Multiple sequence alignment - TraesCS2B01G151500

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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 TraesCS2B01G151500 chr2B 100.000 2627 0 0 1 2627 118313533 118310907 0.000000e+00 4852.0
1 TraesCS2B01G151500 chr2B 83.510 661 78 19 1985 2627 117987551 117988198 2.910000e-164 588.0
2 TraesCS2B01G151500 chr2D 90.927 2050 105 35 629 2625 76803080 76801059 0.000000e+00 2680.0
3 TraesCS2B01G151500 chr2D 85.236 657 68 21 1985 2627 76748754 76749395 0.000000e+00 649.0
4 TraesCS2B01G151500 chr2D 90.299 268 25 1 364 631 76818760 76818494 1.500000e-92 350.0
5 TraesCS2B01G151500 chr2A 89.429 1523 70 32 736 2192 77322176 77320679 0.000000e+00 1836.0
6 TraesCS2B01G151500 chr2A 94.013 451 23 1 2181 2627 77280929 77280479 0.000000e+00 680.0
7 TraesCS2B01G151500 chr2A 83.067 626 74 20 2025 2627 77235629 77236245 8.270000e-150 540.0
8 TraesCS2B01G151500 chr2A 85.294 544 53 18 194 729 77323006 77322482 1.070000e-148 536.0
9 TraesCS2B01G151500 chr2A 87.413 143 13 4 2 139 77328439 77328297 2.710000e-35 159.0
10 TraesCS2B01G151500 chr5A 76.433 157 26 11 1168 1320 488024188 488024039 1.010000e-09 75.0
11 TraesCS2B01G151500 chr5B 74.522 157 29 11 1168 1320 463993593 463993444 1.020000e-04 58.4
12 TraesCS2B01G151500 chr5D 83.051 59 10 0 1262 1320 386151855 386151797 1.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G151500 chr2B 118310907 118313533 2626 True 4852 4852 100.0000 1 2627 1 chr2B.!!$R1 2626
1 TraesCS2B01G151500 chr2B 117987551 117988198 647 False 588 588 83.5100 1985 2627 1 chr2B.!!$F1 642
2 TraesCS2B01G151500 chr2D 76801059 76803080 2021 True 2680 2680 90.9270 629 2625 1 chr2D.!!$R1 1996
3 TraesCS2B01G151500 chr2D 76748754 76749395 641 False 649 649 85.2360 1985 2627 1 chr2D.!!$F1 642
4 TraesCS2B01G151500 chr2A 77320679 77323006 2327 True 1186 1836 87.3615 194 2192 2 chr2A.!!$R3 1998
5 TraesCS2B01G151500 chr2A 77235629 77236245 616 False 540 540 83.0670 2025 2627 1 chr2A.!!$F1 602

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
145 146 0.104487 TAGGGCGAACGACACACAAA 59.896 50.0 1.79 0.0 0.00 2.83 F
162 163 0.171007 AAATGTTGGGCGAGATTGCG 59.829 50.0 0.00 0.0 35.06 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1599 1929 0.322098 TGAAATCGATGGTGCCCGTT 60.322 50.0 0.00 0.0 0.00 4.44 R
1994 2382 0.367210 GAAGCGCAAAGACGAGCTAC 59.633 55.0 11.47 0.0 41.51 3.58 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
17 18 2.112297 TGGACGGCCCTGTTTCAC 59.888 61.111 3.83 0.00 35.38 3.18
18 19 2.112297 GGACGGCCCTGTTTCACA 59.888 61.111 0.00 0.00 0.00 3.58
19 20 1.303317 GGACGGCCCTGTTTCACAT 60.303 57.895 0.00 0.00 0.00 3.21
20 21 0.893727 GGACGGCCCTGTTTCACATT 60.894 55.000 0.00 0.00 0.00 2.71
21 22 1.612199 GGACGGCCCTGTTTCACATTA 60.612 52.381 0.00 0.00 0.00 1.90
22 23 2.156098 GACGGCCCTGTTTCACATTAA 58.844 47.619 0.00 0.00 0.00 1.40
23 24 2.554893 GACGGCCCTGTTTCACATTAAA 59.445 45.455 0.00 0.00 0.00 1.52
24 25 2.295070 ACGGCCCTGTTTCACATTAAAC 59.705 45.455 0.00 0.00 39.35 2.01
25 26 2.294791 CGGCCCTGTTTCACATTAAACA 59.705 45.455 0.00 0.00 44.81 2.83
26 27 3.056891 CGGCCCTGTTTCACATTAAACAT 60.057 43.478 0.00 0.00 45.58 2.71
27 28 4.244862 GGCCCTGTTTCACATTAAACATG 58.755 43.478 0.00 0.00 45.58 3.21
28 29 4.262420 GGCCCTGTTTCACATTAAACATGT 60.262 41.667 0.00 0.00 45.58 3.21
29 30 4.685628 GCCCTGTTTCACATTAAACATGTG 59.314 41.667 0.00 8.41 45.58 3.21
73 74 9.936759 AAAAATGTGAACCTTTACTCAAAAAGA 57.063 25.926 0.00 0.00 38.50 2.52
74 75 9.936759 AAAATGTGAACCTTTACTCAAAAAGAA 57.063 25.926 0.00 0.00 38.50 2.52
75 76 9.936759 AAATGTGAACCTTTACTCAAAAAGAAA 57.063 25.926 0.00 0.00 38.50 2.52
76 77 9.936759 AATGTGAACCTTTACTCAAAAAGAAAA 57.063 25.926 0.00 0.00 38.50 2.29
77 78 9.936759 ATGTGAACCTTTACTCAAAAAGAAAAA 57.063 25.926 0.00 0.00 38.50 1.94
78 79 9.198837 TGTGAACCTTTACTCAAAAAGAAAAAC 57.801 29.630 0.00 0.00 38.50 2.43
79 80 9.419297 GTGAACCTTTACTCAAAAAGAAAAACT 57.581 29.630 0.00 0.00 38.50 2.66
89 90 8.956426 ACTCAAAAAGAAAAACTAGACATGTCA 58.044 29.630 27.02 12.38 0.00 3.58
90 91 9.787532 CTCAAAAAGAAAAACTAGACATGTCAA 57.212 29.630 27.02 0.00 0.00 3.18
93 94 8.926715 AAAAGAAAAACTAGACATGTCAAACC 57.073 30.769 27.02 0.58 0.00 3.27
