Multiple sequence alignment - TraesCS5B01G134200

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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 TraesCS5B01G134200 chr5B 100.000 2273 0 0 1 2273 251344797 251342525 0.000000e+00 4198
1 TraesCS5B01G134200 chr5B 90.724 787 64 7 1488 2273 1415797 1415019 0.000000e+00 1040
2 TraesCS5B01G134200 chr5A 96.279 1290 39 4 203 1486 305562758 305561472 0.000000e+00 2108
3 TraesCS5B01G134200 chr5D 95.920 1299 43 6 198 1486 227737937 227736639 0.000000e+00 2097
4 TraesCS5B01G134200 chr5D 92.866 785 49 5 1486 2270 116029764 116030541 0.000000e+00 1133
5 TraesCS5B01G134200 chr5D 92.621 786 52 4 1488 2273 566052160 566051381 0.000000e+00 1125
6 TraesCS5B01G134200 chr1B 92.985 784 48 5 1488 2270 65709500 65710277 0.000000e+00 1136
7 TraesCS5B01G134200 chr1B 91.233 787 58 9 1488 2273 653037111 653037887 0.000000e+00 1061
8 TraesCS5B01G134200 chr7D 92.583 782 48 7 1492 2273 453186851 453186080 0.000000e+00 1114
9 TraesCS5B01G134200 chr2D 91.816 782 58 3 1489 2270 599458310 599459085 0.000000e+00 1085
10 TraesCS5B01G134200 chr2D 95.431 197 9 0 1 197 423310798 423310994 4.710000e-82 315
11 TraesCS5B01G134200 chr6D 91.549 781 60 5 1490 2270 321760774 321760000 0.000000e+00 1072
12 TraesCS5B01G134200 chr6A 90.458 786 68 5 1488 2273 105869822 105869044 0.000000e+00 1029
13 TraesCS5B01G134200 chr6A 93.939 198 12 0 1 198 613179335 613179532 1.320000e-77 300
14 TraesCS5B01G134200 chr6A 93.939 198 12 0 1 198 613206947 613207144 1.320000e-77 300
15 TraesCS5B01G134200 chr6B 94.527 201 10 1 1 201 623367125 623367324 2.190000e-80 309
16 TraesCS5B01G134200 chr3A 94.416 197 11 0 1 197 37805693 37805889 1.020000e-78 303
17 TraesCS5B01G134200 chr3A 78.846 208 35 5 1063 1261 716523785 716523578 5.090000e-27 132
18 TraesCS5B01G134200 chr2B 93.269 208 11 3 1 207 755633443 755633648 1.020000e-78 303
19 TraesCS5B01G134200 chr2B 94.388 196 11 0 1 196 18709877 18710072 3.670000e-78 302
20 TraesCS5B01G134200 chrUn 93.939 198 12 0 1 198 377021931 377022128 1.320000e-77 300
21 TraesCS5B01G134200 chr7A 93.909 197 12 0 1 197 33424664 33424860 4.750000e-77 298
22 TraesCS5B01G134200 chr3D 79.327 208 34 6 1063 1261 581548724 581548931 1.090000e-28 137
23 TraesCS5B01G134200 chr3B 78.846 208 35 5 1063 1261 776534544 776534337 5.090000e-27 132


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 TraesCS5B01G134200 chr5B 251342525 251344797 2272 True 4198 4198 100.000 1 2273 1 chr5B.!!$R2 2272
1 TraesCS5B01G134200 chr5B 1415019 1415797 778 True 1040 1040 90.724 1488 2273 1 chr5B.!!$R1 785
2 TraesCS5B01G134200 chr5A 305561472 305562758 1286 True 2108 2108 96.279 203 1486 1 chr5A.!!$R1 1283
3 TraesCS5B01G134200 chr5D 227736639 227737937 1298 True 2097 2097 95.920 198 1486 1 chr5D.!!$R1 1288
4 TraesCS5B01G134200 chr5D 116029764 116030541 777 False 1133 1133 92.866 1486 2270 1 chr5D.!!$F1 784
5 TraesCS5B01G134200 chr5D 566051381 566052160 779 True 1125 1125 92.621 1488 2273 1 chr5D.!!$R2 785
6 TraesCS5B01G134200 chr1B 65709500 65710277 777 False 1136 1136 92.985 1488 2270 1 chr1B.!!$F1 782
7 TraesCS5B01G134200 chr1B 653037111 653037887 776 False 1061 1061 91.233 1488 2273 1 chr1B.!!$F2 785
8 TraesCS5B01G134200 chr7D 453186080 453186851 771 True 1114 1114 92.583 1492 2273 1 chr7D.!!$R1 781
9 TraesCS5B01G134200 chr2D 599458310 599459085 775 False 1085 1085 91.816 1489 2270 1 chr2D.!!$F2 781
10 TraesCS5B01G134200 chr6D 321760000 321760774 774 True 1072 1072 91.549 1490 2270 1 chr6D.!!$R1 780
11 TraesCS5B01G134200 chr6A 105869044 105869822 778 True 1029 1029 90.458 1488 2273 1 chr6A.!!$R1 785

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
