Multiple sequence alignment - TraesCS4B01G258600

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4B01G258600 chr4B 100.000 2459 0 0 1 2459 525254543 525252085 0.000000e+00 4542
1 TraesCS4B01G258600 chr4B 97.387 2181 55 2 201 2379 525388029 525385849 0.000000e+00 3711
2 TraesCS4B01G258600 chr4B 96.495 856 29 1 1522 2376 525322757 525323612 0.000000e+00 1413
3 TraesCS4B01G258600 chr4B 95.911 587 22 2 1794 2379 525546914 525546329 0.000000e+00 950
4 TraesCS4B01G258600 chr4B 94.208 587 33 1 1794 2379 525456547 525455961 0.000000e+00 894
5 TraesCS4B01G258600 chr4B 94.554 202 11 0 1 202 525265360 525265159 1.840000e-81 313
6 TraesCS4B01G258600 chr4B 97.531 81 2 0 2379 2459 329618782 329618702 3.300000e-29 139
7 TraesCS4B01G258600 chr4B 96.386 83 3 0 2377 2459 329512878 329512796 1.190000e-28 137
8 TraesCS4B01G258600 chr3D 95.978 1616 46 7 201 1799 68840536 68842149 0.000000e+00 2606
9 TraesCS4B01G258600 chr3D 96.273 1583 54 2 217 1799 252333286 252331709 0.000000e+00 2591
10 TraesCS4B01G258600 chr3D 91.126 586 49 3 1797 2379 426346912 426346327 0.000000e+00 791
11 TraesCS4B01G258600 chr3D 96.429 84 3 0 2376 2459 240670945 240670862 3.300000e-29 139
12 TraesCS4B01G258600 chr3D 93.407 91 5 1 2370 2459 333327296 333327386 1.530000e-27 134
13 TraesCS4B01G258600 chr5D 96.067 1602 55 4 201 1799 134489005 134487409 0.000000e+00 2603
14 TraesCS4B01G258600 chr5D 95.872 1599 51 6 201 1799 363006216 363007799 0.000000e+00 2573
15 TraesCS4B01G258600 chr5D 95.810 1599 54 5 201 1799 320661354 320662939 0.000000e+00 2569
16 TraesCS4B01G258600 chr5D 94.549 587 31 1 1794 2379 444413746 444414332 0.000000e+00 905
17 TraesCS4B01G258600 chr5D 91.126 586 48 4 1797 2379 203183971 203183387 0.000000e+00 791
18 TraesCS4B01G258600 chr4A 96.062 1600 56 5 201 1799 574553965 574552372 0.000000e+00 2599
19 TraesCS4B01G258600 chr2D 96.060 1599 45 8 201 1799 82210546 82208966 0.000000e+00 2588
20 TraesCS4B01G258600 chr2D 96.591 88 3 0 2372 2459 281438648 281438735 1.970000e-31 147
21 TraesCS4B01G258600 chr5A 95.685 1599 61 4 201 1799 524632271 524630681 0.000000e+00 2564
22 TraesCS4B01G258600 chr1D 93.151 584 39 1 1797 2379 44479088 44478505 0.000000e+00 856
23 TraesCS4B01G258600 chr7D 92.491 586 41 3 1797 2379 33018980 33018395 0.000000e+00 835
24 TraesCS4B01G258600 chr6B 90.196 204 18 1 1 202 658122449 658122246 5.210000e-67 265
25 TraesCS4B01G258600 chr6B 89.216 204 20 1 1 202 658164437 658164234 1.130000e-63 254
26 TraesCS4B01G258600 chr6B 89.899 198 18 1 1 196 695879178 695879375 1.130000e-63 254
27 TraesCS4B01G258600 chr2B 89.706 204 19 1 1 202 433903823 433903620 2.430000e-65 259
28 TraesCS4B01G258600 chr2B 91.837 98 5 3 2365 2459 100145331 100145428 1.530000e-27 134
29 TraesCS4B01G258600 chr7B 90.674 193 16 1 6 196 154515830 154516022 3.140000e-64 255
30 TraesCS4B01G258600 chr7B 89.899 198 18 1 1 196 207781248 207781445 1.130000e-63 254
31 TraesCS4B01G258600 chr7B 97.531 81 2 0 2379 2459 282775605 282775685 3.300000e-29 139
32 TraesCS4B01G258600 chr3B 89.899 198 17 3 1 196 583025974 583026170 4.060000e-63 252
33 TraesCS4B01G258600 chr1B 87.273 220 25 2 1 217 456775487 456775268 5.250000e-62 248
34 TraesCS4B01G258600 chr1B 97.531 81 2 0 2379 2459 246690248 246690328 3.300000e-29 139
35 TraesCS4B01G258600 chrUn 98.750 80 1 0 2380 2459 140190192 140190271 2.550000e-30 143


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 TraesCS4B01G258600 chr4B 525252085 525254543 2458 True 4542 4542 100.000 1 2459 1 chr4B.!!$R3 2458
1 TraesCS4B01G258600 chr4B 525385849 525388029 2180 True 3711 3711 97.387 201 2379 1 chr4B.!!$R5 2178
2 TraesCS4B01G258600 chr4B 525322757 525323612 855 False 1413 1413 96.495 1522 2376 1 chr4B.!!$F1 854
3 TraesCS4B01G258600 chr4B 525546329 525546914 585 True 950 950 95.911 1794 2379 1 chr4B.!!$R7 585
4 TraesCS4B01G258600 chr4B 525455961 525456547 586 True 894 894 94.208 1794 2379 1 chr4B.!!$R6 585
5 TraesCS4B01G258600 chr3D 68840536 68842149 1613 False 2606 2606 95.978 201 1799 1 chr3D.!!$F1 1598
6 TraesCS4B01G258600 chr3D 252331709 252333286 1577 True 2591 2591 96.273 217 1799 1 chr3D.!!$R2 1582
7 TraesCS4B01G258600 chr3D 426346327 426346912 585 True 791 791 91.126 1797 2379 1 chr3D.!!$R3 582