94 95 6.300354 AGAAAAACTAGACATGTCAAACCG 57.700 37.500 27.02 12.29 0.00 4.44
95 96 4.483476 AAAACTAGACATGTCAAACCGC 57.517 40.909 27.02 0.00 0.00 5.68
96 97 2.094762 ACTAGACATGTCAAACCGCC 57.905 50.000 27.02 0.00 0.00 6.13
97 98 1.623811 ACTAGACATGTCAAACCGCCT 59.376 47.619 27.02 6.90 0.00 5.52
98 99 2.271800 CTAGACATGTCAAACCGCCTC 58.728 52.381 27.02 0.00 0.00 4.70
99 100 0.670546 AGACATGTCAAACCGCCTCG 60.671 55.000 27.02 0.00 0.00 4.63
100 101 2.240612 GACATGTCAAACCGCCTCGC 62.241 60.000 21.07 0.00 0.00 5.03
101 102 2.031919 ATGTCAAACCGCCTCGCA 59.968 55.556 0.00 0.00 0.00 5.10
102 103 1.599518 ATGTCAAACCGCCTCGCAA 60.600 52.632 0.00 0.00 0.00 4.85
103 104 1.169661 ATGTCAAACCGCCTCGCAAA 61.170 50.000 0.00 0.00 0.00 3.68
104 105 1.370051 GTCAAACCGCCTCGCAAAC 60.370 57.895 0.00 0.00 0.00 2.93
105 106 2.050442 CAAACCGCCTCGCAAACC 60.050 61.111 0.00 0.00 0.00 3.27
106 107 3.292159 AAACCGCCTCGCAAACCC 61.292 61.111 0.00 0.00 0.00 4.11
107 108 4.572571 AACCGCCTCGCAAACCCA 62.573 61.111 0.00 0.00 0.00 4.51
108 109 3.860930 AACCGCCTCGCAAACCCAT 62.861 57.895 0.00 0.00 0.00 4.00
109 110 3.814268 CCGCCTCGCAAACCCATG 61.814 66.667 0.00 0.00 0.00 3.66
110 111 4.481112 CGCCTCGCAAACCCATGC 62.481 66.667 0.00 0.00 42.94 4.06
111 112 3.064324 GCCTCGCAAACCCATGCT 61.064 61.111 0.00 0.00 44.21 3.79
112 113 3.056313 GCCTCGCAAACCCATGCTC 62.056 63.158 0.00 0.00 44.21 4.26
113 114 2.409870 CCTCGCAAACCCATGCTCC 61.410 63.158 0.00 0.00 44.21 4.70
114 115 1.675310 CTCGCAAACCCATGCTCCA 60.675 57.895 0.00 0.00 44.21 3.86
115 116 1.228398 TCGCAAACCCATGCTCCAA 60.228 52.632 0.00 0.00 44.21 3.53
116 117 0.825425 TCGCAAACCCATGCTCCAAA 60.825 50.000 0.00 0.00 44.21 3.28
117 118 0.667184 CGCAAACCCATGCTCCAAAC 60.667 55.000 0.00 0.00 44.21 2.93
118 119 0.681175 GCAAACCCATGCTCCAAACT 59.319 50.000 0.00 0.00 43.06 2.66
119 120 1.337167 GCAAACCCATGCTCCAAACTC 60.337 52.381 0.00 0.00 43.06 3.01
120 121 2.242043 CAAACCCATGCTCCAAACTCT 58.758 47.619 0.00 0.00 0.00 3.24
121 122 2.206576 AACCCATGCTCCAAACTCTC 57.793 50.000 0.00 0.00 0.00 3.20
122 123 1.067295 ACCCATGCTCCAAACTCTCA 58.933 50.000 0.00 0.00 0.00 3.27
123 124 1.271597 ACCCATGCTCCAAACTCTCAC 60.272 52.381 0.00 0.00 0.00 3.51
124 125 1.271543 CCCATGCTCCAAACTCTCACA 60.272 52.381 0.00 0.00 0.00 3.58
125 126 1.808945 CCATGCTCCAAACTCTCACAC 59.191 52.381 0.00 0.00 0.00 3.82
126 127 2.551721 CCATGCTCCAAACTCTCACACT 60.552 50.000 0.00 0.00 0.00 3.55
127 128 3.306989 CCATGCTCCAAACTCTCACACTA 60.307 47.826 0.00 0.00 0.00 2.74
128 129 3.667497 TGCTCCAAACTCTCACACTAG 57.333 47.619 0.00 0.00 0.00 2.57
129 130 2.300152 TGCTCCAAACTCTCACACTAGG 59.700 50.000 0.00 0.00 0.00 3.02
130 131 2.354203 GCTCCAAACTCTCACACTAGGG 60.354 54.545 0.00 0.00 0.00 3.53
131 132 1.623811 TCCAAACTCTCACACTAGGGC 59.376 52.381 0.00 0.00 0.00 5.19
132 133 1.673033 CCAAACTCTCACACTAGGGCG 60.673 57.143 0.00 0.00 0.00 6.13
133 134 1.272490 CAAACTCTCACACTAGGGCGA 59.728 52.381 0.00 0.00 0.00 5.54
134 135 1.629043 AACTCTCACACTAGGGCGAA 58.371 50.000 0.00 0.00 0.00 4.70
135 136 0.889306 ACTCTCACACTAGGGCGAAC 59.111 55.000 0.00 0.00 0.00 3.95
136 137 0.179161 CTCTCACACTAGGGCGAACG 60.179 60.000 0.00 0.00 0.00 3.95
137 138 0.607217 TCTCACACTAGGGCGAACGA 60.607 55.000 0.00 0.00 0.00 3.85
138 139 0.456312 CTCACACTAGGGCGAACGAC 60.456 60.000 0.00 0.00 0.00 4.34
139 140 1.174078 TCACACTAGGGCGAACGACA 61.174 55.000 1.79 0.00 0.00 4.35
140 141 1.007336 CACACTAGGGCGAACGACAC 61.007 60.000 1.79 0.00 0.00 3.67
141 142 1.287815 CACTAGGGCGAACGACACA 59.712 57.895 1.79 0.00 0.00 3.72
142 143 1.007336 CACTAGGGCGAACGACACAC 61.007 60.000 1.79 0.00 0.00 3.82
143 144 1.287815 CTAGGGCGAACGACACACA 59.712 57.895 1.79 0.00 0.00 3.72
144 145 0.319211 CTAGGGCGAACGACACACAA 60.319 55.000 1.79 0.00 0.00 3.33
145 146 0.104487 TAGGGCGAACGACACACAAA 59.896 50.000 1.79 0.00 0.00 2.83
146 147 0.534203 AGGGCGAACGACACACAAAT 60.534 50.000 1.79 0.00 0.00 2.32
147 148 0.385473 GGGCGAACGACACACAAATG 60.385 55.000 1.79 0.00 0.00 2.32
148 149 0.306533 GGCGAACGACACACAAATGT 59.693 50.000 0.00 0.00 40.80 2.71
149 150 1.268335 GGCGAACGACACACAAATGTT 60.268 47.619 0.00 0.00 36.72 2.71
150 151 1.772966 GCGAACGACACACAAATGTTG 59.227 47.619 0.00 0.00 36.72 3.33
