
87 88 1.369625 GACGACCCGAAGCATTGATT 58.630 50.000 0.00 0.00 0.00 2.57
88 89 0.806102 CGACGACCCGAAGCATTGAT 60.806 55.000 0.00 0.00 0.00 2.57
89 90 1.445410 CGACGACCCGAAGCATTGA 60.445 57.895 0.00 0.00 0.00 2.57
90 91 3.081133 CGACGACCCGAAGCATTG 58.919 61.111 0.00 0.00 0.00 2.82
91 92 2.813908 GCGACGACCCGAAGCATT 60.814 61.111 0.00 0.00 34.54 3.56
99 100 2.315386 AAAAGAAGCGCGACGACCC 61.315 57.895 12.10 0.00 0.00 4.46
100 101 1.154654 CAAAAGAAGCGCGACGACC 60.155 57.895 12.10 0.00 0.00 4.79
101 102 0.042448 AACAAAAGAAGCGCGACGAC 60.042 50.000 12.10 0.00 0.00 4.34
102 103 0.231279 GAACAAAAGAAGCGCGACGA 59.769 50.000 12.10 0.00 0.00 4.20
103 104 1.047542 CGAACAAAAGAAGCGCGACG 61.048 55.000 12.10 0.00 0.00 5.12
104 105 0.231279 TCGAACAAAAGAAGCGCGAC 59.769 50.000 12.10 0.04 0.00 5.19
105 106 0.506932 CTCGAACAAAAGAAGCGCGA 59.493 50.000 12.10 0.00 0.00 5.87
106 107 0.232303 ACTCGAACAAAAGAAGCGCG 59.768 50.000 0.00 0.00 0.00 6.86
107 108 1.260561 TCACTCGAACAAAAGAAGCGC 59.739 47.619 0.00 0.00 0.00 5.92
108 109 3.245284 TCTTCACTCGAACAAAAGAAGCG 59.755 43.478 0.00 0.00 34.14 4.68
109 110 4.795970 TCTTCACTCGAACAAAAGAAGC 57.204 40.909 0.00 0.00 34.14 3.86
110 111 6.948353 TGATTCTTCACTCGAACAAAAGAAG 58.052 36.000 13.76 0.00 38.81 2.85
111 112 6.511767 GCTGATTCTTCACTCGAACAAAAGAA 60.512 38.462 11.83 11.83 39.50 2.52
112 113 5.050091 GCTGATTCTTCACTCGAACAAAAGA 60.050 40.000 0.00 0.00 0.00 2.52
113 114 5.142962 GCTGATTCTTCACTCGAACAAAAG 58.857 41.667 0.00 0.00 0.00 2.27
114 115 4.024048 GGCTGATTCTTCACTCGAACAAAA 60.024 41.667 0.00 0.00 0.00 2.44
115 116 3.498397 GGCTGATTCTTCACTCGAACAAA 59.502 43.478 0.00 0.00 0.00 2.83
116 117 3.067106 GGCTGATTCTTCACTCGAACAA 58.933 45.455 0.00 0.00 0.00 2.83
117 118 2.688507 GGCTGATTCTTCACTCGAACA 58.311 47.619 0.00 0.00 0.00 3.18
118 119 1.656095 CGGCTGATTCTTCACTCGAAC 59.344 52.381 0.00 0.00 0.00 3.95
119 120 1.544246 TCGGCTGATTCTTCACTCGAA 59.456 47.619 0.00 0.00 32.06 3.71
120 121 1.173913 TCGGCTGATTCTTCACTCGA 58.826 50.000 0.00 0.00 32.35 4.04
121 122 1.996292 TTCGGCTGATTCTTCACTCG 58.004 50.000 0.00 0.00 0.00 4.18
122 123 2.611292 CCATTCGGCTGATTCTTCACTC 59.389 50.000 0.00 0.00 0.00 3.51
123 124 2.237143 TCCATTCGGCTGATTCTTCACT 59.763 45.455 0.00 0.00 0.00 3.41
124 125 2.632377 TCCATTCGGCTGATTCTTCAC 58.368 47.619 0.00 0.00 0.00 3.18
125 126 3.565764 ATCCATTCGGCTGATTCTTCA 57.434 42.857 0.00 0.00 0.00 3.02
126 127 3.879295 TGAATCCATTCGGCTGATTCTTC 59.121 43.478 0.00 0.00 42.98 2.87