43 44 0.108089 TATTGCGCTTGCCCGTTAGA 60.108 50.0 9.73 0.0 38.03 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1693 1707 0.467384 GCTTCAGCTCTATCTGGCCA 59.533 55.0 4.71 4.71 38.21 5.36 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
30 31 6.432802 AAAGTCGTGAACAAATTTATTGCG 57.567 33.333 0.00 0.00 0.00 4.85
31 32 3.911964 AGTCGTGAACAAATTTATTGCGC 59.088 39.130 0.00 0.00 0.00 6.09
32 33 3.911964 GTCGTGAACAAATTTATTGCGCT 59.088 39.130 9.73 0.00 0.00 5.92
33 34 4.381566 GTCGTGAACAAATTTATTGCGCTT 59.618 37.500 9.73 0.00 0.00 4.68
34 35 4.381270 TCGTGAACAAATTTATTGCGCTTG 59.619 37.500 9.73 5.25 0.00 4.01
35 36 4.385379 GTGAACAAATTTATTGCGCTTGC 58.615 39.130 9.73 0.00 39.78 4.01
36 37 3.431572 TGAACAAATTTATTGCGCTTGCC 59.568 39.130 9.73 0.00 38.03 4.52
37 38 2.345876 ACAAATTTATTGCGCTTGCCC 58.654 42.857 9.73 0.00 38.03 5.36
38 39 1.324134 CAAATTTATTGCGCTTGCCCG 59.676 47.619 9.73 0.00 38.03 6.13
39 40 0.530288 AATTTATTGCGCTTGCCCGT 59.470 45.000 9.73 0.00 38.03 5.28
40 41 0.530288 ATTTATTGCGCTTGCCCGTT 59.470 45.000 9.73 0.00 38.03 4.44
41 42 1.166129 TTTATTGCGCTTGCCCGTTA 58.834 45.000 9.73 0.00 38.03 3.18
42 43 0.730265 TTATTGCGCTTGCCCGTTAG 59.270 50.000 9.73 0.00 38.03 2.34
43 44 0.108089 TATTGCGCTTGCCCGTTAGA 60.108 50.000 9.73 0.00 38.03 2.10
44 45 1.369091 ATTGCGCTTGCCCGTTAGAG 61.369 55.000 9.73 0.00 38.03 2.43
45 46 3.195698 GCGCTTGCCCGTTAGAGG 61.196 66.667 0.00 0.00 0.00 3.69
55 56 2.005971 CCGTTAGAGGGAGAAAACCG 57.994 55.000 0.00 0.00 0.00 4.44
56 57 1.405121 CCGTTAGAGGGAGAAAACCGG 60.405 57.143 0.00 0.00 0.00 5.28
57 58 1.405121 CGTTAGAGGGAGAAAACCGGG 60.405 57.143 6.32 0.00 0.00 5.73
58 59 0.616891 TTAGAGGGAGAAAACCGGGC 59.383 55.000 6.32 0.00 0.00 6.13
59 60 0.545787 TAGAGGGAGAAAACCGGGCA 60.546 55.000 6.32 0.00 0.00 5.36
60 61 1.377333 GAGGGAGAAAACCGGGCAG 60.377 63.158 6.32 0.00 0.00 4.85
61 62 3.062466 GGGAGAAAACCGGGCAGC 61.062 66.667 6.32 0.00 0.00 5.25
62 63 2.034221 GGAGAAAACCGGGCAGCT 59.966 61.111 6.32 0.00 0.00 4.24
63 64 2.335712 GGAGAAAACCGGGCAGCTG 61.336 63.158 10.11 10.11 0.00 4.24
64 65 2.282462 AGAAAACCGGGCAGCTGG 60.282 61.111 17.12 0.08 0.00 4.85
65 66 4.056125 GAAAACCGGGCAGCTGGC 62.056 66.667 30.97 30.97 43.74 4.85
74 75 4.704833 GCAGCTGGCCGGTTCAGA 62.705 66.667 24.44 0.00 36.11 3.27
75 76 2.270205 CAGCTGGCCGGTTCAGAT 59.730 61.111 24.44 18.19 34.36 2.90
76 77 2.110967 CAGCTGGCCGGTTCAGATG 61.111 63.158 23.24 23.24 41.28 2.90
77 78 2.268920 GCTGGCCGGTTCAGATGA 59.731 61.111 24.44 0.00 34.36 2.92
78 79 2.109126 GCTGGCCGGTTCAGATGAC 61.109 63.158 24.44 8.26 34.36 3.06
79 80 1.450312 CTGGCCGGTTCAGATGACC 60.450 63.158 18.14 1.88 34.36 4.02
80 81 1.903877 CTGGCCGGTTCAGATGACCT 61.904 60.000 18.14 0.00 34.36 3.85
81 82 1.450312 GGCCGGTTCAGATGACCTG 60.450 63.158 1.90 0.00 44.27 4.00
82 83 1.296715 GCCGGTTCAGATGACCTGT 59.703 57.895 1.90 0.00 43.38 4.00
83 84 1.021390 GCCGGTTCAGATGACCTGTG 61.021 60.000 1.90 0.00 43.38 3.66
84 85 0.321671 CCGGTTCAGATGACCTGTGT 59.678 55.000 0.00 0.00 43.38 3.72
85 86 1.432514 CGGTTCAGATGACCTGTGTG 58.567 55.000 0.00 0.00 43.38 3.82
86 87 1.000843 CGGTTCAGATGACCTGTGTGA 59.999 52.381 0.00 0.00 43.38 3.58
87 88 2.417719 GGTTCAGATGACCTGTGTGAC 58.582 52.381 0.00 0.00 43.38 3.67
88 89 2.417719 GTTCAGATGACCTGTGTGACC 58.582 52.381 0.00 0.00 43.38 4.02
89 90 2.015456 TCAGATGACCTGTGTGACCT 57.985 50.000 0.00 0.00 43.38 3.85
90 91 3.169512 TCAGATGACCTGTGTGACCTA 57.830 47.619 0.00 0.00 43.38 3.08
91 92 3.713003 TCAGATGACCTGTGTGACCTAT 58.287 45.455 0.00 0.00 43.38 2.57
92 93 3.701542 TCAGATGACCTGTGTGACCTATC 59.298 47.826 0.00 0.00 43.38 2.08
93 94 3.703556 CAGATGACCTGTGTGACCTATCT 59.296 47.826 0.00 0.00 38.10 1.98
94 95 3.703556 AGATGACCTGTGTGACCTATCTG 59.296 47.826 0.00 0.00 0.00 2.90
95 96 1.550524 TGACCTGTGTGACCTATCTGC 59.449 52.381 0.00 0.00 0.00 4.26