151 152 2.371432 CGAACGACACACAAATGTTGG 58.629 47.619 0.00 0.00 38.17 3.77
152 153 2.726633 GAACGACACACAAATGTTGGG 58.273 47.619 0.00 0.00 38.17 4.12
153 154 0.383949 ACGACACACAAATGTTGGGC 59.616 50.000 0.00 0.00 37.68 5.36
154 155 0.660005 CGACACACAAATGTTGGGCG 60.660 55.000 0.00 0.00 37.68 6.13
155 156 0.665835 GACACACAAATGTTGGGCGA 59.334 50.000 0.00 0.00 37.68 5.54
156 157 0.667993 ACACACAAATGTTGGGCGAG 59.332 50.000 0.00 0.00 37.68 5.03
157 158 0.950836 CACACAAATGTTGGGCGAGA 59.049 50.000 0.00 0.00 37.68 4.04
158 159 1.541147 CACACAAATGTTGGGCGAGAT 59.459 47.619 0.00 0.00 37.68 2.75
159 160 2.030007 CACACAAATGTTGGGCGAGATT 60.030 45.455 0.00 0.00 37.68 2.40
160 161 2.030007 ACACAAATGTTGGGCGAGATTG 60.030 45.455 0.00 0.00 37.68 2.67
161 162 1.067635 ACAAATGTTGGGCGAGATTGC 60.068 47.619 0.00 0.00 34.12 3.56
162 163 0.171007 AAATGTTGGGCGAGATTGCG 59.829 50.000 0.00 0.00 35.06 4.85
170 171 4.961622 CGAGATTGCGCATCACAC 57.038 55.556 12.75 3.64 33.75 3.82
171 172 2.377004 CGAGATTGCGCATCACACT 58.623 52.632 12.75 6.47 33.75 3.55
172 173 0.723414 CGAGATTGCGCATCACACTT 59.277 50.000 12.75 0.00 33.75 3.16
173 174 1.129251 CGAGATTGCGCATCACACTTT 59.871 47.619 12.75 0.00 33.75 2.66
174 175 2.512885 GAGATTGCGCATCACACTTTG 58.487 47.619 12.75 0.00 33.75 2.77
175 176 0.986992 GATTGCGCATCACACTTTGC 59.013 50.000 12.75 0.00 35.50 3.68
176 177 0.388907 ATTGCGCATCACACTTTGCC 60.389 50.000 12.75 0.00 35.41 4.52
177 178 1.454572 TTGCGCATCACACTTTGCCT 61.455 50.000 12.75 0.00 35.41 4.75
178 179 1.286880 GCGCATCACACTTTGCCTT 59.713 52.632 0.30 0.00 35.41 4.35
179 180 0.318955 GCGCATCACACTTTGCCTTT 60.319 50.000 0.30 0.00 35.41 3.11
180 181 1.411394 CGCATCACACTTTGCCTTTG 58.589 50.000 0.00 0.00 35.41 2.77
181 182 1.787012 GCATCACACTTTGCCTTTGG 58.213 50.000 0.00 0.00 32.66 3.28
182 183 1.606224 GCATCACACTTTGCCTTTGGG 60.606 52.381 0.00 0.00 32.66 4.12
183 184 1.962807 CATCACACTTTGCCTTTGGGA 59.037 47.619 0.00 0.00 33.58 4.37
184 185 1.691196 TCACACTTTGCCTTTGGGAG 58.309 50.000 0.00 0.00 33.58 4.30
185 186 1.214175 TCACACTTTGCCTTTGGGAGA 59.786 47.619 0.00 0.00 33.58 3.71
186 187 2.031120 CACACTTTGCCTTTGGGAGAA 58.969 47.619 0.00 0.00 33.58 2.87
187 188 2.035066 CACACTTTGCCTTTGGGAGAAG 59.965 50.000 0.00 0.00 34.43 2.85
188 189 2.091885 ACACTTTGCCTTTGGGAGAAGA 60.092 45.455 0.00 0.00 33.33 2.87
189 190 2.958355 CACTTTGCCTTTGGGAGAAGAA 59.042 45.455 0.00 0.00 33.33 2.52
190 191 3.384467 CACTTTGCCTTTGGGAGAAGAAA 59.616 43.478 0.00 0.00 33.33 2.52
191 192 4.030216 ACTTTGCCTTTGGGAGAAGAAAA 58.970 39.130 0.00 0.00 33.33 2.29
192 193 4.141937 ACTTTGCCTTTGGGAGAAGAAAAC 60.142 41.667 0.00 0.00 33.33 2.43
378 380 8.965172 CGAGTGGTAAATATACATCAACTACAC 58.035 37.037 0.00 0.00 33.45 2.90
400 402 7.099764 ACACATGTGTAATTTCCAACAAACAA 58.900 30.769 29.66 0.00 42.90 2.83
406 408 9.039870 TGTGTAATTTCCAACAAACAATTGATC 57.960 29.630 13.59 0.00 38.94 2.92
424 426 4.193090 TGATCTTAGTCTCCTCAGTCGAC 58.807 47.826 7.70 7.70 0.00 4.20
426 428 2.572556 TCTTAGTCTCCTCAGTCGACCT 59.427 50.000 13.01 1.75 0.00 3.85
444 446 1.393539 CCTGACGTAAAATCCGTGCAG 59.606 52.381 0.00 0.00 38.92 4.41
460 462 4.210328 CCGTGCAGGGTTTTACAATTTTTC 59.790 41.667 17.47 0.00 35.97 2.29
461 463 4.085312 CGTGCAGGGTTTTACAATTTTTCG 60.085 41.667 0.00 0.00 0.00 3.46
462 464 4.210328 GTGCAGGGTTTTACAATTTTTCGG 59.790 41.667 0.00 0.00 0.00 4.30
463 465 4.099573 TGCAGGGTTTTACAATTTTTCGGA 59.900 37.500 0.00 0.00 0.00 4.55
464 466 5.051153 GCAGGGTTTTACAATTTTTCGGAA 58.949 37.500 0.00 0.00 0.00 4.30
465 467 5.050634 GCAGGGTTTTACAATTTTTCGGAAC 60.051 40.000 0.00 0.00 0.00 3.62
466 468 6.277605 CAGGGTTTTACAATTTTTCGGAACT 58.722 36.000 0.00 0.00 0.00 3.01
467 469 7.427214 CAGGGTTTTACAATTTTTCGGAACTA 58.573 34.615 0.00 0.00 0.00 2.24
468 470 7.380333 CAGGGTTTTACAATTTTTCGGAACTAC 59.620 37.037 0.00 0.00 0.00 2.73
469 471 6.360414 GGGTTTTACAATTTTTCGGAACTACG 59.640 38.462 0.00 0.00 0.00 3.51
470 472 7.131565 GGTTTTACAATTTTTCGGAACTACGA 58.868 34.615 0.00 0.00 41.76 3.43
476 478 6.037391 ACAATTTTTCGGAACTACGAGAACAA 59.963 34.615 0.00 0.00 44.47 2.83
478 480 6.607735 TTTTTCGGAACTACGAGAACAAAT 57.392 33.333 0.00 0.00 44.47 2.32