127 128 3.889815 TGAATCCATTCGGCTGATTCTT 58.110 40.909 0.00 0.00 42.98 2.52
128 129 3.565764 TGAATCCATTCGGCTGATTCT 57.434 42.857 0.00 0.00 42.98 2.40
129 130 3.567164 ACATGAATCCATTCGGCTGATTC 59.433 43.478 0.00 0.00 42.90 2.52
130 131 3.559069 ACATGAATCCATTCGGCTGATT 58.441 40.909 0.00 0.00 39.62 2.57
131 132 3.219176 ACATGAATCCATTCGGCTGAT 57.781 42.857 0.00 0.00 39.62 2.90
132 133 2.715749 ACATGAATCCATTCGGCTGA 57.284 45.000 0.00 0.00 39.62 4.26
133 134 2.947652 AGAACATGAATCCATTCGGCTG 59.052 45.455 0.00 0.00 39.62 4.85
134 135 3.287867 AGAACATGAATCCATTCGGCT 57.712 42.857 0.00 0.00 39.62 5.52
135 136 3.243201 GGAAGAACATGAATCCATTCGGC 60.243 47.826 0.00 0.00 39.62 5.54
136 137 4.202441 AGGAAGAACATGAATCCATTCGG 58.798 43.478 0.00 0.00 39.62 4.30
137 138 5.220931 GGAAGGAAGAACATGAATCCATTCG 60.221 44.000 0.00 0.00 39.62 3.34
138 139 5.653769 TGGAAGGAAGAACATGAATCCATTC 59.346 40.000 0.00 6.98 37.31 2.67
139 140 5.582953 TGGAAGGAAGAACATGAATCCATT 58.417 37.500 0.00 0.00 34.30 3.16
140 141 5.197224 TGGAAGGAAGAACATGAATCCAT 57.803 39.130 0.00 0.00 34.30 3.41
141 142 4.656100 TGGAAGGAAGAACATGAATCCA 57.344 40.909 0.00 0.00 34.30 3.41
142 143 5.982890 TTTGGAAGGAAGAACATGAATCC 57.017 39.130 0.00 1.11 0.00 3.01
143 144 6.153340 TCCATTTGGAAGGAAGAACATGAATC 59.847 38.462 0.00 0.00 42.18 2.52
144 145 6.018469 TCCATTTGGAAGGAAGAACATGAAT 58.982 36.000 0.00 0.00 42.18 2.57
145 146 5.392995 TCCATTTGGAAGGAAGAACATGAA 58.607 37.500 0.00 0.00 42.18 2.57
146 147 4.996793 TCCATTTGGAAGGAAGAACATGA 58.003 39.130 0.00 0.00 42.18 3.07
161 162 2.164219 CACCCAAACGGAGATCCATTTG 59.836 50.000 12.34 12.34 45.69 2.32
162 163 2.225017 ACACCCAAACGGAGATCCATTT 60.225 45.455 0.00 0.00 30.64 2.32
163 164 1.354368 ACACCCAAACGGAGATCCATT 59.646 47.619 0.00 0.00 35.14 3.16
164 165 0.991920 ACACCCAAACGGAGATCCAT 59.008 50.000 0.00 0.00 35.14 3.41
165 166 0.323629 GACACCCAAACGGAGATCCA 59.676 55.000 0.00 0.00 35.14 3.41
166 167 0.392595 GGACACCCAAACGGAGATCC 60.393 60.000 0.00 0.00 34.64 3.36
167 168 0.392595 GGGACACCCAAACGGAGATC 60.393 60.000 1.54 0.00 44.65 2.75
168 169 1.683441 GGGACACCCAAACGGAGAT 59.317 57.895 1.54 0.00 44.65 2.75
169 170 3.153825 GGGACACCCAAACGGAGA 58.846 61.111 1.54 0.00 44.65 3.71
179 180 0.901580 TTACTCACTCGGGGGACACC 60.902 60.000 0.00 0.00 39.11 4.16
180 181 0.531200 CTTACTCACTCGGGGGACAC 59.469 60.000 0.00 0.00 0.00 3.67
181 182 1.255667 GCTTACTCACTCGGGGGACA 61.256 60.000 0.00 0.00 0.00 4.02