8 TraesCS4B01G258600 chr5D 134487409 134489005 1596 True 2603 2603 96.067 201 1799 1 chr5D.!!$R1 1598
9 TraesCS4B01G258600 chr5D 363006216 363007799 1583 False 2573 2573 95.872 201 1799 1 chr5D.!!$F2 1598
10 TraesCS4B01G258600 chr5D 320661354 320662939 1585 False 2569 2569 95.810 201 1799 1 chr5D.!!$F1 1598
11 TraesCS4B01G258600 chr5D 444413746 444414332 586 False 905 905 94.549 1794 2379 1 chr5D.!!$F3 585
12 TraesCS4B01G258600 chr5D 203183387 203183971 584 True 791 791 91.126 1797 2379 1 chr5D.!!$R2 582
13 TraesCS4B01G258600 chr4A 574552372 574553965 1593 True 2599 2599 96.062 201 1799 1 chr4A.!!$R1 1598
14 TraesCS4B01G258600 chr2D 82208966 82210546 1580 True 2588 2588 96.060 201 1799 1 chr2D.!!$R1 1598
15 TraesCS4B01G258600 chr5A 524630681 524632271 1590 True 2564 2564 95.685 201 1799 1 chr5A.!!$R1 1598
16 TraesCS4B01G258600 chr1D 44478505 44479088 583 True 856 856 93.151 1797 2379 1 chr1D.!!$R1 582
17 TraesCS4B01G258600 chr7D 33018395 33018980 585 True 835 835 92.491 1797 2379 1 chr7D.!!$R1 582

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
134 135 0.040781 AACAATGCGAAAACCCGACG 60.041 50.0 0.0 0.0 0.0 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1889 1938 1.154016 CGTGCGTGGACTGAGGTAG 60.154 63.158 0.0 0.0 0.0 3.18 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
25 26 2.497770 GGTACTACCGCGCACCAT 59.502 61.111 8.75 0.00 0.00 3.55
26 27 1.153509 GGTACTACCGCGCACCATT 60.154 57.895 8.75 0.00 0.00 3.16
27 28 1.426041 GGTACTACCGCGCACCATTG 61.426 60.000 8.75 0.00 0.00 2.82
28 29 1.812093 TACTACCGCGCACCATTGC 60.812 57.895 8.75 0.00 46.21 3.56
64 65 4.096003 GCAAGCCCCAGCCTACGA 62.096 66.667 0.00 0.00 41.25 3.43
65 66 2.668632 CAAGCCCCAGCCTACGAA 59.331 61.111 0.00 0.00 41.25 3.85
66 67 1.450312 CAAGCCCCAGCCTACGAAG 60.450 63.158 0.00 0.00 41.25 3.79
67 68 1.612442 AAGCCCCAGCCTACGAAGA 60.612 57.895 0.00 0.00 41.25 2.87
68 69 1.617947 AAGCCCCAGCCTACGAAGAG 61.618 60.000 0.00 0.00 41.25 2.85
69 70 2.501610 CCCCAGCCTACGAAGAGC 59.498 66.667 0.00 0.00 0.00 4.09
71 72 2.583593 CCAGCCTACGAAGAGCGC 60.584 66.667 0.00 0.00 46.04 5.92
72 73 2.951745 CAGCCTACGAAGAGCGCG 60.952 66.667 0.00 0.00 46.04 6.86
73 74 4.194720 AGCCTACGAAGAGCGCGG 62.195 66.667 8.83 0.00 46.04 6.46
74 75 4.189188 GCCTACGAAGAGCGCGGA 62.189 66.667 8.83 0.00 46.04 5.54
75 76 2.722487 CCTACGAAGAGCGCGGAT 59.278 61.111 8.83 0.00 46.04 4.18
76 77 1.658717 CCTACGAAGAGCGCGGATG 60.659 63.158 8.83 0.00 46.04 3.51
77 78 1.355563 CTACGAAGAGCGCGGATGA 59.644 57.895 8.83 0.00 46.04 2.92
78 79 0.248498 CTACGAAGAGCGCGGATGAA 60.248 55.000 8.83 0.00 46.04 2.57
79 80 0.171679 TACGAAGAGCGCGGATGAAA 59.828 50.000 8.83 0.00 46.04 2.69
80 81 0.460284 ACGAAGAGCGCGGATGAAAT 60.460 50.000 8.83 0.00 46.04 2.17
81 82 1.202371 ACGAAGAGCGCGGATGAAATA 60.202 47.619 8.83 0.00 46.04 1.40
82 83 1.858458 CGAAGAGCGCGGATGAAATAA 59.142 47.619 8.83 0.00 0.00 1.40
83 84 2.284150 CGAAGAGCGCGGATGAAATAAA 59.716 45.455 8.83 0.00 0.00 1.40
84 85 3.059597 CGAAGAGCGCGGATGAAATAAAT 60.060 43.478 8.83 0.00 0.00 1.40
85 86 4.552767 CGAAGAGCGCGGATGAAATAAATT 60.553 41.667 8.83 0.00 0.00 1.82
86 87 5.333035 CGAAGAGCGCGGATGAAATAAATTA 60.333 40.000 8.83 0.00 0.00 1.40
87 88 5.344207 AGAGCGCGGATGAAATAAATTAC 57.656 39.130 8.83 0.00 0.00 1.89
88 89 4.814234 AGAGCGCGGATGAAATAAATTACA 59.186 37.500 8.83 0.00 0.00 2.41
89 90 5.470098 AGAGCGCGGATGAAATAAATTACAT 59.530 36.000 8.83 0.00 0.00 2.29
90 91 5.689819 AGCGCGGATGAAATAAATTACATC 58.310 37.500 8.83 0.00 38.53 3.06
96 97 6.149633 GGATGAAATAAATTACATCCGTGCC 58.850 40.000 0.00 0.00 45.56 5.01
97 98 6.016276 GGATGAAATAAATTACATCCGTGCCT 60.016 38.462 0.00 0.00 45.56 4.75
98 99 7.174253 GGATGAAATAAATTACATCCGTGCCTA 59.826 37.037 0.00 0.00 45.56 3.93
99 100 7.254227 TGAAATAAATTACATCCGTGCCTAC 57.746 36.000 0.00 0.00 0.00 3.18
100 101 7.051623 TGAAATAAATTACATCCGTGCCTACT 58.948 34.615 0.00 0.00 0.00 2.57
101 102 7.554835 TGAAATAAATTACATCCGTGCCTACTT 59.445 33.333 0.00 0.00 0.00 2.24
102 103 7.492352 AATAAATTACATCCGTGCCTACTTC 57.508 36.000 0.00 0.00 0.00 3.01
103 104 2.973694 TTACATCCGTGCCTACTTCC 57.026 50.000 0.00 0.00 0.00 3.46
104 105 0.742505 TACATCCGTGCCTACTTCCG 59.257 55.000 0.00 0.00 0.00 4.30
105 106 1.883084 CATCCGTGCCTACTTCCGC 60.883 63.158 0.00 0.00 0.00 5.54