490 492 5.883661 ACGAGAACAAATCCTTGCATATTG 58.116 37.500 0.00 0.00 35.84 1.90
595 603 6.479001 GTCCACACAATAGTATATGTCACACC 59.521 42.308 0.00 0.00 0.00 4.16
604 612 6.109156 AGTATATGTCACACCAACTGAACA 57.891 37.500 0.00 0.00 0.00 3.18
611 619 5.126869 TGTCACACCAACTGAACAAATCAAT 59.873 36.000 0.00 0.00 37.67 2.57
616 624 6.978080 ACACCAACTGAACAAATCAATACAAC 59.022 34.615 0.00 0.00 37.67 3.32
619 627 7.706179 ACCAACTGAACAAATCAATACAACAAG 59.294 33.333 0.00 0.00 37.67 3.16
623 631 7.068103 ACTGAACAAATCAATACAACAAGGTGA 59.932 33.333 0.00 0.00 37.67 4.02
763 1070 2.982470 CCAACTAACGTTCCACGAGTAC 59.018 50.000 2.82 0.00 46.05 2.73
802 1114 3.206150 CCGGTGATCCAATTTCTAGGTG 58.794 50.000 0.00 0.00 0.00 4.00
819 1131 2.188817 GGTGACCTACCCAGTTGATCT 58.811 52.381 0.00 0.00 44.15 2.75
831 1143 2.602211 CAGTTGATCTCATGTCAGACGC 59.398 50.000 0.00 0.00 0.00 5.19
859 1178 3.807622 ACTTGTGTCACTGTACATTTCCG 59.192 43.478 4.27 0.00 0.00 4.30
871 1190 2.693069 ACATTTCCGAGCAACTCTCAG 58.307 47.619 0.00 0.00 41.98 3.35
887 1206 1.152567 CAGCTTCCCCACCAAACCA 60.153 57.895 0.00 0.00 0.00 3.67
915 1238 6.013554 TCCTTTATAAACCCCATCTCCTTG 57.986 41.667 0.00 0.00 0.00 3.61
929 1252 1.141858 CTCCTTGCCTCTAATCCCACC 59.858 57.143 0.00 0.00 0.00 4.61
958 1281 3.623510 GCTAACCAGTACCTTCTCATTGC 59.376 47.826 0.00 0.00 0.00 3.56
979 1309 0.179048 CCACTCCACAGACAGCAACA 60.179 55.000 0.00 0.00 0.00 3.33
980 1310 1.667236 CACTCCACAGACAGCAACAA 58.333 50.000 0.00 0.00 0.00 2.83
1065 1395 2.283894 TCCCTCTTCCTGCTCGCA 60.284 61.111 0.00 0.00 0.00 5.10
1527 1857 1.507141 GGAGCAAGTTCACCCACGTG 61.507 60.000 9.08 9.08 41.72 4.49
1593 1923 1.153509 CACCACCGGGGATAACGTC 60.154 63.158 4.41 0.00 41.15 4.34
1599 1929 0.754217 CCGGGGATAACGTCCTCTCA 60.754 60.000 0.00 0.00 46.19 3.27
1638 1968 6.801539 TTCAGCAAGTGAAAGTAACATAGG 57.198 37.500 0.00 0.00 42.49 2.57
1639 1969 6.109156 TCAGCAAGTGAAAGTAACATAGGA 57.891 37.500 0.00 0.00 29.64 2.94
1640 1970 6.166279 TCAGCAAGTGAAAGTAACATAGGAG 58.834 40.000 0.00 0.00 29.64 3.69
1645 1975 9.765795 GCAAGTGAAAGTAACATAGGAGTATAT 57.234 33.333 0.00 0.00 0.00 0.86
1657 1987 6.370994 ACATAGGAGTATATGGAGTACGTTCG 59.629 42.308 0.00 0.00 37.45 3.95
1672 2002 7.307989 GGAGTACGTTCGTAGGTATGCTTATTA 60.308 40.741 5.29 0.00 0.00 0.98
1673 2003 8.103948 AGTACGTTCGTAGGTATGCTTATTAT 57.896 34.615 5.29 0.00 0.00 1.28
1674 2004 8.571336 AGTACGTTCGTAGGTATGCTTATTATT 58.429 33.333 5.29 0.00 0.00 1.40
1675 2005 7.864307 ACGTTCGTAGGTATGCTTATTATTC 57.136 36.000 0.00 0.00 0.00 1.75
1676 2006 6.580041 ACGTTCGTAGGTATGCTTATTATTCG 59.420 38.462 0.00 0.00 0.00 3.34
1677 2007 6.580041 CGTTCGTAGGTATGCTTATTATTCGT 59.420 38.462 0.00 0.00 0.00 3.85
1678 2008 7.746034 CGTTCGTAGGTATGCTTATTATTCGTA 59.254 37.037 0.00 0.00 0.00 3.43
1719 2057 0.249322 GTATGTATGTGCCCGCGAGT 60.249 55.000 8.23 0.00 0.00 4.18
1741 2081 5.067936 AGTCATCGCTCCCTTTATATATCGG 59.932 44.000 0.00 0.00 0.00 4.18
1794 2140 5.171516 CGCAGAGTTATGAATACGTACTGTG 59.828 44.000 0.00 0.96 0.00 3.66
1798 2144 7.218393 CAGAGTTATGAATACGTACTGTGTGTC 59.782 40.741 0.00 0.00 0.00 3.67
1802 2148 8.792538 GTTATGAATACGTACTGTGTGTCTAAC 58.207 37.037 0.00 0.00 0.00 2.34
1866 2221 0.108329 GGGCGGAAAGAAGACGATGA 60.108 55.000 0.00 0.00 0.00 2.92
1935 2298 4.434330 CGTCTCACGCTAGAATTCCAAAAC 60.434 45.833 0.65 0.00 33.65 2.43
1936 2299 3.678072 TCTCACGCTAGAATTCCAAAACG 59.322 43.478 0.65 2.34 0.00 3.60
1937 2300 2.739913 TCACGCTAGAATTCCAAAACGG 59.260 45.455 0.65 0.00 0.00 4.44
1938 2301 2.739913 CACGCTAGAATTCCAAAACGGA 59.260 45.455 0.65 0.00 44.40 4.69
1946 2309 3.709974 TCCAAAACGGAATCACGGT 57.290 47.368 0.00 0.00 42.52 4.83
1947 2310 1.515081 TCCAAAACGGAATCACGGTC 58.485 50.000 0.00 0.00 42.52 4.79
1948 2311 0.519961 CCAAAACGGAATCACGGTCC 59.480 55.000 0.00 0.00 38.39 4.46
1949 2312 1.231221 CAAAACGGAATCACGGTCCA 58.769 50.000 0.00 0.00 38.39 4.02
1950 2313 1.810151 CAAAACGGAATCACGGTCCAT 59.190 47.619 0.00 0.00 38.39 3.41
1951 2314 3.004171 CAAAACGGAATCACGGTCCATA 58.996 45.455 0.00 0.00 38.39 2.74
1952 2315 3.337694 AAACGGAATCACGGTCCATAA 57.662 42.857 0.00 0.00 38.39 1.90
1966 2329 5.491078 ACGGTCCATAATCCATATAACCCAT 59.509 40.000 0.00 0.00 30.45 4.00
1971 2334 8.328758 GTCCATAATCCATATAACCCATCAGAA 58.671 37.037 0.00 0.00 0.00 3.02