96 97 1.550524 GACCTGTGTGACCTATCTGCA 59.449 52.381 0.00 0.00 0.00 4.41
97 98 1.276421 ACCTGTGTGACCTATCTGCAC 59.724 52.381 0.00 0.00 34.32 4.57
98 99 1.406069 CCTGTGTGACCTATCTGCACC 60.406 57.143 0.00 0.00 33.43 5.01
99 100 0.613260 TGTGTGACCTATCTGCACCC 59.387 55.000 0.00 0.00 33.43 4.61
100 101 0.613260 GTGTGACCTATCTGCACCCA 59.387 55.000 0.00 0.00 0.00 4.51
101 102 1.210478 GTGTGACCTATCTGCACCCAT 59.790 52.381 0.00 0.00 0.00 4.00
102 103 2.434336 GTGTGACCTATCTGCACCCATA 59.566 50.000 0.00 0.00 0.00 2.74
103 104 3.111484 TGTGACCTATCTGCACCCATAA 58.889 45.455 0.00 0.00 0.00 1.90
104 105 3.716353 TGTGACCTATCTGCACCCATAAT 59.284 43.478 0.00 0.00 0.00 1.28
105 106 4.067896 GTGACCTATCTGCACCCATAATG 58.932 47.826 0.00 0.00 0.00 1.90
106 107 3.716353 TGACCTATCTGCACCCATAATGT 59.284 43.478 0.00 0.00 0.00 2.71
107 108 4.904853 TGACCTATCTGCACCCATAATGTA 59.095 41.667 0.00 0.00 0.00 2.29
108 109 5.368230 TGACCTATCTGCACCCATAATGTAA 59.632 40.000 0.00 0.00 0.00 2.41
109 110 5.869579 ACCTATCTGCACCCATAATGTAAG 58.130 41.667 0.00 0.00 0.00 2.34
110 111 5.369699 ACCTATCTGCACCCATAATGTAAGT 59.630 40.000 0.00 0.00 0.00 2.24
111 112 6.126478 ACCTATCTGCACCCATAATGTAAGTT 60.126 38.462 0.00 0.00 0.00 2.66
112 113 6.428159 CCTATCTGCACCCATAATGTAAGTTC 59.572 42.308 0.00 0.00 0.00 3.01
113 114 5.435686 TCTGCACCCATAATGTAAGTTCT 57.564 39.130 0.00 0.00 0.00 3.01
114 115 6.553953 TCTGCACCCATAATGTAAGTTCTA 57.446 37.500 0.00 0.00 0.00 2.10
115 116 7.136822 TCTGCACCCATAATGTAAGTTCTAT 57.863 36.000 0.00 0.00 0.00 1.98
116 117 6.992123 TCTGCACCCATAATGTAAGTTCTATG 59.008 38.462 0.00 0.00 0.00 2.23
117 118 6.894682 TGCACCCATAATGTAAGTTCTATGA 58.105 36.000 0.00 0.00 0.00 2.15
118 119 7.517320 TGCACCCATAATGTAAGTTCTATGAT 58.483 34.615 0.00 0.00 0.00 2.45
119 120 7.445096 TGCACCCATAATGTAAGTTCTATGATG 59.555 37.037 0.00 0.00 0.00 3.07
120 121 7.661437 GCACCCATAATGTAAGTTCTATGATGA 59.339 37.037 0.00 0.00 0.00 2.92
121 122 9.212641 CACCCATAATGTAAGTTCTATGATGAG 57.787 37.037 0.00 0.00 0.00 2.90
122 123 8.938883 ACCCATAATGTAAGTTCTATGATGAGT 58.061 33.333 0.00 0.00 0.00 3.41
123 124 9.784531 CCCATAATGTAAGTTCTATGATGAGTT 57.215 33.333 0.00 0.00 0.00 3.01
129 130 9.739276 ATGTAAGTTCTATGATGAGTTTTTCCA 57.261 29.630 0.00 0.00 0.00 3.53
130 131 9.219603 TGTAAGTTCTATGATGAGTTTTTCCAG 57.780 33.333 0.00 0.00 0.00 3.86
131 132 9.220767 GTAAGTTCTATGATGAGTTTTTCCAGT 57.779 33.333 0.00 0.00 0.00 4.00
132 133 8.697507 AAGTTCTATGATGAGTTTTTCCAGTT 57.302 30.769 0.00 0.00 0.00 3.16
133 134 8.697507 AGTTCTATGATGAGTTTTTCCAGTTT 57.302 30.769 0.00 0.00 0.00 2.66
134 135 8.571336 AGTTCTATGATGAGTTTTTCCAGTTTG 58.429 33.333 0.00 0.00 0.00 2.93
135 136 6.913170 TCTATGATGAGTTTTTCCAGTTTGC 58.087 36.000 0.00 0.00 0.00 3.68
136 137 4.998671 TGATGAGTTTTTCCAGTTTGCA 57.001 36.364 0.00 0.00 0.00 4.08
137 138 5.336150 TGATGAGTTTTTCCAGTTTGCAA 57.664 34.783 0.00 0.00 0.00 4.08
138 139 5.350633 TGATGAGTTTTTCCAGTTTGCAAG 58.649 37.500 0.00 0.00 0.00 4.01
139 140 4.799564 TGAGTTTTTCCAGTTTGCAAGT 57.200 36.364 0.00 0.00 0.00 3.16
140 141 5.906113 TGAGTTTTTCCAGTTTGCAAGTA 57.094 34.783 0.00 0.00 0.00 2.24
141 142 5.646606 TGAGTTTTTCCAGTTTGCAAGTAC 58.353 37.500 0.00 0.00 0.00 2.73
142 143 5.006153 AGTTTTTCCAGTTTGCAAGTACC 57.994 39.130 0.00 0.00 0.00 3.34
143 144 3.701532 TTTTCCAGTTTGCAAGTACCG 57.298 42.857 0.00 0.00 0.00 4.02
144 145 2.335316 TTCCAGTTTGCAAGTACCGT 57.665 45.000 0.00 0.00 0.00 4.83
145 146 1.588674 TCCAGTTTGCAAGTACCGTG 58.411 50.000 0.00 0.00 0.00 4.94
146 147 1.139256 TCCAGTTTGCAAGTACCGTGA 59.861 47.619 0.00 0.00 0.00 4.35
147 148 1.263217 CCAGTTTGCAAGTACCGTGAC 59.737 52.381 0.00 0.00 0.00 3.67
148 149 2.210116 CAGTTTGCAAGTACCGTGACT 58.790 47.619 0.00 0.00 0.00 3.41
149 150 2.612212 CAGTTTGCAAGTACCGTGACTT 59.388 45.455 0.00 0.00 40.35 3.01