106 107 2.058595 ATCCGTGCCTACTTCCGCT 61.059 57.895 0.00 0.00 0.00 5.52
107 108 2.298158 ATCCGTGCCTACTTCCGCTG 62.298 60.000 0.00 0.00 0.00 5.18
108 109 2.571757 CGTGCCTACTTCCGCTGA 59.428 61.111 0.00 0.00 0.00 4.26
109 110 1.080093 CGTGCCTACTTCCGCTGAA 60.080 57.895 0.00 0.00 0.00 3.02
110 111 0.669318 CGTGCCTACTTCCGCTGAAA 60.669 55.000 0.00 0.00 0.00 2.69
111 112 1.519408 GTGCCTACTTCCGCTGAAAA 58.481 50.000 0.00 0.00 0.00 2.29
112 113 1.877443 GTGCCTACTTCCGCTGAAAAA 59.123 47.619 0.00 0.00 0.00 1.94
113 114 2.095718 GTGCCTACTTCCGCTGAAAAAG 60.096 50.000 0.00 0.00 0.00 2.27
114 115 2.224426 TGCCTACTTCCGCTGAAAAAGA 60.224 45.455 0.00 0.00 0.00 2.52
115 116 2.812011 GCCTACTTCCGCTGAAAAAGAA 59.188 45.455 0.00 0.00 0.00 2.52
116 117 3.252458 GCCTACTTCCGCTGAAAAAGAAA 59.748 43.478 0.00 0.00 0.00 2.52
117 118 4.784329 CCTACTTCCGCTGAAAAAGAAAC 58.216 43.478 0.00 0.00 0.00 2.78
118 119 4.274950 CCTACTTCCGCTGAAAAAGAAACA 59.725 41.667 0.00 0.00 0.00 2.83
119 120 4.712122 ACTTCCGCTGAAAAAGAAACAA 57.288 36.364 0.00 0.00 0.00 2.83
120 121 5.262588 ACTTCCGCTGAAAAAGAAACAAT 57.737 34.783 0.00 0.00 0.00 2.71
121 122 5.043248 ACTTCCGCTGAAAAAGAAACAATG 58.957 37.500 0.00 0.00 0.00 2.82
122 123 3.380142 TCCGCTGAAAAAGAAACAATGC 58.620 40.909 0.00 0.00 0.00 3.56
123 124 2.153627 CCGCTGAAAAAGAAACAATGCG 59.846 45.455 0.00 0.00 40.44 4.73
124 125 3.042189 CGCTGAAAAAGAAACAATGCGA 58.958 40.909 0.00 0.00 42.87 5.10
125 126 3.485378 CGCTGAAAAAGAAACAATGCGAA 59.515 39.130 0.00 0.00 42.87 4.70
126 127 4.026968 CGCTGAAAAAGAAACAATGCGAAA 60.027 37.500 0.00 0.00 42.87 3.46
127 128 5.499971 CGCTGAAAAAGAAACAATGCGAAAA 60.500 36.000 0.00 0.00 42.87 2.29
128 129 5.672426 GCTGAAAAAGAAACAATGCGAAAAC 59.328 36.000 0.00 0.00 0.00 2.43
129 130 6.100792 TGAAAAAGAAACAATGCGAAAACC 57.899 33.333 0.00 0.00 0.00 3.27
130 131 5.064071 TGAAAAAGAAACAATGCGAAAACCC 59.936 36.000 0.00 0.00 0.00 4.11
131 132 2.415697 AGAAACAATGCGAAAACCCG 57.584 45.000 0.00 0.00 0.00 5.28
132 133 1.950909 AGAAACAATGCGAAAACCCGA 59.049 42.857 0.00 0.00 0.00 5.14
133 134 2.048498 GAAACAATGCGAAAACCCGAC 58.952 47.619 0.00 0.00 0.00 4.79
134 135 0.040781 AACAATGCGAAAACCCGACG 60.041 50.000 0.00 0.00 0.00 5.12
139 140 2.430582 CGAAAACCCGACGCGGTA 60.431 61.111 12.47 0.00 46.80 4.02
140 141 2.719774 CGAAAACCCGACGCGGTAC 61.720 63.158 12.47 0.00 46.80 3.34
141 142 1.373371 GAAAACCCGACGCGGTACT 60.373 57.895 12.47 0.00 46.80 2.73
142 143 0.109319 GAAAACCCGACGCGGTACTA 60.109 55.000 12.47 0.00 46.80 1.82
143 144 0.388520 AAAACCCGACGCGGTACTAC 60.389 55.000 12.47 0.00 46.80 2.73
144 145 2.212900 AAACCCGACGCGGTACTACC 62.213 60.000 12.47 0.00 46.80 3.18
153 154 3.429925 GGTACTACCGCTCCCGAG 58.570 66.667 0.00 0.00 36.29 4.63
154 155 2.192187 GGTACTACCGCTCCCGAGG 61.192 68.421 0.00 0.00 36.29 4.63
155 156 2.517875 TACTACCGCTCCCGAGGC 60.518 66.667 0.00 0.00 36.29 4.70
156 157 3.348554 TACTACCGCTCCCGAGGCA 62.349 63.158 0.00 0.00 36.29 4.75
157 158 2.635787 TACTACCGCTCCCGAGGCAT 62.636 60.000 0.00 0.00 36.29 4.40
158 159 3.506059 CTACCGCTCCCGAGGCATG 62.506 68.421 0.00 0.00 36.29 4.06
161 162 3.536917 CGCTCCCGAGGCATGGTA 61.537 66.667 0.00 0.00 36.29 3.25
162 163 2.109181 GCTCCCGAGGCATGGTAC 59.891 66.667 0.00 0.00 0.00 3.34
163 164 2.435693 GCTCCCGAGGCATGGTACT 61.436 63.158 0.00 0.00 0.00 2.73
164 165 1.113517 GCTCCCGAGGCATGGTACTA 61.114 60.000 0.00 0.00 0.00 1.82
165 166 0.674534 CTCCCGAGGCATGGTACTAC 59.325 60.000 0.00 0.00 0.00 2.73
166 167 0.757935 TCCCGAGGCATGGTACTACC 60.758 60.000 0.00 0.00 39.22 3.18
167 168 1.362717 CCGAGGCATGGTACTACCG 59.637 63.158 0.62 0.00 42.58 4.02
168 169 1.389609 CCGAGGCATGGTACTACCGT 61.390 60.000 0.62 0.00 42.58 4.83
174 175 2.512973 ATGGTACTACCGTGGAGGC 58.487 57.895 0.00 0.00 46.52 4.70
175 176 1.389609 ATGGTACTACCGTGGAGGCG 61.390 60.000 0.00 0.00 46.52 5.52
176 177 2.103736 GTACTACCGTGGAGGCGC 59.896 66.667 0.00 0.00 46.52 6.53
177 178 3.511595 TACTACCGTGGAGGCGCG 61.512 66.667 0.00 0.00 46.52 6.86
183 184 4.201679 CGTGGAGGCGCGGATGTA 62.202 66.667 8.83 0.00 0.00 2.29
184 185 2.185867 GTGGAGGCGCGGATGTAA 59.814 61.111 8.83 0.00 0.00 2.41
185 186 1.448893 GTGGAGGCGCGGATGTAAA 60.449 57.895 8.83 0.00 0.00 2.01
186 187 1.022451 GTGGAGGCGCGGATGTAAAA 61.022 55.000 8.83 0.00 0.00 1.52