1973 2336 7.557719 CCATAATCCATATAACCCATCAGAACC 59.442 40.741 0.00 0.00 0.00 3.62
1974 2337 6.786843 AATCCATATAACCCATCAGAACCT 57.213 37.500 0.00 0.00 0.00 3.50
1976 2339 6.935240 TCCATATAACCCATCAGAACCTAG 57.065 41.667 0.00 0.00 0.00 3.02
1994 2382 2.885861 CTCGGTCCTCTGGAACCG 59.114 66.667 16.02 16.02 42.92 4.44
2057 2464 2.626455 GATCAAACGATCCGCCGC 59.374 61.111 0.00 0.00 34.37 6.53
2058 2465 2.882366 GATCAAACGATCCGCCGCC 61.882 63.158 0.00 0.00 34.37 6.13
2115 2525 1.810030 GCGGATTCTCACCACCGAC 60.810 63.158 0.00 0.00 46.94 4.79
2250 2660 2.871096 TGCTATCCGACCCAGTTTTT 57.129 45.000 0.00 0.00 0.00 1.94
2256 2674 4.569719 ATCCGACCCAGTTTTTATCACT 57.430 40.909 0.00 0.00 0.00 3.41
2285 2703 1.205655 CGAGTGCTCCAAGAAGATCCA 59.794 52.381 0.00 0.00 0.00 3.41
2333 2751 2.913054 TACGACCGCGACGATCTCCT 62.913 60.000 26.02 9.95 41.64 3.69
2541 2968 0.971386 GGGAGTTCGTCACCTTACCA 59.029 55.000 0.00 0.00 0.00 3.25
2563 3000 2.279582 ACGGAAGCACTACATCTTCG 57.720 50.000 0.00 0.00 39.54 3.79
2565 3002 1.291132 GGAAGCACTACATCTTCGCC 58.709 55.000 0.00 0.00 39.54 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.112297 GTGAAACAGGGCCGTCCA 59.888 61.111 0.00 0.00 38.24 4.02
1 2 2.112297 TGTGAAACAGGGCCGTCC 59.888 61.111 0.00 0.00 45.67 4.79
47 48 9.936759 TCTTTTTGAGTAAAGGTTCACATTTTT 57.063 25.926 0.00 0.00 36.12 1.94
48 49 9.936759 TTCTTTTTGAGTAAAGGTTCACATTTT 57.063 25.926 0.00 0.00 36.12 1.82
49 50 9.936759 TTTCTTTTTGAGTAAAGGTTCACATTT 57.063 25.926 0.00 0.00 36.12 2.32
50 51 9.936759 TTTTCTTTTTGAGTAAAGGTTCACATT 57.063 25.926 0.00 0.00 36.12 2.71
51 52 9.936759 TTTTTCTTTTTGAGTAAAGGTTCACAT 57.063 25.926 0.00 0.00 36.12 3.21
52 53 9.198837 GTTTTTCTTTTTGAGTAAAGGTTCACA 57.801 29.630 0.00 0.00 36.12 3.58
53 54 9.419297 AGTTTTTCTTTTTGAGTAAAGGTTCAC 57.581 29.630 0.00 0.00 36.12 3.18
63 64 8.956426 TGACATGTCTAGTTTTTCTTTTTGAGT 58.044 29.630 25.55 0.00 0.00 3.41
64 65 9.787532 TTGACATGTCTAGTTTTTCTTTTTGAG 57.212 29.630 25.55 0.00 0.00 3.02
67 68 9.366216 GGTTTGACATGTCTAGTTTTTCTTTTT 57.634 29.630 25.55 0.00 0.00 1.94
68 69 7.700656 CGGTTTGACATGTCTAGTTTTTCTTTT 59.299 33.333 25.55 0.00 0.00 2.27
69 70 7.193595 CGGTTTGACATGTCTAGTTTTTCTTT 58.806 34.615 25.55 0.00 0.00 2.52
70 71 6.725246 CGGTTTGACATGTCTAGTTTTTCTT 58.275 36.000 25.55 0.00 0.00 2.52
71 72 5.277828 GCGGTTTGACATGTCTAGTTTTTCT 60.278 40.000 25.55 0.00 0.00 2.52
72 73 4.909880 GCGGTTTGACATGTCTAGTTTTTC 59.090 41.667 25.55 8.17 0.00 2.29
73 74 4.261447 GGCGGTTTGACATGTCTAGTTTTT 60.261 41.667 25.55 0.00 0.00 1.94
74 75 3.252458 GGCGGTTTGACATGTCTAGTTTT 59.748 43.478 25.55 0.00 0.00 2.43
75 76 2.812011 GGCGGTTTGACATGTCTAGTTT 59.188 45.455 25.55 0.00 0.00 2.66
76 77 2.038557 AGGCGGTTTGACATGTCTAGTT 59.961 45.455 25.55 2.08 0.00 2.24
77 78 1.623811 AGGCGGTTTGACATGTCTAGT 59.376 47.619 25.55 0.52 0.00 2.57
78 79 2.271800 GAGGCGGTTTGACATGTCTAG 58.728 52.381 25.55 13.17 0.00 2.43
79 80 1.403647 CGAGGCGGTTTGACATGTCTA 60.404 52.381 25.55 16.43 0.00 2.59
80 81 0.670546 CGAGGCGGTTTGACATGTCT 60.671 55.000 25.55 3.48 0.00 3.41
81 82 1.787847 CGAGGCGGTTTGACATGTC 59.212 57.895 19.27 19.27 0.00 3.06
82 83 2.325082 GCGAGGCGGTTTGACATGT 61.325 57.895 0.00 0.00 0.00 3.21
83 84 1.851021 TTGCGAGGCGGTTTGACATG 61.851 55.000 0.00 0.00 0.00 3.21
84 85 1.169661 TTTGCGAGGCGGTTTGACAT 61.170 50.000 0.00 0.00 0.00 3.06
85 86 1.820056 TTTGCGAGGCGGTTTGACA 60.820 52.632 0.00 0.00 0.00 3.58
86 87 1.370051 GTTTGCGAGGCGGTTTGAC 60.370 57.895 0.00 0.00 0.00 3.18
87 88 2.548295 GGTTTGCGAGGCGGTTTGA 61.548 57.895 0.00 0.00 0.00 2.69
88 89 2.050442 GGTTTGCGAGGCGGTTTG 60.050 61.111 0.00 0.00 0.00 2.93
89 90 3.292159 GGGTTTGCGAGGCGGTTT 61.292 61.111 0.00 0.00 0.00 3.27
90 91 3.860930 ATGGGTTTGCGAGGCGGTT 62.861 57.895 0.00 0.00 0.00 4.44
91 92 4.344865 ATGGGTTTGCGAGGCGGT 62.345 61.111 0.00 0.00 0.00 5.68
92 93 3.814268 CATGGGTTTGCGAGGCGG 61.814 66.667 0.00 0.00 0.00 6.13
93 94 4.481112 GCATGGGTTTGCGAGGCG 62.481 66.667 0.00 0.00 32.06 5.52
99 100 0.681175 AGTTTGGAGCATGGGTTTGC 59.319 50.000 0.00 0.00 43.09 3.68
100 101 2.229784 GAGAGTTTGGAGCATGGGTTTG 59.770 50.000 0.00 0.00 0.00 2.93
101 102 2.158475 TGAGAGTTTGGAGCATGGGTTT 60.158 45.455 0.00 0.00 0.00 3.27