150 151 3.805422 CAGTTTGCAAGTACCGTGACTTA 59.195 43.478 0.00 0.00 37.57 2.24
151 152 4.271533 CAGTTTGCAAGTACCGTGACTTAA 59.728 41.667 0.00 0.00 37.57 1.85
152 153 4.510340 AGTTTGCAAGTACCGTGACTTAAG 59.490 41.667 0.00 0.00 37.57 1.85
153 154 3.738830 TGCAAGTACCGTGACTTAAGT 57.261 42.857 8.13 8.13 37.57 2.24
154 155 3.386486 TGCAAGTACCGTGACTTAAGTG 58.614 45.455 14.14 0.54 37.57 3.16
155 156 2.157085 GCAAGTACCGTGACTTAAGTGC 59.843 50.000 14.14 4.81 37.57 4.40
156 157 3.386486 CAAGTACCGTGACTTAAGTGCA 58.614 45.455 14.14 8.16 37.57 4.57
157 158 3.022607 AGTACCGTGACTTAAGTGCAC 57.977 47.619 14.14 17.85 0.00 4.57
158 159 2.064014 GTACCGTGACTTAAGTGCACC 58.936 52.381 14.14 0.00 0.00 5.01
159 160 0.250166 ACCGTGACTTAAGTGCACCC 60.250 55.000 14.14 0.00 0.00 4.61
160 161 1.289109 CCGTGACTTAAGTGCACCCG 61.289 60.000 14.14 10.83 0.00 5.28
161 162 1.866925 GTGACTTAAGTGCACCCGC 59.133 57.895 14.14 0.71 39.24 6.13
172 173 4.389576 CACCCGCAGCGCAAGTTC 62.390 66.667 11.47 0.00 41.68 3.01
173 174 4.626081 ACCCGCAGCGCAAGTTCT 62.626 61.111 11.47 0.00 41.68 3.01
174 175 3.793144 CCCGCAGCGCAAGTTCTC 61.793 66.667 11.47 0.00 41.68 2.87
175 176 4.139420 CCGCAGCGCAAGTTCTCG 62.139 66.667 11.47 1.47 41.68 4.04
176 177 4.139420 CGCAGCGCAAGTTCTCGG 62.139 66.667 11.47 0.00 41.68 4.63
177 178 2.738521 GCAGCGCAAGTTCTCGGA 60.739 61.111 11.47 0.00 41.68 4.55
178 179 3.016474 GCAGCGCAAGTTCTCGGAC 62.016 63.158 11.47 0.00 41.68 4.79
179 180 2.048127 AGCGCAAGTTCTCGGACC 60.048 61.111 11.47 0.00 41.68 4.46
180 181 3.479269 GCGCAAGTTCTCGGACCG 61.479 66.667 7.84 7.84 41.68 4.79
181 182 3.479269 CGCAAGTTCTCGGACCGC 61.479 66.667 9.66 0.00 0.00 5.68
182 183 3.119096 GCAAGTTCTCGGACCGCC 61.119 66.667 9.66 0.00 0.00 6.13
183 184 2.342279 CAAGTTCTCGGACCGCCA 59.658 61.111 9.66 0.00 0.00 5.69
184 185 1.738099 CAAGTTCTCGGACCGCCAG 60.738 63.158 9.66 2.10 0.00 4.85
185 186 2.207924 AAGTTCTCGGACCGCCAGT 61.208 57.895 9.66 0.00 0.00 4.00
186 187 2.432628 GTTCTCGGACCGCCAGTG 60.433 66.667 9.66 0.00 0.00 3.66
187 188 4.373116 TTCTCGGACCGCCAGTGC 62.373 66.667 9.66 0.00 0.00 4.40
192 193 2.676471 GGACCGCCAGTGCCATTT 60.676 61.111 0.00 0.00 0.00 2.32
193 194 1.377987 GGACCGCCAGTGCCATTTA 60.378 57.895 0.00 0.00 0.00 1.40
194 195 1.654023 GGACCGCCAGTGCCATTTAC 61.654 60.000 0.00 0.00 0.00 2.01
195 196 0.676782 GACCGCCAGTGCCATTTACT 60.677 55.000 0.00 0.00 0.00 2.24
196 197 0.676782 ACCGCCAGTGCCATTTACTC 60.677 55.000 0.00 0.00 0.00 2.59
201 202 1.131126 CCAGTGCCATTTACTCGCAAG 59.869 52.381 0.00 0.00 33.57 4.01
335 344 5.764686 AGAGTTTGCATGATTAGTGTTGTCA 59.235 36.000 0.00 0.00 0.00 3.58
484 494 4.483476 AGTAGGTTTCATGCAAACGAAC 57.517 40.909 0.00 11.75 44.90 3.95
495 505 1.924629 GCAAACGAACGAAAGAAGCCC 60.925 52.381 0.14 0.00 0.00 5.19
672 682 1.955458 ATCCCCGCCTTCCTCTCTCT 61.955 60.000 0.00 0.00 0.00 3.10
1280 1291 1.608093 CTTGCGCCGTGAATTGTTGC 61.608 55.000 4.18 0.00 0.00 4.17
1442 1453 1.156736 CACGACGAAGAGGCCAAAAT 58.843 50.000 5.01 0.00 0.00 1.82
1478 1489 4.358851 TGTTTGATTTGCAACTTTCTCCG 58.641 39.130 0.00 0.00 35.91 4.63
1497 1508 3.702548 TCCGAAACATCCCTCGAAATAGA 59.297 43.478 0.00 0.00 37.23 1.98
1516 1527 2.093341 AGACTTTCGCCCCGCTTTATAA 60.093 45.455 0.00 0.00 0.00 0.98
1521 1532 5.008316 ACTTTCGCCCCGCTTTATAAATAAG 59.992 40.000 0.00 0.00 0.00 1.73
1532 1543 7.013529 CGCTTTATAAATAAGGCATACGTTCC 58.986 38.462 14.71 0.00 43.15 3.62
1533 1544 7.095355 CGCTTTATAAATAAGGCATACGTTCCT 60.095 37.037 14.71 0.00 43.15 3.36
1534 1545 9.211485 GCTTTATAAATAAGGCATACGTTCCTA 57.789 33.333 10.85 0.00 42.70 2.94
1538 1549 6.673154 AAATAAGGCATACGTTCCTACAAC 57.327 37.500 0.00 0.00 31.24 3.32
1545 1556 5.166398 GCATACGTTCCTACAACTACAACT 58.834 41.667 0.00 0.00 0.00 3.16
1550 1561 6.809869 ACGTTCCTACAACTACAACTAAGTT 58.190 36.000 0.00 0.00 37.67 2.66