187 188 0.107410 TGGAGGCGCGGATGTAAAAT 60.107 50.000 8.83 0.00 0.00 1.82
188 189 1.021968 GGAGGCGCGGATGTAAAATT 58.978 50.000 8.83 0.00 0.00 1.82
189 190 2.215196 GGAGGCGCGGATGTAAAATTA 58.785 47.619 8.83 0.00 0.00 1.40
190 191 2.032290 GGAGGCGCGGATGTAAAATTAC 60.032 50.000 8.83 0.00 0.00 1.89
191 192 2.610374 GAGGCGCGGATGTAAAATTACA 59.390 45.455 8.83 8.34 46.55 2.41
474 475 1.141657 TGATTCCCTCTATGTGCCAGC 59.858 52.381 0.00 0.00 0.00 4.85
555 583 4.944317 AGCAAAGGCAAAGAAGGATAGTAC 59.056 41.667 0.00 0.00 44.61 2.73
575 603 2.131972 CGTCGAACAACATGAAGTGGA 58.868 47.619 0.00 0.00 0.00 4.02
829 857 8.824756 ATGAGAACACTTACTCCATAGTTCTA 57.175 34.615 0.00 0.00 43.86 2.10
997 1025 2.979678 ACACCCATCCAGAACTACAACT 59.020 45.455 0.00 0.00 0.00 3.16
1159 1188 0.603065 GCCCTTCGACAAGCCATTTT 59.397 50.000 0.00 0.00 0.00 1.82
1326 1356 1.077265 CATGACCCAGGGTGGCTTT 59.923 57.895 19.03 0.00 35.25 3.51
1352 1382 2.186125 CGCTCTCATGGCAGCTCA 59.814 61.111 13.06 0.00 33.09 4.26
1389 1419 2.780924 AAGGCCCAGGGTGTTGGA 60.781 61.111 7.55 0.00 40.87 3.53
1730 1776 4.715896 CCGTATGATCATGCATGCTTTAC 58.284 43.478 22.25 17.07 0.00 2.01
1731 1777 4.453478 CCGTATGATCATGCATGCTTTACT 59.547 41.667 22.25 6.67 0.00 2.24
1732 1778 5.049198 CCGTATGATCATGCATGCTTTACTT 60.049 40.000 22.25 10.65 0.00 2.24
1889 1938 5.790593 TCATGGAAATCTAGCCCGTAATAC 58.209 41.667 0.00 0.00 0.00 1.89
1904 1953 3.547613 CGTAATACTACCTCAGTCCACGC 60.548 52.174 0.00 0.00 38.80 5.34
1977 2026 2.312140 ACTACCCTCTCAGTAGGCTTCA 59.688 50.000 0.00 0.00 41.28 3.02
2379 2433 2.159099 TCTCTGCTTTGACAAGACGTGT 60.159 45.455 0.00 0.00 45.74 4.49
2380 2434 1.933181 TCTGCTTTGACAAGACGTGTG 59.067 47.619 0.00 0.00 41.96 3.82
2381 2435 1.933181 CTGCTTTGACAAGACGTGTGA 59.067 47.619 0.00 0.00 41.96 3.58
2382 2436 2.545526 CTGCTTTGACAAGACGTGTGAT 59.454 45.455 0.00 0.00 41.96 3.06
2383 2437 3.723260 TGCTTTGACAAGACGTGTGATA 58.277 40.909 0.00 0.00 41.96 2.15
2384 2438 3.493129 TGCTTTGACAAGACGTGTGATAC 59.507 43.478 0.00 0.00 41.96 2.24
2394 2448 3.374506 GTGTGATACGGGGCTAACC 57.625 57.895 0.00 0.00 39.11 2.85
2404 2458 4.957164 GGCTAACCCTGTGTAGGC 57.043 61.111 0.00 0.00 43.16 3.93
2405 2459 1.223763 GGCTAACCCTGTGTAGGCC 59.776 63.158 0.00 0.00 43.16 5.19
2406 2460 1.153429 GCTAACCCTGTGTAGGCCG 60.153 63.158 0.00 0.00 43.16 6.13
2407 2461 1.610554 GCTAACCCTGTGTAGGCCGA 61.611 60.000 0.00 0.00 43.16 5.54
2408 2462 1.120530 CTAACCCTGTGTAGGCCGAT 58.879 55.000 0.00 0.00 43.16 4.18
2409 2463 1.068741 CTAACCCTGTGTAGGCCGATC 59.931 57.143 0.00 0.00 43.16 3.69
2410 2464 0.617820 AACCCTGTGTAGGCCGATCT 60.618 55.000 0.00 0.00 43.16 2.75
2411 2465 0.617820 ACCCTGTGTAGGCCGATCTT 60.618 55.000 0.00 0.00 43.16 2.40
2412 2466 0.541863 CCCTGTGTAGGCCGATCTTT 59.458 55.000 0.00 0.00 43.16 2.52
2413 2467 1.473434 CCCTGTGTAGGCCGATCTTTC 60.473 57.143 0.00 0.00 43.16 2.62
2414 2468 1.207089 CCTGTGTAGGCCGATCTTTCA 59.793 52.381 0.00 0.00 37.25 2.69
2415 2469 2.158900 CCTGTGTAGGCCGATCTTTCAT 60.159 50.000 0.00 0.00 37.25 2.57
2416 2470 2.868583 CTGTGTAGGCCGATCTTTCATG 59.131 50.000 0.00 0.00 0.00 3.07
2417 2471 2.499693 TGTGTAGGCCGATCTTTCATGA 59.500 45.455 0.00 0.00 0.00 3.07
2418 2472 3.134623 TGTGTAGGCCGATCTTTCATGAT 59.865 43.478 0.00 0.00 0.00 2.45
2419 2473 4.130118 GTGTAGGCCGATCTTTCATGATT 58.870 43.478 0.00 0.00 0.00 2.57
2420 2474 4.024556 GTGTAGGCCGATCTTTCATGATTG 60.025 45.833 0.00 0.00 0.00 2.67
2421 2475 2.579873 AGGCCGATCTTTCATGATTGG 58.420 47.619 0.00 6.44 46.12 3.16
2422 2476 2.173356 AGGCCGATCTTTCATGATTGGA 59.827 45.455 13.33 0.00 46.22 3.53
2423 2477 2.551459 GGCCGATCTTTCATGATTGGAG 59.449 50.000 13.33 0.00 46.22 3.86
2424 2478 3.209410 GCCGATCTTTCATGATTGGAGT 58.791 45.455 13.33 0.00 46.22 3.85
2425 2479 3.003068 GCCGATCTTTCATGATTGGAGTG 59.997 47.826 13.33 0.00 46.22 3.51
2426 2480 3.562973 CCGATCTTTCATGATTGGAGTGG 59.437 47.826 0.00 0.00 46.22 4.00
2427 2481 3.562973 CGATCTTTCATGATTGGAGTGGG 59.437 47.826 0.00 0.00 0.00 4.61
2428 2482 4.684214 CGATCTTTCATGATTGGAGTGGGA 60.684 45.833 0.00 0.00 0.00 4.37
2429 2483 4.868172 TCTTTCATGATTGGAGTGGGAT 57.132 40.909 0.00 0.00 0.00 3.85
2430 2484 4.785301 TCTTTCATGATTGGAGTGGGATC 58.215 43.478 0.00 0.00 0.00 3.36