102 103 1.425066 TGAGAGTTTGGAGCATGGGTT 59.575 47.619 0.00 0.00 0.00 4.11
103 104 1.067295 TGAGAGTTTGGAGCATGGGT 58.933 50.000 0.00 0.00 0.00 4.51
104 105 1.271543 TGTGAGAGTTTGGAGCATGGG 60.272 52.381 0.00 0.00 0.00 4.00
105 106 1.808945 GTGTGAGAGTTTGGAGCATGG 59.191 52.381 0.00 0.00 0.00 3.66
106 107 2.775890 AGTGTGAGAGTTTGGAGCATG 58.224 47.619 0.00 0.00 0.00 4.06
107 108 3.055530 CCTAGTGTGAGAGTTTGGAGCAT 60.056 47.826 0.00 0.00 0.00 3.79
108 109 2.300152 CCTAGTGTGAGAGTTTGGAGCA 59.700 50.000 0.00 0.00 0.00 4.26
109 110 2.354203 CCCTAGTGTGAGAGTTTGGAGC 60.354 54.545 0.00 0.00 0.00 4.70
110 111 2.354203 GCCCTAGTGTGAGAGTTTGGAG 60.354 54.545 0.00 0.00 0.00 3.86
111 112 1.623811 GCCCTAGTGTGAGAGTTTGGA 59.376 52.381 0.00 0.00 0.00 3.53
112 113 1.673033 CGCCCTAGTGTGAGAGTTTGG 60.673 57.143 0.00 0.00 0.00 3.28
113 114 1.272490 TCGCCCTAGTGTGAGAGTTTG 59.728 52.381 0.00 0.00 0.00 2.93
114 115 1.629043 TCGCCCTAGTGTGAGAGTTT 58.371 50.000 0.00 0.00 0.00 2.66
115 116 1.272769 GTTCGCCCTAGTGTGAGAGTT 59.727 52.381 0.00 0.00 0.00 3.01
116 117 0.889306 GTTCGCCCTAGTGTGAGAGT 59.111 55.000 0.00 0.00 0.00 3.24
117 118 0.179161 CGTTCGCCCTAGTGTGAGAG 60.179 60.000 0.00 0.00 0.00 3.20
118 119 0.607217 TCGTTCGCCCTAGTGTGAGA 60.607 55.000 0.00 0.00 0.00 3.27
119 120 0.456312 GTCGTTCGCCCTAGTGTGAG 60.456 60.000 0.00 0.00 0.00 3.51
120 121 1.174078 TGTCGTTCGCCCTAGTGTGA 61.174 55.000 0.00 0.00 0.00 3.58
121 122 1.007336 GTGTCGTTCGCCCTAGTGTG 61.007 60.000 0.00 0.00 0.00 3.82
122 123 1.288127 GTGTCGTTCGCCCTAGTGT 59.712 57.895 0.00 0.00 0.00 3.55
123 124 1.007336 GTGTGTCGTTCGCCCTAGTG 61.007 60.000 0.00 0.00 0.00 2.74
124 125 1.288127 GTGTGTCGTTCGCCCTAGT 59.712 57.895 0.00 0.00 0.00 2.57
125 126 0.319211 TTGTGTGTCGTTCGCCCTAG 60.319 55.000 0.00 0.00 0.00 3.02
126 127 0.104487 TTTGTGTGTCGTTCGCCCTA 59.896 50.000 0.00 0.00 0.00 3.53
127 128 0.534203 ATTTGTGTGTCGTTCGCCCT 60.534 50.000 0.00 0.00 0.00 5.19
128 129 0.385473 CATTTGTGTGTCGTTCGCCC 60.385 55.000 0.00 0.00 0.00 6.13
129 130 0.306533 ACATTTGTGTGTCGTTCGCC 59.693 50.000 0.00 0.00 0.00 5.54
130 131 1.772966 CAACATTTGTGTGTCGTTCGC 59.227 47.619 0.00 0.00 0.00 4.70
131 132 2.371432 CCAACATTTGTGTGTCGTTCG 58.629 47.619 0.00 0.00 0.00 3.95
132 133 2.726633 CCCAACATTTGTGTGTCGTTC 58.273 47.619 0.00 0.00 0.00 3.95
133 134 1.202359 GCCCAACATTTGTGTGTCGTT 60.202 47.619 0.00 0.00 0.00 3.85
134 135 0.383949 GCCCAACATTTGTGTGTCGT 59.616 50.000 0.00 0.00 0.00 4.34
135 136 0.660005 CGCCCAACATTTGTGTGTCG 60.660 55.000 0.00 0.00 0.00 4.35
136 137 0.665835 TCGCCCAACATTTGTGTGTC 59.334 50.000 0.00 0.00 0.00 3.67
137 138 0.667993 CTCGCCCAACATTTGTGTGT 59.332 50.000 0.00 0.00 0.00 3.72
138 139 0.950836 TCTCGCCCAACATTTGTGTG 59.049 50.000 0.00 0.00 0.00 3.82
139 140 1.909700 ATCTCGCCCAACATTTGTGT 58.090 45.000 0.00 0.00 0.00 3.72
140 141 2.598589 CAATCTCGCCCAACATTTGTG 58.401 47.619 0.00 0.00 0.00 3.33
141 142 1.067635 GCAATCTCGCCCAACATTTGT 60.068 47.619 0.00 0.00 0.00 2.83
142 143 1.632422 GCAATCTCGCCCAACATTTG 58.368 50.000 0.00 0.00 0.00 2.32
143 144 0.171007 CGCAATCTCGCCCAACATTT 59.829 50.000 0.00 0.00 0.00 2.32
144 145 1.802636 CGCAATCTCGCCCAACATT 59.197 52.632 0.00 0.00 0.00 2.71
145 146 3.501396 CGCAATCTCGCCCAACAT 58.499 55.556 0.00 0.00 0.00 2.71
153 154 0.723414 AAGTGTGATGCGCAATCTCG 59.277 50.000 17.11 0.00 36.15 4.04
154 155 2.512885 CAAAGTGTGATGCGCAATCTC 58.487 47.619 17.11 8.66 36.15 2.75
155 156 1.401931 GCAAAGTGTGATGCGCAATCT 60.402 47.619 17.11 0.00 36.15 2.40
156 157 0.986992 GCAAAGTGTGATGCGCAATC 59.013 50.000 17.11 13.45 35.67 2.67
157 158 0.388907 GGCAAAGTGTGATGCGCAAT 60.389 50.000 17.11 2.42 43.47 3.56
158 159 1.007502 GGCAAAGTGTGATGCGCAA 60.008 52.632 17.11 0.00 43.47 4.85
159 160 1.454572 AAGGCAAAGTGTGATGCGCA 61.455 50.000 14.96 14.96 43.47 6.09
160 161 0.318955 AAAGGCAAAGTGTGATGCGC 60.319 50.000 0.00 0.00 43.47 6.09
161 162 1.411394 CAAAGGCAAAGTGTGATGCG 58.589 50.000 0.00 0.00 43.47 4.73
162 163 1.606224 CCCAAAGGCAAAGTGTGATGC 60.606 52.381 0.00 0.00 41.82 3.91
163 164 1.962807 TCCCAAAGGCAAAGTGTGATG 59.037 47.619 0.00 0.00 0.00 3.07
164 165 2.158475 TCTCCCAAAGGCAAAGTGTGAT 60.158 45.455 0.00 0.00 0.00 3.06