1582 1593 5.977489 ACCATAAAAGAAAACTACTGGGC 57.023 39.130 0.00 0.00 0.00 5.36
1693 1707 1.005630 GCGTGGAAGACAGCAGAGT 60.006 57.895 0.00 0.00 0.00 3.24
1830 1844 4.035558 GCTCAATCACCATCTTATTGCGAA 59.964 41.667 0.00 0.00 31.98 4.70
1841 1855 6.260936 CCATCTTATTGCGAATAGTCCAAAGT 59.739 38.462 0.00 0.00 0.00 2.66
1921 1935 1.547901 GGCCCTTACCTGCAGAAACTT 60.548 52.381 17.39 0.00 0.00 2.66
1993 2007 1.171308 CAAAGTGCCTGTGCTGCTAT 58.829 50.000 0.00 0.00 38.71 2.97
2013 2027 5.390461 GCTATACACGAGAACAAAATGTGCA 60.390 40.000 0.00 0.00 33.96 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 8.473016 CGCAATAAATTTGTTCACGACTTTAAA 58.527 29.630 11.80 0.00 0.00 1.52
5 6 7.357695 GCGCAATAAATTTGTTCACGACTTTAA 60.358 33.333 18.08 0.00 0.00 1.52
6 7 6.087028 GCGCAATAAATTTGTTCACGACTTTA 59.913 34.615 18.08 0.00 0.00 1.85
7 8 5.108027 GCGCAATAAATTTGTTCACGACTTT 60.108 36.000 18.08 0.00 0.00 2.66
8 9 4.381566 GCGCAATAAATTTGTTCACGACTT 59.618 37.500 18.08 0.00 0.00 3.01
9 10 3.911964 GCGCAATAAATTTGTTCACGACT 59.088 39.130 18.08 0.00 0.00 4.18
10 11 3.911964 AGCGCAATAAATTTGTTCACGAC 59.088 39.130 11.47 11.69 0.00 4.34
11 12 4.153958 AGCGCAATAAATTTGTTCACGA 57.846 36.364 11.47 0.00 0.00 4.35
12 13 4.617328 CAAGCGCAATAAATTTGTTCACG 58.383 39.130 11.47 12.51 0.00 4.35
13 14 4.385379 GCAAGCGCAATAAATTTGTTCAC 58.615 39.130 11.47 0.00 38.36 3.18
14 15 3.431572 GGCAAGCGCAATAAATTTGTTCA 59.568 39.130 11.47 0.00 41.24 3.18
15 16 3.181521 GGGCAAGCGCAATAAATTTGTTC 60.182 43.478 11.47 0.63 41.24 3.18
16 17 2.741517 GGGCAAGCGCAATAAATTTGTT 59.258 40.909 11.47 0.00 41.24 2.83
17 18 2.345876 GGGCAAGCGCAATAAATTTGT 58.654 42.857 11.47 0.00 41.24 2.83
18 19 1.324134 CGGGCAAGCGCAATAAATTTG 59.676 47.619 11.47 4.32 41.24 2.32
19 20 1.067213 ACGGGCAAGCGCAATAAATTT 60.067 42.857 11.47 0.00 41.24 1.82
20 21 0.530288 ACGGGCAAGCGCAATAAATT 59.470 45.000 11.47 0.00 41.24 1.82
21 22 0.530288 AACGGGCAAGCGCAATAAAT 59.470 45.000 11.47 0.00 41.24 1.40
22 23 1.131504 CTAACGGGCAAGCGCAATAAA 59.868 47.619 11.47 0.00 41.24 1.40
23 24 0.730265 CTAACGGGCAAGCGCAATAA 59.270 50.000 11.47 0.00 41.24 1.40
24 25 0.108089 TCTAACGGGCAAGCGCAATA 60.108 50.000 11.47 1.13 41.24 1.90
25 26 1.369091 CTCTAACGGGCAAGCGCAAT 61.369 55.000 11.47 0.00 41.24 3.56
26 27 2.031314 TCTAACGGGCAAGCGCAA 59.969 55.556 11.47 0.00 41.24 4.85
27 28 2.434185 CTCTAACGGGCAAGCGCA 60.434 61.111 11.47 0.00 41.24 6.09
28 29 3.195698 CCTCTAACGGGCAAGCGC 61.196 66.667 0.00 0.00 37.44 5.92
29 30 2.511600 CCCTCTAACGGGCAAGCG 60.512 66.667 0.00 0.00 37.41 4.68
30 31 1.153349 CTCCCTCTAACGGGCAAGC 60.153 63.158 0.00 0.00 44.30 4.01
31 32 0.902531 TTCTCCCTCTAACGGGCAAG 59.097 55.000 0.00 0.00 44.30 4.01
32 33 1.354101 TTTCTCCCTCTAACGGGCAA 58.646 50.000 0.00 0.00 44.30 4.52
33 34 1.002773 GTTTTCTCCCTCTAACGGGCA 59.997 52.381 0.00 0.00 44.30 5.36
34 35 1.678123 GGTTTTCTCCCTCTAACGGGC 60.678 57.143 0.00 0.00 44.30 6.13
35 36 1.405121 CGGTTTTCTCCCTCTAACGGG 60.405 57.143 0.00 0.00 46.13 5.28
36 37 1.405121 CCGGTTTTCTCCCTCTAACGG 60.405 57.143 0.00 0.00 0.00 4.44
37 38 1.405121 CCCGGTTTTCTCCCTCTAACG 60.405 57.143 0.00 0.00 0.00 3.18
38 39 1.678123 GCCCGGTTTTCTCCCTCTAAC 60.678 57.143 0.00 0.00 0.00 2.34
39 40 0.616891 GCCCGGTTTTCTCCCTCTAA 59.383 55.000 0.00 0.00 0.00 2.10
40 41 0.545787 TGCCCGGTTTTCTCCCTCTA 60.546 55.000 0.00 0.00 0.00 2.43
41 42 1.842381 CTGCCCGGTTTTCTCCCTCT 61.842 60.000 0.00 0.00 0.00 3.69
42 43 1.377333 CTGCCCGGTTTTCTCCCTC 60.377 63.158 0.00 0.00 0.00 4.30
43 44 2.757077 CTGCCCGGTTTTCTCCCT 59.243 61.111 0.00 0.00 0.00 4.20
44 45 3.062466 GCTGCCCGGTTTTCTCCC 61.062 66.667 0.00 0.00 0.00 4.30
45 46 2.034221 AGCTGCCCGGTTTTCTCC 59.966 61.111 0.00 0.00 0.00 3.71
46 47 2.335712 CCAGCTGCCCGGTTTTCTC 61.336 63.158 8.66 0.00 0.00 2.87