2431 2485 3.582998 TTCATGATTGGAGTGGGATCC 57.417 47.619 1.92 1.92 40.03 3.36
2432 2486 1.776667 TCATGATTGGAGTGGGATCCC 59.223 52.381 25.22 25.22 38.72 3.85
2433 2487 1.779092 CATGATTGGAGTGGGATCCCT 59.221 52.381 31.05 12.78 38.72 4.20
2434 2488 1.511613 TGATTGGAGTGGGATCCCTC 58.488 55.000 31.05 26.94 38.72 4.30
2435 2489 0.394565 GATTGGAGTGGGATCCCTCG 59.605 60.000 31.05 0.00 38.72 4.63
2436 2490 0.031111 ATTGGAGTGGGATCCCTCGA 60.031 55.000 31.05 15.90 38.72 4.04
2437 2491 0.252513 TTGGAGTGGGATCCCTCGAA 60.253 55.000 31.05 20.61 38.72 3.71
2438 2492 0.687757 TGGAGTGGGATCCCTCGAAG 60.688 60.000 31.05 0.00 38.72 3.79
2439 2493 0.397254 GGAGTGGGATCCCTCGAAGA 60.397 60.000 31.05 7.30 36.94 2.87
2440 2494 1.486211 GAGTGGGATCCCTCGAAGAA 58.514 55.000 31.05 6.47 34.09 2.52
2441 2495 1.137282 GAGTGGGATCCCTCGAAGAAC 59.863 57.143 31.05 18.56 34.09 3.01
2442 2496 0.902531 GTGGGATCCCTCGAAGAACA 59.097 55.000 31.05 4.83 34.09 3.18
2443 2497 0.902531 TGGGATCCCTCGAAGAACAC 59.097 55.000 31.05 0.60 34.09 3.32
2444 2498 0.179108 GGGATCCCTCGAAGAACACG 60.179 60.000 24.69 0.00 34.09 4.49
2445 2499 0.815734 GGATCCCTCGAAGAACACGA 59.184 55.000 0.00 0.00 34.09 4.35
2446 2500 1.409427 GGATCCCTCGAAGAACACGAT 59.591 52.381 0.00 0.00 39.02 3.73
2447 2501 2.464865 GATCCCTCGAAGAACACGATG 58.535 52.381 0.00 0.00 39.02 3.84
2448 2502 1.541379 TCCCTCGAAGAACACGATGA 58.459 50.000 0.00 0.00 39.02 2.92
2449 2503 1.890489 TCCCTCGAAGAACACGATGAA 59.110 47.619 0.00 0.00 39.02 2.57
2450 2504 1.993370 CCCTCGAAGAACACGATGAAC 59.007 52.381 0.00 0.00 39.02 3.18
2451 2505 2.609491 CCCTCGAAGAACACGATGAACA 60.609 50.000 0.00 0.00 39.02 3.18
2452 2506 2.408704 CCTCGAAGAACACGATGAACAC 59.591 50.000 0.00 0.00 39.02 3.32
2453 2507 2.048498 TCGAAGAACACGATGAACACG 58.952 47.619 0.00 0.00 34.85 4.49
2454 2508 1.124297 CGAAGAACACGATGAACACGG 59.876 52.381 0.00 0.00 34.93 4.94
2455 2509 1.459592 GAAGAACACGATGAACACGGG 59.540 52.381 0.00 0.00 40.19 5.28
2456 2510 0.320421 AGAACACGATGAACACGGGG 60.320 55.000 0.00 0.00 38.55 5.73
2457 2511 0.320073 GAACACGATGAACACGGGGA 60.320 55.000 0.00 0.00 38.55 4.81
2458 2512 0.107081 AACACGATGAACACGGGGAA 59.893 50.000 0.00 0.00 38.55 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.153509 AATGGTGCGCGGTAGTACC 60.154 57.895 8.83 9.50 45.42 3.34
9 10 2.003672 CAATGGTGCGCGGTAGTAC 58.996 57.895 8.83 0.00 0.00 2.73
10 11 1.812093 GCAATGGTGCGCGGTAGTA 60.812 57.895 8.83 0.00 41.93 1.82
11 12 3.124921 GCAATGGTGCGCGGTAGT 61.125 61.111 8.83 0.00 41.93 2.73
29 30 1.153429 CCTGCCTTGCGGTAGTACC 60.153 63.158 9.50 9.50 41.02 3.34
30 31 1.814169 GCCTGCCTTGCGGTAGTAC 60.814 63.158 0.00 0.00 41.02 2.73
31 32 1.832719 TTGCCTGCCTTGCGGTAGTA 61.833 55.000 0.00 0.00 41.02 1.82
32 33 3.190738 TTGCCTGCCTTGCGGTAGT 62.191 57.895 0.00 0.00 41.02 2.73
33 34 2.359850 TTGCCTGCCTTGCGGTAG 60.360 61.111 0.00 0.00 42.14 3.18
34 35 2.359850 CTTGCCTGCCTTGCGGTA 60.360 61.111 0.00 0.00 32.22 4.02
47 48 3.622060 TTCGTAGGCTGGGGCTTGC 62.622 63.158 0.00 0.00 39.70 4.01
48 49 1.450312 CTTCGTAGGCTGGGGCTTG 60.450 63.158 0.00 0.00 39.70 4.01
49 50 1.612442 TCTTCGTAGGCTGGGGCTT 60.612 57.895 0.00 0.00 39.70 4.35
50 51 2.038975 TCTTCGTAGGCTGGGGCT 59.961 61.111 0.00 0.00 42.39 5.19
51 52 2.501610 CTCTTCGTAGGCTGGGGC 59.498 66.667 0.00 0.00 37.82 5.80
52 53 2.501610 GCTCTTCGTAGGCTGGGG 59.498 66.667 0.00 0.00 0.00 4.96
53 54 2.105128 CGCTCTTCGTAGGCTGGG 59.895 66.667 0.00 0.00 0.00 4.45
54 55 2.583593 GCGCTCTTCGTAGGCTGG 60.584 66.667 0.00 0.00 41.07 4.85
55 56 2.951745 CGCGCTCTTCGTAGGCTG 60.952 66.667 5.56 0.00 41.07 4.85
56 57 4.194720 CCGCGCTCTTCGTAGGCT 62.195 66.667 5.56 0.00 41.07 4.58
57 58 3.486252 ATCCGCGCTCTTCGTAGGC 62.486 63.158 5.56 0.00 41.07 3.93
58 59 1.658717 CATCCGCGCTCTTCGTAGG 60.659 63.158 5.56 0.00 41.07 3.18
59 60 0.248498 TTCATCCGCGCTCTTCGTAG 60.248 55.000 5.56 0.00 41.07 3.51
60 61 0.171679 TTTCATCCGCGCTCTTCGTA 59.828 50.000 5.56 0.00 41.07 3.43
61 62 0.460284 ATTTCATCCGCGCTCTTCGT 60.460 50.000 5.56 0.00 41.07 3.85
62 63 1.487482 TATTTCATCCGCGCTCTTCG 58.513 50.000 5.56 0.00 42.12 3.79
63 64 3.944422 TTTATTTCATCCGCGCTCTTC 57.056 42.857 5.56 0.00 0.00 2.87
64 65 4.900635 AATTTATTTCATCCGCGCTCTT 57.099 36.364 5.56 0.00 0.00 2.85
65 66 4.814234 TGTAATTTATTTCATCCGCGCTCT 59.186 37.500 5.56 0.00 0.00 4.09