182 183 1.516423 GCTTACTCACTCGGGGGAC 59.484 63.158 0.00 0.00 0.00 4.46
183 184 1.684734 GGCTTACTCACTCGGGGGA 60.685 63.158 0.00 0.00 0.00 4.81
184 185 1.677637 GAGGCTTACTCACTCGGGGG 61.678 65.000 0.00 0.00 45.85 5.40
185 186 1.817209 GAGGCTTACTCACTCGGGG 59.183 63.158 0.00 0.00 45.85 5.73
193 194 4.781934 ACCAACATAATGGAGGCTTACTC 58.218 43.478 0.00 0.00 43.54 2.59
194 195 4.227300 TGACCAACATAATGGAGGCTTACT 59.773 41.667 0.00 0.00 43.54 2.24
195 196 4.523083 TGACCAACATAATGGAGGCTTAC 58.477 43.478 0.00 0.00 43.54 2.34
196 197 4.853468 TGACCAACATAATGGAGGCTTA 57.147 40.909 0.00 0.00 43.54 3.09
197 198 3.737559 TGACCAACATAATGGAGGCTT 57.262 42.857 0.00 0.00 43.54 4.35
198 199 3.245229 TGTTGACCAACATAATGGAGGCT 60.245 43.478 11.15 0.00 45.42 4.58
199 200 3.088532 TGTTGACCAACATAATGGAGGC 58.911 45.455 11.15 0.00 45.42 4.70
268 269 1.341383 GGGCTCACAATGAATGGACCT 60.341 52.381 0.00 0.00 0.00 3.85
290 291 1.757340 GGTCGTCTCCTACTGGGGG 60.757 68.421 0.00 0.00 36.75 5.40
291 292 0.752376 GAGGTCGTCTCCTACTGGGG 60.752 65.000 0.00 0.00 38.02 4.96
292 293 0.034380 TGAGGTCGTCTCCTACTGGG 60.034 60.000 6.19 0.00 41.76 4.45
293 294 1.950909 GATGAGGTCGTCTCCTACTGG 59.049 57.143 6.19 0.00 41.76 4.00
323 324 2.424601 CGATCAGGGTTTGCATGTGAAT 59.575 45.455 0.00 0.00 0.00 2.57
345 346 1.115467 GCTCCTTACTGGCTCTAGCA 58.885 55.000 4.07 0.00 44.36 3.49
357 358 1.007479 TCCTACCTTTCCCGCTCCTTA 59.993 52.381 0.00 0.00 0.00 2.69
423 424 4.459852 CTATCCTTGGATTTGGATGGGT 57.540 45.455 7.52 0.00 42.46 4.51
478 479 2.749044 CTGCTGGAGCGTGCCAAT 60.749 61.111 0.24 0.00 45.83 3.16
487 488 1.294659 GACTTTGGTCGCTGCTGGAG 61.295 60.000 0.00 0.00 32.47 3.86
515 516 3.434739 GGAGATGGAGTTTGCATCATCCT 60.435 47.826 12.13 0.00 46.03 3.24
522 523 4.033009 TGATCTAGGAGATGGAGTTTGCA 58.967 43.478 0.00 0.00 34.53 4.08
573 574 1.401905 GAAAGGTTGTCCATCCGATGC 59.598 52.381 2.53 0.00 35.89 3.91
631 632 3.090532 GGTCCCCAAGATCCGCCT 61.091 66.667 0.00 0.00 0.00 5.52
673 674 7.433680 AGTAAAAATTCTTTTGCAACGAGGAT 58.566 30.769 0.00 0.00 39.00 3.24
952 1281 4.144703 GGGCCCGACTCGAACTCC 62.145 72.222 5.69 0.00 0.00 3.85
1024 1353 4.278513 TTGGTTGGGGTCTGGGCG 62.279 66.667 0.00 0.00 0.00 6.13
1102 1439 3.570638 CCATTGCTGCCGCTCTCG 61.571 66.667 0.70 0.00 36.97 4.04
1625 1983 0.687354 TGGTGTTCTCCAGCTTCCTC 59.313 55.000 0.00 0.00 42.19 3.71
1968 2326 1.066286 CAGGTTCTTCTCCAGCCTCTG 60.066 57.143 0.00 0.00 0.00 3.35