47 48 2.282462 CCAGCTGCCCGGTTTTCT 60.282 61.111 8.66 0.00 0.00 2.52
48 49 4.056125 GCCAGCTGCCCGGTTTTC 62.056 66.667 8.66 0.00 0.00 2.29
57 58 3.984193 ATCTGAACCGGCCAGCTGC 62.984 63.158 17.03 3.68 40.16 5.25
58 59 2.110967 CATCTGAACCGGCCAGCTG 61.111 63.158 17.03 6.78 0.00 4.24
59 60 2.270205 CATCTGAACCGGCCAGCT 59.730 61.111 17.03 7.18 0.00 4.24
60 61 2.109126 GTCATCTGAACCGGCCAGC 61.109 63.158 17.03 2.72 0.00 4.85
61 62 1.450312 GGTCATCTGAACCGGCCAG 60.450 63.158 16.02 16.02 0.00 4.85
62 63 1.918293 AGGTCATCTGAACCGGCCA 60.918 57.895 0.00 0.00 30.36 5.36
63 64 1.450312 CAGGTCATCTGAACCGGCC 60.450 63.158 0.00 0.00 46.18 6.13
64 65 1.021390 CACAGGTCATCTGAACCGGC 61.021 60.000 0.00 0.00 46.18 6.13
65 66 0.321671 ACACAGGTCATCTGAACCGG 59.678 55.000 0.00 0.00 46.18 5.28
66 67 1.000843 TCACACAGGTCATCTGAACCG 59.999 52.381 0.00 0.00 46.18 4.44
67 68 2.417719 GTCACACAGGTCATCTGAACC 58.582 52.381 0.00 0.00 46.18 3.62
68 69 2.037772 AGGTCACACAGGTCATCTGAAC 59.962 50.000 0.00 0.00 46.18 3.18
69 70 2.329267 AGGTCACACAGGTCATCTGAA 58.671 47.619 0.00 0.00 46.18 3.02
70 71 2.015456 AGGTCACACAGGTCATCTGA 57.985 50.000 0.00 0.00 46.18 3.27
72 73 3.703556 CAGATAGGTCACACAGGTCATCT 59.296 47.826 0.00 0.00 0.00 2.90
73 74 3.739519 GCAGATAGGTCACACAGGTCATC 60.740 52.174 0.00 0.00 0.00 2.92
74 75 2.169352 GCAGATAGGTCACACAGGTCAT 59.831 50.000 0.00 0.00 0.00 3.06
75 76 1.550524 GCAGATAGGTCACACAGGTCA 59.449 52.381 0.00 0.00 0.00 4.02
76 77 1.550524 TGCAGATAGGTCACACAGGTC 59.449 52.381 0.00 0.00 0.00 3.85
77 78 1.276421 GTGCAGATAGGTCACACAGGT 59.724 52.381 0.00 0.00 35.17 4.00
78 79 1.406069 GGTGCAGATAGGTCACACAGG 60.406 57.143 0.00 0.00 36.16 4.00
79 80 1.406069 GGGTGCAGATAGGTCACACAG 60.406 57.143 0.00 0.00 36.16 3.66
80 81 0.613260 GGGTGCAGATAGGTCACACA 59.387 55.000 0.00 0.00 36.16 3.72
81 82 0.613260 TGGGTGCAGATAGGTCACAC 59.387 55.000 0.00 0.00 34.87 3.82
82 83 1.583556 ATGGGTGCAGATAGGTCACA 58.416 50.000 0.00 0.00 32.69 3.58
83 84 3.838244 TTATGGGTGCAGATAGGTCAC 57.162 47.619 0.00 0.00 0.00 3.67
84 85 3.716353 ACATTATGGGTGCAGATAGGTCA 59.284 43.478 0.00 0.00 0.00 4.02
85 86 4.357918 ACATTATGGGTGCAGATAGGTC 57.642 45.455 0.00 0.00 0.00 3.85
86 87 5.369699 ACTTACATTATGGGTGCAGATAGGT 59.630 40.000 0.00 0.00 0.00 3.08
87 88 5.869579 ACTTACATTATGGGTGCAGATAGG 58.130 41.667 0.00 0.00 0.00 2.57
88 89 7.220030 AGAACTTACATTATGGGTGCAGATAG 58.780 38.462 0.00 0.00 0.00 2.08
89 90 7.136822 AGAACTTACATTATGGGTGCAGATA 57.863 36.000 0.00 0.00 0.00 1.98
90 91 6.006275 AGAACTTACATTATGGGTGCAGAT 57.994 37.500 0.00 0.00 0.00 2.90
91 92 5.435686 AGAACTTACATTATGGGTGCAGA 57.564 39.130 0.00 0.00 0.00 4.26
92 93 6.992123 TCATAGAACTTACATTATGGGTGCAG 59.008 38.462 0.00 0.00 0.00 4.41
93 94 6.894682 TCATAGAACTTACATTATGGGTGCA 58.105 36.000 0.00 0.00 0.00 4.57
94 95 7.661437 TCATCATAGAACTTACATTATGGGTGC 59.339 37.037 0.00 0.00 0.00 5.01
95 96 9.212641 CTCATCATAGAACTTACATTATGGGTG 57.787 37.037 0.00 0.00 0.00 4.61
96 97 8.938883 ACTCATCATAGAACTTACATTATGGGT 58.061 33.333 0.00 0.00 0.00 4.51
97 98 9.784531 AACTCATCATAGAACTTACATTATGGG 57.215 33.333 0.00 0.00 0.00 4.00
103 104 9.739276 TGGAAAAACTCATCATAGAACTTACAT 57.261 29.630 0.00 0.00 0.00 2.29
104 105 9.219603 CTGGAAAAACTCATCATAGAACTTACA 57.780 33.333 0.00 0.00 0.00 2.41
105 106 9.220767 ACTGGAAAAACTCATCATAGAACTTAC 57.779 33.333 0.00 0.00 0.00 2.34
106 107 9.793259 AACTGGAAAAACTCATCATAGAACTTA 57.207 29.630 0.00 0.00 0.00 2.24
107 108 8.697507 AACTGGAAAAACTCATCATAGAACTT 57.302 30.769 0.00 0.00 0.00 2.66
108 109 8.571336 CAAACTGGAAAAACTCATCATAGAACT 58.429 33.333 0.00 0.00 0.00 3.01
109 110 7.327032 GCAAACTGGAAAAACTCATCATAGAAC 59.673 37.037 0.00 0.00 0.00 3.01
110 111 7.014134 TGCAAACTGGAAAAACTCATCATAGAA 59.986 33.333 0.00 0.00 0.00 2.10