66 67 5.090652 TGTAATTTATTTCATCCGCGCTC 57.909 39.130 5.56 0.00 0.00 5.03
67 68 5.689383 ATGTAATTTATTTCATCCGCGCT 57.311 34.783 5.56 0.00 0.00 5.92
68 69 5.975138 GATGTAATTTATTTCATCCGCGC 57.025 39.130 0.00 0.00 38.11 6.86
73 74 6.970484 AGGCACGGATGTAATTTATTTCATC 58.030 36.000 11.45 11.45 41.18 2.92
74 75 6.959639 AGGCACGGATGTAATTTATTTCAT 57.040 33.333 0.00 0.00 31.67 2.57
75 76 7.051623 AGTAGGCACGGATGTAATTTATTTCA 58.948 34.615 0.00 0.00 0.00 2.69
76 77 7.492352 AGTAGGCACGGATGTAATTTATTTC 57.508 36.000 0.00 0.00 0.00 2.17
77 78 7.012989 GGAAGTAGGCACGGATGTAATTTATTT 59.987 37.037 0.00 0.00 0.00 1.40
78 79 6.485648 GGAAGTAGGCACGGATGTAATTTATT 59.514 38.462 0.00 0.00 0.00 1.40
79 80 5.995897 GGAAGTAGGCACGGATGTAATTTAT 59.004 40.000 0.00 0.00 0.00 1.40
80 81 5.362263 GGAAGTAGGCACGGATGTAATTTA 58.638 41.667 0.00 0.00 0.00 1.40
81 82 4.196971 GGAAGTAGGCACGGATGTAATTT 58.803 43.478 0.00 0.00 0.00 1.82
82 83 3.740141 CGGAAGTAGGCACGGATGTAATT 60.740 47.826 0.00 0.00 0.00 1.40
83 84 2.223971 CGGAAGTAGGCACGGATGTAAT 60.224 50.000 0.00 0.00 0.00 1.89
84 85 1.135527 CGGAAGTAGGCACGGATGTAA 59.864 52.381 0.00 0.00 0.00 2.41
85 86 0.742505 CGGAAGTAGGCACGGATGTA 59.257 55.000 0.00 0.00 0.00 2.29
86 87 1.515954 CGGAAGTAGGCACGGATGT 59.484 57.895 0.00 0.00 0.00 3.06
87 88 1.883084 GCGGAAGTAGGCACGGATG 60.883 63.158 0.00 0.00 0.00 3.51
88 89 2.058595 AGCGGAAGTAGGCACGGAT 61.059 57.895 0.00 0.00 0.00 4.18
89 90 2.678934 AGCGGAAGTAGGCACGGA 60.679 61.111 0.00 0.00 0.00 4.69
90 91 2.501223 TTCAGCGGAAGTAGGCACGG 62.501 60.000 0.00 0.00 0.00 4.94
91 92 0.669318 TTTCAGCGGAAGTAGGCACG 60.669 55.000 0.00 0.00 33.82 5.34
92 93 1.519408 TTTTCAGCGGAAGTAGGCAC 58.481 50.000 0.00 0.00 33.82 5.01
93 94 2.151202 CTTTTTCAGCGGAAGTAGGCA 58.849 47.619 0.00 0.00 33.82 4.75
94 95 2.423577 TCTTTTTCAGCGGAAGTAGGC 58.576 47.619 0.00 0.00 33.82 3.93
95 96 4.274950 TGTTTCTTTTTCAGCGGAAGTAGG 59.725 41.667 0.00 0.00 33.82 3.18
96 97 5.418310 TGTTTCTTTTTCAGCGGAAGTAG 57.582 39.130 0.00 2.01 33.82 2.57
97 98 5.821516 TTGTTTCTTTTTCAGCGGAAGTA 57.178 34.783 0.00 0.00 33.82 2.24
98 99 4.712122 TTGTTTCTTTTTCAGCGGAAGT 57.288 36.364 0.00 0.00 33.82 3.01
99 100 4.084900 GCATTGTTTCTTTTTCAGCGGAAG 60.085 41.667 0.00 0.00 33.82 3.46
100 101 3.801594 GCATTGTTTCTTTTTCAGCGGAA 59.198 39.130 0.00 0.00 0.00 4.30
101 102 3.380142 GCATTGTTTCTTTTTCAGCGGA 58.620 40.909 0.00 0.00 0.00 5.54
102 103 2.153627 CGCATTGTTTCTTTTTCAGCGG 59.846 45.455 0.00 0.00 39.07 5.52
103 104 3.042189 TCGCATTGTTTCTTTTTCAGCG 58.958 40.909 0.00 0.00 43.50 5.18
104 105 5.388225 TTTCGCATTGTTTCTTTTTCAGC 57.612 34.783 0.00 0.00 0.00 4.26
105 106 6.184706 GGTTTTCGCATTGTTTCTTTTTCAG 58.815 36.000 0.00 0.00 0.00 3.02
106 107 5.064071 GGGTTTTCGCATTGTTTCTTTTTCA 59.936 36.000 0.00 0.00 0.00 2.69
107 108 5.498159 GGGTTTTCGCATTGTTTCTTTTTC 58.502 37.500 0.00 0.00 0.00 2.29
108 109 4.033472 CGGGTTTTCGCATTGTTTCTTTTT 59.967 37.500 0.00 0.00 0.00 1.94
109 110 3.553917 CGGGTTTTCGCATTGTTTCTTTT 59.446 39.130 0.00 0.00 0.00 2.27
110 111 3.120041 CGGGTTTTCGCATTGTTTCTTT 58.880 40.909 0.00 0.00 0.00 2.52
111 112 2.359531 TCGGGTTTTCGCATTGTTTCTT 59.640 40.909 0.00 0.00 0.00 2.52
112 113 1.950909 TCGGGTTTTCGCATTGTTTCT 59.049 42.857 0.00 0.00 0.00 2.52
113 114 2.048498 GTCGGGTTTTCGCATTGTTTC 58.952 47.619 0.00 0.00 0.00 2.78
114 115 1.598430 CGTCGGGTTTTCGCATTGTTT 60.598 47.619 0.00 0.00 0.00 2.83
115 116 0.040781 CGTCGGGTTTTCGCATTGTT 60.041 50.000 0.00 0.00 0.00 2.83
116 117 1.572447 CGTCGGGTTTTCGCATTGT 59.428 52.632 0.00 0.00 0.00 2.71
117 118 4.433102 CGTCGGGTTTTCGCATTG 57.567 55.556 0.00 0.00 0.00 2.82
136 137 2.192187 CCTCGGGAGCGGTAGTACC 61.192 68.421 9.50 9.50 34.05 3.34
137 138 2.843352 GCCTCGGGAGCGGTAGTAC 61.843 68.421 0.00 0.00 36.98 2.73
138 139 2.517875 GCCTCGGGAGCGGTAGTA 60.518 66.667 0.00 0.00 36.98 1.82
139 140 4.753662 TGCCTCGGGAGCGGTAGT 62.754 66.667 0.00 0.00 36.98 2.73
140 141 3.227276 ATGCCTCGGGAGCGGTAG 61.227 66.667 0.00 0.00 36.98 3.18
141 142 3.536917 CATGCCTCGGGAGCGGTA 61.537 66.667 0.00 0.00 36.98 4.02
144 145 3.536917 TACCATGCCTCGGGAGCG 61.537 66.667 0.00 0.00 0.00 5.03
145 146 1.113517 TAGTACCATGCCTCGGGAGC 61.114 60.000 0.00 0.00 0.00 4.70
146 147 0.674534 GTAGTACCATGCCTCGGGAG 59.325 60.000 0.00 0.00 0.00 4.30