165 166 1.214175 TCTCCCAAAGGCAAAGTGTGA 59.786 47.619 0.00 0.00 0.00 3.58
166 167 1.691196 TCTCCCAAAGGCAAAGTGTG 58.309 50.000 0.00 0.00 0.00 3.82
167 168 2.091885 TCTTCTCCCAAAGGCAAAGTGT 60.092 45.455 0.00 0.00 0.00 3.55
168 169 2.586425 TCTTCTCCCAAAGGCAAAGTG 58.414 47.619 0.00 0.00 0.00 3.16
169 170 3.312736 TTCTTCTCCCAAAGGCAAAGT 57.687 42.857 0.00 0.00 0.00 2.66
170 171 4.141959 TGTTTTCTTCTCCCAAAGGCAAAG 60.142 41.667 0.00 0.00 0.00 2.77
171 172 3.772025 TGTTTTCTTCTCCCAAAGGCAAA 59.228 39.130 0.00 0.00 0.00 3.68
172 173 3.370104 TGTTTTCTTCTCCCAAAGGCAA 58.630 40.909 0.00 0.00 0.00 4.52
173 174 3.025322 TGTTTTCTTCTCCCAAAGGCA 57.975 42.857 0.00 0.00 0.00 4.75
174 175 3.636764 TCTTGTTTTCTTCTCCCAAAGGC 59.363 43.478 0.00 0.00 0.00 4.35
175 176 5.852282 TTCTTGTTTTCTTCTCCCAAAGG 57.148 39.130 0.00 0.00 0.00 3.11
176 177 9.987272 ATAATTTCTTGTTTTCTTCTCCCAAAG 57.013 29.630 0.00 0.00 0.00 2.77
177 178 9.981114 GATAATTTCTTGTTTTCTTCTCCCAAA 57.019 29.630 0.00 0.00 0.00 3.28
178 179 9.142014 TGATAATTTCTTGTTTTCTTCTCCCAA 57.858 29.630 0.00 0.00 0.00 4.12
179 180 8.704849 TGATAATTTCTTGTTTTCTTCTCCCA 57.295 30.769 0.00 0.00 0.00 4.37
180 181 9.794685 GATGATAATTTCTTGTTTTCTTCTCCC 57.205 33.333 0.00 0.00 0.00 4.30
181 182 9.794685 GGATGATAATTTCTTGTTTTCTTCTCC 57.205 33.333 0.00 0.00 0.00 3.71
244 245 9.799106 AGCTAATCAATATTATTGTAGTGCCTT 57.201 29.630 14.48 3.79 0.00 4.35
333 335 3.537580 TCGGTGCCCTTGTAACATATTC 58.462 45.455 0.00 0.00 0.00 1.75
339 341 0.953960 CCACTCGGTGCCCTTGTAAC 60.954 60.000 0.00 0.00 31.34 2.50
352 354 8.965172 GTGTAGTTGATGTATATTTACCACTCG 58.035 37.037 0.00 0.00 0.00 4.18
369 371 7.283354 TGTTGGAAATTACACATGTGTAGTTGA 59.717 33.333 34.02 23.14 45.57 3.18
378 380 8.824781 TCAATTGTTTGTTGGAAATTACACATG 58.175 29.630 5.13 0.00 34.32 3.21
382 384 9.829507 AAGATCAATTGTTTGTTGGAAATTACA 57.170 25.926 5.13 0.00 34.32 2.41
400 402 5.298276 GTCGACTGAGGAGACTAAGATCAAT 59.702 44.000 8.70 0.00 42.17 2.57
406 408 2.993937 AGGTCGACTGAGGAGACTAAG 58.006 52.381 16.46 0.00 45.47 2.18
424 426 1.393539 CTGCACGGATTTTACGTCAGG 59.606 52.381 0.00 0.00 43.58 3.86
426 428 1.434555 CCTGCACGGATTTTACGTCA 58.565 50.000 0.00 0.00 43.58 4.35
436 438 2.279935 ATTGTAAAACCCTGCACGGA 57.720 45.000 8.88 0.00 33.16 4.69
444 446 6.360414 CGTAGTTCCGAAAAATTGTAAAACCC 59.640 38.462 0.00 0.00 0.00 4.11
452 454 5.981174 TGTTCTCGTAGTTCCGAAAAATTG 58.019 37.500 0.00 0.00 36.24 2.32
460 462 3.846360 AGGATTTGTTCTCGTAGTTCCG 58.154 45.455 0.00 0.00 0.00 4.30
461 463 4.142881 GCAAGGATTTGTTCTCGTAGTTCC 60.143 45.833 0.00 0.00 36.65 3.62
462 464 4.451096 TGCAAGGATTTGTTCTCGTAGTTC 59.549 41.667 0.00 0.00 36.65 3.01
463 465 4.385825 TGCAAGGATTTGTTCTCGTAGTT 58.614 39.130 0.00 0.00 36.65 2.24
464 466 4.002906 TGCAAGGATTTGTTCTCGTAGT 57.997 40.909 0.00 0.00 36.65 2.73
465 467 6.851222 ATATGCAAGGATTTGTTCTCGTAG 57.149 37.500 0.00 0.00 36.65 3.51
466 468 6.597672 ACAATATGCAAGGATTTGTTCTCGTA 59.402 34.615 0.00 0.00 36.65 3.43
467 469 5.415701 ACAATATGCAAGGATTTGTTCTCGT 59.584 36.000 0.00 0.00 36.65 4.18
468 470 5.883661 ACAATATGCAAGGATTTGTTCTCG 58.116 37.500 0.00 0.00 36.65 4.04
469 471 6.035327 GCAACAATATGCAAGGATTTGTTCTC 59.965 38.462 10.80 5.38 45.70 2.87
470 472 5.870978 GCAACAATATGCAAGGATTTGTTCT 59.129 36.000 10.80 0.00 45.70 3.01
490 492 7.807433 TGTAACAATATGTTCATCTTGTGCAAC 59.193 33.333 14.18 13.01 40.22 4.17
550 552 6.657541 GTGGACCCACAAATAACTAAATCTCA 59.342 38.462 13.92 0.00 45.53 3.27
551 553 7.085052 GTGGACCCACAAATAACTAAATCTC 57.915 40.000 13.92 0.00 45.53 2.75
566 568 5.925509 ACATATACTATTGTGTGGACCCAC 58.074 41.667 12.07 12.07 46.33 4.61
585 587 5.825151 TGATTTGTTCAGTTGGTGTGACATA 59.175 36.000 0.00 0.00 0.00 2.29
586 588 4.644234 TGATTTGTTCAGTTGGTGTGACAT 59.356 37.500 0.00 0.00 0.00 3.06
587 589 4.013050 TGATTTGTTCAGTTGGTGTGACA 58.987 39.130 0.00 0.00 0.00 3.58
588 590 4.630894 TGATTTGTTCAGTTGGTGTGAC 57.369 40.909 0.00 0.00 0.00 3.67
595 603 7.706179 ACCTTGTTGTATTGATTTGTTCAGTTG 59.294 33.333 0.00 0.00 35.27 3.16
604 612 9.612066 AAAATGTTCACCTTGTTGTATTGATTT 57.388 25.926 0.00 0.00 0.00 2.17
733 741 1.519408 ACGTTAGTTGGTGTCATGGC 58.481 50.000 0.00 0.00 0.00 4.40
763 1070 1.878522 GCCATGTACTCGTCGGCAG 60.879 63.158 0.00 0.00 42.50 4.85