111 112 6.489700 TGCAAACTGGAAAAACTCATCATAGA 59.510 34.615 0.00 0.00 0.00 1.98
112 113 6.680810 TGCAAACTGGAAAAACTCATCATAG 58.319 36.000 0.00 0.00 0.00 2.23
113 114 6.647334 TGCAAACTGGAAAAACTCATCATA 57.353 33.333 0.00 0.00 0.00 2.15
114 115 5.534207 TGCAAACTGGAAAAACTCATCAT 57.466 34.783 0.00 0.00 0.00 2.45
115 116 4.998671 TGCAAACTGGAAAAACTCATCA 57.001 36.364 0.00 0.00 0.00 3.07
116 117 5.351458 ACTTGCAAACTGGAAAAACTCATC 58.649 37.500 0.00 0.00 0.00 2.92
117 118 5.343307 ACTTGCAAACTGGAAAAACTCAT 57.657 34.783 0.00 0.00 0.00 2.90
118 119 4.799564 ACTTGCAAACTGGAAAAACTCA 57.200 36.364 0.00 0.00 0.00 3.41
119 120 5.041287 GGTACTTGCAAACTGGAAAAACTC 58.959 41.667 0.00 0.00 0.00 3.01
120 121 4.439563 CGGTACTTGCAAACTGGAAAAACT 60.440 41.667 0.00 0.00 0.00 2.66
121 122 3.794564 CGGTACTTGCAAACTGGAAAAAC 59.205 43.478 0.00 0.00 0.00 2.43
122 123 3.444388 ACGGTACTTGCAAACTGGAAAAA 59.556 39.130 13.35 0.00 0.00 1.94
123 124 3.018149 ACGGTACTTGCAAACTGGAAAA 58.982 40.909 13.35 0.00 0.00 2.29
124 125 2.356382 CACGGTACTTGCAAACTGGAAA 59.644 45.455 13.35 0.00 0.00 3.13
125 126 1.944024 CACGGTACTTGCAAACTGGAA 59.056 47.619 13.35 0.00 0.00 3.53
126 127 1.139256 TCACGGTACTTGCAAACTGGA 59.861 47.619 13.35 6.24 0.00 3.86
127 128 1.263217 GTCACGGTACTTGCAAACTGG 59.737 52.381 13.35 0.00 0.00 4.00
128 129 2.210116 AGTCACGGTACTTGCAAACTG 58.790 47.619 8.29 8.29 0.00 3.16
129 130 2.614829 AGTCACGGTACTTGCAAACT 57.385 45.000 0.00 0.00 0.00 2.66
130 131 4.271776 ACTTAAGTCACGGTACTTGCAAAC 59.728 41.667 1.12 0.00 39.95 2.93
131 132 4.271533 CACTTAAGTCACGGTACTTGCAAA 59.728 41.667 4.77 1.76 39.95 3.68
132 133 3.805422 CACTTAAGTCACGGTACTTGCAA 59.195 43.478 4.77 0.00 39.95 4.08
133 134 3.386486 CACTTAAGTCACGGTACTTGCA 58.614 45.455 4.77 0.00 39.95 4.08
134 135 2.157085 GCACTTAAGTCACGGTACTTGC 59.843 50.000 4.77 0.00 39.95 4.01
135 136 3.183775 GTGCACTTAAGTCACGGTACTTG 59.816 47.826 10.32 2.56 39.95 3.16
136 137 3.387397 GTGCACTTAAGTCACGGTACTT 58.613 45.455 10.32 9.27 42.31 2.24
137 138 2.288640 GGTGCACTTAAGTCACGGTACT 60.289 50.000 17.98 0.00 31.50 2.73
138 139 2.064014 GGTGCACTTAAGTCACGGTAC 58.936 52.381 17.98 14.00 31.50 3.34
139 140 1.001181 GGGTGCACTTAAGTCACGGTA 59.999 52.381 17.98 5.20 31.50 4.02
140 141 0.250166 GGGTGCACTTAAGTCACGGT 60.250 55.000 17.98 0.00 31.50 4.83
141 142 1.289109 CGGGTGCACTTAAGTCACGG 61.289 60.000 17.98 15.80 31.50 4.94
142 143 1.897398 GCGGGTGCACTTAAGTCACG 61.897 60.000 17.98 17.45 42.15 4.35
143 144 1.866925 GCGGGTGCACTTAAGTCAC 59.133 57.895 17.98 20.73 42.15 3.67
144 145 4.371975 GCGGGTGCACTTAAGTCA 57.628 55.556 17.98 4.49 42.15 3.41
155 156 4.389576 GAACTTGCGCTGCGGGTG 62.390 66.667 24.61 0.00 0.00 4.61
156 157 4.626081 AGAACTTGCGCTGCGGGT 62.626 61.111 24.61 5.48 0.00 5.28
157 158 3.793144 GAGAACTTGCGCTGCGGG 61.793 66.667 24.61 0.00 0.00 6.13
158 159 4.139420 CGAGAACTTGCGCTGCGG 62.139 66.667 24.61 9.75 0.00 5.69
159 160 4.139420 CCGAGAACTTGCGCTGCG 62.139 66.667 19.17 19.17 0.00 5.18
160 161 2.738521 TCCGAGAACTTGCGCTGC 60.739 61.111 9.73 0.00 0.00 5.25
161 162 2.383527 GGTCCGAGAACTTGCGCTG 61.384 63.158 9.73 3.92 0.00 5.18
162 163 2.048127 GGTCCGAGAACTTGCGCT 60.048 61.111 9.73 0.00 0.00 5.92
163 164 3.479269 CGGTCCGAGAACTTGCGC 61.479 66.667 4.91 0.00 0.00 6.09
164 165 3.479269 GCGGTCCGAGAACTTGCG 61.479 66.667 17.49 0.00 0.00 4.85
165 166 3.119096 GGCGGTCCGAGAACTTGC 61.119 66.667 17.49 0.00 0.00 4.01
166 167 1.738099 CTGGCGGTCCGAGAACTTG 60.738 63.158 17.49 0.00 34.14 3.16
167 168 2.207924 ACTGGCGGTCCGAGAACTT 61.208 57.895 17.49 0.00 34.14 2.66
168 169 2.600769 ACTGGCGGTCCGAGAACT 60.601 61.111 17.49 0.00 34.14 3.01
169 170 2.432628 CACTGGCGGTCCGAGAAC 60.433 66.667 17.49 1.92 34.14 3.01
170 171 4.373116 GCACTGGCGGTCCGAGAA 62.373 66.667 17.49 0.00 34.14 2.87