147 148 0.757935 GGTAGTACCATGCCTCGGGA 60.758 60.000 14.82 0.00 38.42 5.14
148 149 1.746517 GGTAGTACCATGCCTCGGG 59.253 63.158 14.82 0.00 38.42 5.14
149 150 1.362717 CGGTAGTACCATGCCTCGG 59.637 63.158 19.41 0.00 38.47 4.63
150 151 0.248907 CACGGTAGTACCATGCCTCG 60.249 60.000 19.41 5.80 38.47 4.63
151 152 0.104304 CCACGGTAGTACCATGCCTC 59.896 60.000 19.41 0.00 38.47 4.70
152 153 0.324923 TCCACGGTAGTACCATGCCT 60.325 55.000 19.41 0.00 38.47 4.75
153 154 0.104304 CTCCACGGTAGTACCATGCC 59.896 60.000 19.41 0.00 38.47 4.40
154 155 0.104304 CCTCCACGGTAGTACCATGC 59.896 60.000 19.41 0.00 38.47 4.06
155 156 0.104304 GCCTCCACGGTAGTACCATG 59.896 60.000 19.41 14.17 38.47 3.66
156 157 1.389609 CGCCTCCACGGTAGTACCAT 61.390 60.000 19.41 0.01 38.47 3.55
157 158 2.048023 CGCCTCCACGGTAGTACCA 61.048 63.158 19.41 0.00 38.47 3.25
158 159 2.803479 CGCCTCCACGGTAGTACC 59.197 66.667 9.50 9.50 34.25 3.34
159 160 2.103736 GCGCCTCCACGGTAGTAC 59.896 66.667 0.00 0.00 34.25 2.73
160 161 3.511595 CGCGCCTCCACGGTAGTA 61.512 66.667 0.00 0.00 34.25 1.82
166 167 3.709880 TTACATCCGCGCCTCCACG 62.710 63.158 0.00 0.00 0.00 4.94
167 168 1.022451 TTTTACATCCGCGCCTCCAC 61.022 55.000 0.00 0.00 0.00 4.02
168 169 0.107410 ATTTTACATCCGCGCCTCCA 60.107 50.000 0.00 0.00 0.00 3.86
169 170 1.021968 AATTTTACATCCGCGCCTCC 58.978 50.000 0.00 0.00 0.00 4.30
170 171 2.610374 TGTAATTTTACATCCGCGCCTC 59.390 45.455 0.00 0.00 38.64 4.70
171 172 2.634600 TGTAATTTTACATCCGCGCCT 58.365 42.857 0.00 0.00 38.64 5.52
180 181 6.350103 TCATAGGCACGGATGTAATTTTACA 58.650 36.000 5.68 5.68 46.55 2.41
181 182 6.854496 TCATAGGCACGGATGTAATTTTAC 57.146 37.500 0.00 0.00 0.00 2.01
182 183 8.372459 ACTATCATAGGCACGGATGTAATTTTA 58.628 33.333 0.00 0.00 0.00 1.52
183 184 7.173218 CACTATCATAGGCACGGATGTAATTTT 59.827 37.037 0.00 0.00 0.00 1.82
184 185 6.650807 CACTATCATAGGCACGGATGTAATTT 59.349 38.462 0.00 0.00 0.00 1.82
185 186 6.014584 TCACTATCATAGGCACGGATGTAATT 60.015 38.462 0.00 0.00 0.00 1.40
186 187 5.480422 TCACTATCATAGGCACGGATGTAAT 59.520 40.000 0.00 0.00 0.00 1.89
187 188 4.830600 TCACTATCATAGGCACGGATGTAA 59.169 41.667 0.00 0.00 0.00 2.41
188 189 4.403734 TCACTATCATAGGCACGGATGTA 58.596 43.478 0.00 0.00 0.00 2.29
189 190 3.230976 TCACTATCATAGGCACGGATGT 58.769 45.455 0.00 0.00 0.00 3.06
190 191 3.942130 TCACTATCATAGGCACGGATG 57.058 47.619 0.00 0.00 0.00 3.51
191 192 4.089361 TCATCACTATCATAGGCACGGAT 58.911 43.478 0.00 0.00 0.00 4.18
192 193 3.496331 TCATCACTATCATAGGCACGGA 58.504 45.455 0.00 0.00 0.00 4.69
193 194 3.942130 TCATCACTATCATAGGCACGG 57.058 47.619 0.00 0.00 0.00 4.94
194 195 3.677121 GCTTCATCACTATCATAGGCACG 59.323 47.826 0.00 0.00 0.00 5.34
195 196 4.635223 TGCTTCATCACTATCATAGGCAC 58.365 43.478 0.00 0.00 0.00 5.01
196 197 4.961438 TGCTTCATCACTATCATAGGCA 57.039 40.909 0.00 0.00 0.00 4.75
197 198 6.609533 CAAATGCTTCATCACTATCATAGGC 58.390 40.000 0.00 0.00 0.00 3.93
198 199 6.609533 GCAAATGCTTCATCACTATCATAGG 58.390 40.000 0.00 0.00 38.21 2.57
449 450 3.135530 GGCACATAGAGGGAATCAGACTT 59.864 47.826 0.00 0.00 0.00 3.01
511 539 1.367599 CTGCTAGCTTGAGTGCAGCC 61.368 60.000 17.23 0.00 44.72 4.85
555 583 2.131972 TCCACTTCATGTTGTTCGACG 58.868 47.619 0.00 0.00 0.00 5.12
575 603 0.534203 AACGTGGACATGAACGGCTT 60.534 50.000 19.10 7.45 43.96 4.35
753 781 1.905894 TGGACACTTGGATCCATCGAA 59.094 47.619 17.06 0.00 40.17 3.71
829 857 2.716017 GGCGTAGTGCTCTGCCTCT 61.716 63.158 9.30 0.00 44.16 3.69
1159 1188 1.797320 CCCTTCCTATCAACGGGGTA 58.203 55.000 0.00 0.00 0.00 3.69
1335 1365 2.172372 GTGAGCTGCCATGAGAGCG 61.172 63.158 0.00 0.00 40.34 5.03
1389 1419 2.045438 TCGGCCATGGCAACGAAT 60.045 55.556 36.56 0.00 44.11 3.34
1551 1593 6.897413 ACCATCAAATAGTTTTTGAGCCCTAT 59.103 34.615 13.15 0.00 41.13 2.57
1730 1776 4.577875 ACAATGGAGCAGAAGAGAAGAAG 58.422 43.478 0.00 0.00 0.00 2.85
1731 1777 4.630644 ACAATGGAGCAGAAGAGAAGAA 57.369 40.909 0.00 0.00 0.00 2.52
1732 1778 4.202398 ACAACAATGGAGCAGAAGAGAAGA 60.202 41.667 0.00 0.00 0.00 2.87
1889 1938 1.154016 CGTGCGTGGACTGAGGTAG 60.154 63.158 0.00 0.00 0.00 3.18
1904 1953 1.961793 TTCCACTTCACCCTTTCGTG 58.038 50.000 0.00 0.00 34.93 4.35
1977 2026 2.430367 GCAAGTCGTCCCCACCTT 59.570 61.111 0.00 0.00 0.00 3.50
2387 2441 1.223763 GGCCTACACAGGGTTAGCC 59.776 63.158 0.00 0.20 42.88 3.93