1969 2327 1.274712 CAGGTTCTTCTCCAGCCTCT 58.725 55.000 0.00 0.00 0.00 3.69
2280 2640 5.116882 CAATAACGCTAAGGCCTAGAGTTT 58.883 41.667 24.73 16.59 45.22 2.66
2342 2702 7.751768 ATAAGCAATCCAAATAGAAGGCTAC 57.248 36.000 0.00 0.00 31.39 3.58
2581 3090 6.530601 AGTAGTATTCCCCTTTTATGCCAT 57.469 37.500 0.00 0.00 0.00 4.40
2599 3108 6.598064 GGAAACCAGTAATGTGCATTAGTAGT 59.402 38.462 10.78 8.03 35.72 2.73
2600 3109 7.016361 GGAAACCAGTAATGTGCATTAGTAG 57.984 40.000 10.78 7.51 35.72 2.57
2601 3110 6.995511 GGAAACCAGTAATGTGCATTAGTA 57.004 37.500 10.78 0.00 35.72 1.82
2780 3292 8.684386 TGTTCCACATACAAAATTAACTCAGA 57.316 30.769 0.00 0.00 0.00 3.27
2782 3294 9.522804 GTTTGTTCCACATACAAAATTAACTCA 57.477 29.630 0.00 0.00 44.42 3.41
2835 3347 6.750039 TCAATTGAACTTCCGTTTCTTCAAAC 59.250 34.615 5.45 0.00 36.48 2.93
2854 3366 7.701078 TCAAACCATTGCATTTGTTTTCAATTG 59.299 29.630 9.65 0.00 41.35 2.32
2855 3367 7.769220 TCAAACCATTGCATTTGTTTTCAATT 58.231 26.923 9.65 0.00 36.76 2.32
2965 3477 5.435707 AGAATTAGGTACTCCTCCCTGAGTA 59.564 44.000 0.00 0.00 43.65 2.59
2966 3478 4.233287 AGAATTAGGTACTCCTCCCTGAGT 59.767 45.833 0.00 0.00 46.90 3.41
2967 3479 4.586841 CAGAATTAGGTACTCCTCCCTGAG 59.413 50.000 0.00 0.00 43.94 3.35
2968 3480 4.232122 TCAGAATTAGGTACTCCTCCCTGA 59.768 45.833 0.00 0.00 43.94 3.86
2969 3481 4.547671 TCAGAATTAGGTACTCCTCCCTG 58.452 47.826 0.00 0.00 43.94 4.45
2970 3482 4.901785 TCAGAATTAGGTACTCCTCCCT 57.098 45.455 0.00 0.00 43.94 4.20
2971 3483 5.685337 GCTTTCAGAATTAGGTACTCCTCCC 60.685 48.000 0.00 0.00 43.94 4.30
2972 3484 5.129650 AGCTTTCAGAATTAGGTACTCCTCC 59.870 44.000 0.00 0.00 43.94 4.30
2973 3485 6.228616 AGCTTTCAGAATTAGGTACTCCTC 57.771 41.667 0.00 0.00 43.94 3.71
2975 3487 7.689446 AAAAGCTTTCAGAATTAGGTACTCC 57.311 36.000 13.10 0.00 41.75 3.85
3290 3815 1.804748 AGGAAGCGAACGACCAATTTC 59.195 47.619 0.00 0.00 0.00 2.17
3291 3816 1.804748 GAGGAAGCGAACGACCAATTT 59.195 47.619 0.00 0.00 0.00 1.82
3298 3823 3.338126 GAGGCGAGGAAGCGAACGA 62.338 63.158 0.00 0.00 38.18 3.85
3366 3891 3.304996 GGAGGAAAGAAAAAGCAGTCAGC 60.305 47.826 0.00 0.00 46.19 4.26
3367 3892 3.254411 GGGAGGAAAGAAAAAGCAGTCAG 59.746 47.826 0.00 0.00 0.00 3.51
3370 3895 2.230660 CGGGAGGAAAGAAAAAGCAGT 58.769 47.619 0.00 0.00 0.00 4.40
3372 3897 0.958822 GCGGGAGGAAAGAAAAAGCA 59.041 50.000 0.00 0.00 0.00 3.91
3374 3899 1.069227 CACGCGGGAGGAAAGAAAAAG 60.069 52.381 12.47 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.