175 176 1.377987 TAAATGGCACTGGCGGTCC 60.378 57.895 0.00 1.78 42.47 4.46
176 177 0.676782 AGTAAATGGCACTGGCGGTC 60.677 55.000 0.00 0.00 42.47 4.79
177 178 0.676782 GAGTAAATGGCACTGGCGGT 60.677 55.000 0.00 0.00 42.47 5.68
178 179 1.705337 CGAGTAAATGGCACTGGCGG 61.705 60.000 0.00 0.00 42.47 6.13
179 180 1.715585 CGAGTAAATGGCACTGGCG 59.284 57.895 0.00 0.00 42.47 5.69
180 181 1.305219 TGCGAGTAAATGGCACTGGC 61.305 55.000 0.00 0.00 44.97 4.85
181 182 1.131126 CTTGCGAGTAAATGGCACTGG 59.869 52.381 0.00 0.00 42.92 4.00
182 183 2.076100 TCTTGCGAGTAAATGGCACTG 58.924 47.619 0.00 0.00 42.92 3.66
183 184 2.472695 TCTTGCGAGTAAATGGCACT 57.527 45.000 0.00 0.00 42.92 4.40
184 185 3.552604 TTTCTTGCGAGTAAATGGCAC 57.447 42.857 0.00 0.00 42.92 5.01
185 186 3.305064 GGTTTTCTTGCGAGTAAATGGCA 60.305 43.478 8.78 0.00 41.35 4.92
186 187 3.242518 GGTTTTCTTGCGAGTAAATGGC 58.757 45.455 8.78 0.00 0.00 4.40
187 188 3.506067 AGGGTTTTCTTGCGAGTAAATGG 59.494 43.478 8.78 0.00 0.00 3.16
188 189 4.766404 AGGGTTTTCTTGCGAGTAAATG 57.234 40.909 8.78 0.00 0.00 2.32
189 190 5.557866 ACTAGGGTTTTCTTGCGAGTAAAT 58.442 37.500 8.78 0.00 0.00 1.40
190 191 4.964593 ACTAGGGTTTTCTTGCGAGTAAA 58.035 39.130 0.00 0.84 0.00 2.01
191 192 4.612264 ACTAGGGTTTTCTTGCGAGTAA 57.388 40.909 0.00 0.00 0.00 2.24
192 193 4.312443 CAACTAGGGTTTTCTTGCGAGTA 58.688 43.478 0.00 0.00 32.73 2.59
193 194 3.139077 CAACTAGGGTTTTCTTGCGAGT 58.861 45.455 0.00 0.00 32.73 4.18
194 195 2.095718 GCAACTAGGGTTTTCTTGCGAG 60.096 50.000 0.00 0.00 32.73 5.03
195 196 1.877443 GCAACTAGGGTTTTCTTGCGA 59.123 47.619 0.00 0.00 32.73 5.10
196 197 1.068541 GGCAACTAGGGTTTTCTTGCG 60.069 52.381 6.05 0.00 32.73 4.85
201 202 2.288213 GCAAGTGGCAACTAGGGTTTTC 60.288 50.000 0.00 0.00 43.97 2.29
240 241 9.698309 TCTTACGATGAGATTAATGGAGATTTC 57.302 33.333 0.00 0.00 0.00 2.17
290 299 6.321690 ACTCTCCGCTAGTTATTCAACATAGT 59.678 38.462 0.00 0.00 37.10 2.12
294 303 5.401531 AACTCTCCGCTAGTTATTCAACA 57.598 39.130 0.00 0.00 35.44 3.33
335 344 8.011673 CAGATACATATCAAATGCGAAAACGAT 58.988 33.333 1.88 0.00 35.17 3.73
484 494 0.166814 CGCTTTGAGGGCTTCTTTCG 59.833 55.000 0.00 0.00 0.00 3.46
495 505 2.507110 TTCGCCTCCTCCGCTTTGAG 62.507 60.000 0.00 0.00 0.00 3.02
672 682 2.530701 GAAAGAGTGGACAGGAGGAGA 58.469 52.381 0.00 0.00 0.00 3.71
820 831 1.592669 GGTCATCTGATGCCGACGG 60.593 63.158 10.29 10.29 0.00 4.79
943 954 2.429930 CGCCACCTCCAACTCCAA 59.570 61.111 0.00 0.00 0.00 3.53
1318 1329 7.062605 CACTAATAATGAACGAACAACGGTAGT 59.937 37.037 0.00 0.00 44.13 2.73
1478 1489 6.986904 AAAGTCTATTTCGAGGGATGTTTC 57.013 37.500 0.00 0.00 0.00 2.78
1497 1508 2.406596 TTATAAAGCGGGGCGAAAGT 57.593 45.000 0.00 0.00 0.00 2.66
1516 1527 5.985911 AGTTGTAGGAACGTATGCCTTATT 58.014 37.500 9.46 0.00 35.73 1.40
1521 1532 4.114058 TGTAGTTGTAGGAACGTATGCC 57.886 45.455 0.00 0.00 0.00 4.40
1537 1548 9.787435 TGGTTATGATTGAAACTTAGTTGTAGT 57.213 29.630 0.00 0.00 0.00 2.73
1560 1571 4.770531 GGCCCAGTAGTTTTCTTTTATGGT 59.229 41.667 0.00 0.00 0.00 3.55
1561 1572 4.159693 GGGCCCAGTAGTTTTCTTTTATGG 59.840 45.833 19.95 0.00 0.00 2.74
1576 1587 0.611896 GTTTGTGCTATGGGCCCAGT 60.612 55.000 31.97 20.10 40.92 4.00
1582 1593 1.506262 GGCGTGTTTGTGCTATGGG 59.494 57.895 0.00 0.00 0.00 4.00
1678 1692 1.372683 GCCACTCTGCTGTCTTCCA 59.627 57.895 0.00 0.00 0.00 3.53
1693 1707 0.467384 GCTTCAGCTCTATCTGGCCA 59.533 55.000 4.71 4.71 38.21 5.36
1770 1784 2.728839 GTGCTTCTGACTCGTTCTTCAG 59.271 50.000 0.00 0.00 40.65 3.02
1830 1844 4.908601 TGATGTGGACACTTTGGACTAT 57.091 40.909 3.91 0.00 0.00 2.12
1841 1855 1.190643 TCGTGGCTATGATGTGGACA 58.809 50.000 0.00 0.00 0.00 4.02
1921 1935 1.304381 GAGGCCCATGACCTTGCAA 60.304 57.895 0.00 0.00 37.77 4.08
1993 2007 5.431420 AATGCACATTTTGTTCTCGTGTA 57.569 34.783 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.