2388 2442 1.153429 CGGCCTACACAGGGTTAGC 60.153 63.158 0.00 0.00 42.88 3.09
2389 2443 1.068741 GATCGGCCTACACAGGGTTAG 59.931 57.143 0.00 0.00 42.88 2.34
2390 2444 1.117150 GATCGGCCTACACAGGGTTA 58.883 55.000 0.00 0.00 42.88 2.85
2391 2445 0.617820 AGATCGGCCTACACAGGGTT 60.618 55.000 0.00 0.00 42.88 4.11
2392 2446 0.617820 AAGATCGGCCTACACAGGGT 60.618 55.000 0.00 0.00 42.88 4.34
2393 2447 0.541863 AAAGATCGGCCTACACAGGG 59.458 55.000 0.00 0.00 42.88 4.45
2394 2448 1.207089 TGAAAGATCGGCCTACACAGG 59.793 52.381 0.00 0.00 45.77 4.00
2395 2449 2.672961 TGAAAGATCGGCCTACACAG 57.327 50.000 0.00 0.00 0.00 3.66
2396 2450 2.499693 TCATGAAAGATCGGCCTACACA 59.500 45.455 0.00 0.00 0.00 3.72
2397 2451 3.179443 TCATGAAAGATCGGCCTACAC 57.821 47.619 0.00 0.00 0.00 2.90
2398 2452 4.129380 CAATCATGAAAGATCGGCCTACA 58.871 43.478 0.00 0.00 0.00 2.74
2399 2453 3.499918 CCAATCATGAAAGATCGGCCTAC 59.500 47.826 0.00 0.00 0.00 3.18
2400 2454 3.390967 TCCAATCATGAAAGATCGGCCTA 59.609 43.478 0.00 0.00 0.00 3.93
2401 2455 2.173356 TCCAATCATGAAAGATCGGCCT 59.827 45.455 0.00 0.00 0.00 5.19
2402 2456 2.551459 CTCCAATCATGAAAGATCGGCC 59.449 50.000 0.00 0.00 0.00 6.13
2403 2457 3.003068 CACTCCAATCATGAAAGATCGGC 59.997 47.826 0.00 0.00 0.00 5.54
2404 2458 3.562973 CCACTCCAATCATGAAAGATCGG 59.437 47.826 0.00 0.00 0.00 4.18
2405 2459 3.562973 CCCACTCCAATCATGAAAGATCG 59.437 47.826 0.00 0.00 0.00 3.69
2406 2460 4.785301 TCCCACTCCAATCATGAAAGATC 58.215 43.478 0.00 0.00 0.00 2.75
2407 2461 4.868172 TCCCACTCCAATCATGAAAGAT 57.132 40.909 0.00 0.00 0.00 2.40
2408 2462 4.385643 GGATCCCACTCCAATCATGAAAGA 60.386 45.833 0.00 0.00 35.24 2.52
2409 2463 3.887716 GGATCCCACTCCAATCATGAAAG 59.112 47.826 0.00 0.00 35.24 2.62
2410 2464 3.373001 GGGATCCCACTCCAATCATGAAA 60.373 47.826 26.95 0.00 37.01 2.69
2411 2465 2.175499 GGGATCCCACTCCAATCATGAA 59.825 50.000 26.95 0.00 37.01 2.57
2412 2466 1.776667 GGGATCCCACTCCAATCATGA 59.223 52.381 26.95 0.00 37.01 3.07
2413 2467 1.779092 AGGGATCCCACTCCAATCATG 59.221 52.381 32.69 0.00 37.01 3.07
2414 2468 2.061061 GAGGGATCCCACTCCAATCAT 58.939 52.381 32.69 7.63 37.01 2.45
2415 2469 1.511613 GAGGGATCCCACTCCAATCA 58.488 55.000 32.69 0.00 37.01 2.57
2416 2470 0.394565 CGAGGGATCCCACTCCAATC 59.605 60.000 32.69 17.69 37.01 2.67
2417 2471 0.031111 TCGAGGGATCCCACTCCAAT 60.031 55.000 32.69 10.13 37.01 3.16
2418 2472 0.252513 TTCGAGGGATCCCACTCCAA 60.253 55.000 32.69 14.29 37.01 3.53
2419 2473 0.687757 CTTCGAGGGATCCCACTCCA 60.688 60.000 32.69 8.47 37.01 3.86
2420 2474 0.397254 TCTTCGAGGGATCCCACTCC 60.397 60.000 32.69 16.55 38.92 3.85
2421 2475 1.137282 GTTCTTCGAGGGATCCCACTC 59.863 57.143 32.69 20.62 38.92 3.51
2422 2476 1.196012 GTTCTTCGAGGGATCCCACT 58.804 55.000 32.69 13.51 38.92 4.00
2423 2477 0.902531 TGTTCTTCGAGGGATCCCAC 59.097 55.000 32.69 25.23 38.92 4.61
2424 2478 0.902531 GTGTTCTTCGAGGGATCCCA 59.097 55.000 32.69 9.66 38.92 4.37
2425 2479 0.179108 CGTGTTCTTCGAGGGATCCC 60.179 60.000 24.59 24.59 0.00 3.85
2426 2480 0.815734 TCGTGTTCTTCGAGGGATCC 59.184 55.000 1.92 1.92 33.38 3.36
2427 2481 2.099263 TCATCGTGTTCTTCGAGGGATC 59.901 50.000 0.00 0.00 40.57 3.36
2428 2482 2.100197 TCATCGTGTTCTTCGAGGGAT 58.900 47.619 0.00 0.00 40.57 3.85
2429 2483 1.541379 TCATCGTGTTCTTCGAGGGA 58.459 50.000 0.00 0.00 40.57 4.20
2430 2484 1.993370 GTTCATCGTGTTCTTCGAGGG 59.007 52.381 0.00 0.00 40.57 4.30
2431 2485 2.408704 GTGTTCATCGTGTTCTTCGAGG 59.591 50.000 0.00 0.00 40.57 4.63
2432 2486 2.089121 CGTGTTCATCGTGTTCTTCGAG 59.911 50.000 0.00 0.00 40.57 4.04
2433 2487 2.048498 CGTGTTCATCGTGTTCTTCGA 58.952 47.619 0.00 0.00 41.45 3.71
2434 2488 1.124297 CCGTGTTCATCGTGTTCTTCG 59.876 52.381 0.00 0.00 0.00 3.79
2435 2489 1.459592 CCCGTGTTCATCGTGTTCTTC 59.540 52.381 0.00 0.00 0.00 2.87
2436 2490 1.508632 CCCGTGTTCATCGTGTTCTT 58.491 50.000 0.00 0.00 0.00 2.52
2437 2491 0.320421 CCCCGTGTTCATCGTGTTCT 60.320 55.000 0.00 0.00 0.00 3.01
2438 2492 0.320073 TCCCCGTGTTCATCGTGTTC 60.320 55.000 0.00 0.00 0.00 3.18
2439 2493 0.107081 TTCCCCGTGTTCATCGTGTT 59.893 50.000 0.00 0.00 0.00 3.32
2440 2494 1.749665 TTCCCCGTGTTCATCGTGT 59.250 52.632 0.00 0.00 0.00 4.49
2441 2495 4.685447 TTCCCCGTGTTCATCGTG 57.315 55.556 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.