802 1114 3.452627 ACATGAGATCAACTGGGTAGGTC 59.547 47.826 0.00 0.00 0.00 3.85
819 1131 0.666274 GTGAACCGCGTCTGACATGA 60.666 55.000 4.92 0.00 0.00 3.07
831 1143 1.651987 ACAGTGACACAAGTGAACCG 58.348 50.000 8.59 0.63 0.00 4.44
859 1178 0.392327 GGGGAAGCTGAGAGTTGCTC 60.392 60.000 0.00 0.00 44.21 4.26
871 1190 1.474330 CTATGGTTTGGTGGGGAAGC 58.526 55.000 0.00 0.00 0.00 3.86
887 1206 6.012421 GGAGATGGGGTTTATAAAGGAGCTAT 60.012 42.308 0.00 0.00 0.00 2.97
915 1238 1.523938 GTGCGGTGGGATTAGAGGC 60.524 63.158 0.00 0.00 0.00 4.70
929 1252 1.749634 AGGTACTGGTTAGCTAGTGCG 59.250 52.381 5.84 0.00 40.81 5.34
958 1281 0.394192 TTGCTGTCTGTGGAGTGGAG 59.606 55.000 0.00 0.00 0.00 3.86
1065 1395 4.814294 GACGAGGCGGCGATGGTT 62.814 66.667 12.98 0.00 34.83 3.67
1290 1620 4.023234 ACCATGCCCGTGCCGTTA 62.023 61.111 0.00 0.00 36.33 3.18
1593 1923 1.450312 GATGGTGCCCGTTGAGAGG 60.450 63.158 0.00 0.00 0.00 3.69
1599 1929 0.322098 TGAAATCGATGGTGCCCGTT 60.322 50.000 0.00 0.00 0.00 4.44
1637 1967 5.121454 CCTACGAACGTACTCCATATACTCC 59.879 48.000 2.89 0.00 0.00 3.85
1638 1968 5.698545 ACCTACGAACGTACTCCATATACTC 59.301 44.000 2.89 0.00 0.00 2.59
1639 1969 5.615289 ACCTACGAACGTACTCCATATACT 58.385 41.667 2.89 0.00 0.00 2.12
1640 1970 5.931441 ACCTACGAACGTACTCCATATAC 57.069 43.478 2.89 0.00 0.00 1.47
1645 1975 2.355756 GCATACCTACGAACGTACTCCA 59.644 50.000 2.89 0.00 0.00 3.86
1719 2057 4.954202 ACCGATATATAAAGGGAGCGATGA 59.046 41.667 10.46 0.00 0.00 2.92
1741 2081 5.200454 CGCTGAATACAAGCATTCATACAC 58.800 41.667 0.00 0.00 42.49 2.90
1794 2140 0.790814 GCCGAGCACAAGTTAGACAC 59.209 55.000 0.00 0.00 0.00 3.67
1798 2144 1.933853 GGTATGCCGAGCACAAGTTAG 59.066 52.381 0.50 0.00 43.04 2.34
1802 2148 1.819632 GGGGTATGCCGAGCACAAG 60.820 63.158 0.50 0.00 43.04 3.16
1866 2221 1.525535 GCGCAGGCATCTGAATCCT 60.526 57.895 0.30 0.00 43.49 3.24
1935 2298 2.224185 TGGATTATGGACCGTGATTCCG 60.224 50.000 0.00 0.00 35.70 4.30
1936 2299 3.485463 TGGATTATGGACCGTGATTCC 57.515 47.619 0.00 0.80 0.00 3.01
1937 2300 7.280205 GGTTATATGGATTATGGACCGTGATTC 59.720 40.741 0.00 0.00 0.00 2.52
1938 2301 7.110155 GGTTATATGGATTATGGACCGTGATT 58.890 38.462 0.00 0.00 0.00 2.57
1939 2302 6.352737 GGGTTATATGGATTATGGACCGTGAT 60.353 42.308 0.00 0.00 32.60 3.06
1940 2303 5.046159 GGGTTATATGGATTATGGACCGTGA 60.046 44.000 0.00 0.00 32.60 4.35
1941 2304 5.183228 GGGTTATATGGATTATGGACCGTG 58.817 45.833 0.00 0.00 32.60 4.94
1942 2305 4.847512 TGGGTTATATGGATTATGGACCGT 59.152 41.667 0.00 0.00 32.60 4.83
1943 2306 5.429681 TGGGTTATATGGATTATGGACCG 57.570 43.478 0.00 0.00 32.60 4.79
1944 2307 6.969043 TGATGGGTTATATGGATTATGGACC 58.031 40.000 0.00 0.00 31.74 4.46
1945 2308 7.861629 TCTGATGGGTTATATGGATTATGGAC 58.138 38.462 0.00 0.00 0.00 4.02
1946 2309 8.328758 GTTCTGATGGGTTATATGGATTATGGA 58.671 37.037 0.00 0.00 0.00 3.41
1947 2310 7.557719 GGTTCTGATGGGTTATATGGATTATGG 59.442 40.741 0.00 0.00 0.00 2.74
1948 2311 8.331740 AGGTTCTGATGGGTTATATGGATTATG 58.668 37.037 0.00 0.00 0.00 1.90
1949 2312 8.468547 AGGTTCTGATGGGTTATATGGATTAT 57.531 34.615 0.00 0.00 0.00 1.28
1950 2313 7.888514 AGGTTCTGATGGGTTATATGGATTA 57.111 36.000 0.00 0.00 0.00 1.75
1951 2314 6.786843 AGGTTCTGATGGGTTATATGGATT 57.213 37.500 0.00 0.00 0.00 3.01
1952 2315 6.069963 GCTAGGTTCTGATGGGTTATATGGAT 60.070 42.308 0.00 0.00 0.00 3.41
1966 2329 2.883572 GGACCGAGCTAGGTTCTGA 58.116 57.895 20.34 0.00 46.09 3.27
1973 2336 0.741915 GTTCCAGAGGACCGAGCTAG 59.258 60.000 0.00 0.00 0.00 3.42
1974 2337 0.683504 GGTTCCAGAGGACCGAGCTA 60.684 60.000 0.00 0.00 0.00 3.32
1976 2339 2.579738 GGTTCCAGAGGACCGAGC 59.420 66.667 0.00 0.00 0.00 5.03
1994 2382 0.367210 GAAGCGCAAAGACGAGCTAC 59.633 55.000 11.47 0.00 41.51 3.58
2059 2466 2.427753 GGGAGATGCCGGGACATC 59.572 66.667 18.06 18.06 45.62 3.06
2285 2703 4.457496 CCATGAGCAGCGACGGGT 62.457 66.667 0.00 0.00 0.00 5.28
2333 2751 1.267136 CGCTGTCGTTTTTGTTCGTGA 60.267 47.619 0.00 0.00 0.00 4.35
2530 2957 2.685100 CTTCCGTTCTGGTAAGGTGAC 58.315 52.381 0.00 0.00 39.52 3.67
2541 2968 3.673594 CGAAGATGTAGTGCTTCCGTTCT 60.674 47.826 0.00 0.00 37.76 3.01
2601 3038 2.232941 CCTCGCCACCTTGTACTTCTTA 59.767 50.000 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.