Multiple sequence alignment - TraesCS5D01G167300

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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 TraesCS5D01G167300 chr5D 100.000 3092 0 0 1 3092 260690237 260687146 0.000000e+00 5710.0
1 TraesCS5D01G167300 chr5D 98.935 2818 28 2 276 3092 565815802 565818618 0.000000e+00 5036.0
2 TraesCS5D01G167300 chr5D 98.261 2818 46 3 276 3092 75136832 75134017 0.000000e+00 4929.0
3 TraesCS5D01G167300 chr5D 84.270 89 4 3 2 90 514434856 514434934 9.190000e-11 78.7
4 TraesCS5D01G167300 chr7D 98.900 2818 28 3 276 3092 54583766 54580951 0.000000e+00 5029.0
5 TraesCS5D01G167300 chr7D 98.722 2818 35 1 276 3092 245402431 245399614 0.000000e+00 5003.0
6 TraesCS5D01G167300 chr7D 98.546 2819 40 1 275 3092 115100271 115103089 0.000000e+00 4977.0
7 TraesCS5D01G167300 chr7D 90.909 88 8 0 3 90 40412713 40412626 5.420000e-23 119.0
8 TraesCS5D01G167300 chr6D 98.722 2818 36 0 275 3092 51499463 51502280 0.000000e+00 5005.0
9 TraesCS5D01G167300 chr6D 98.404 2819 38 5 276 3092 472510963 472513776 0.000000e+00 4950.0
10 TraesCS5D01G167300 chr6D 84.211 114 10 4 163 275 82470203 82470309 1.520000e-18 104.0
11 TraesCS5D01G167300 chr4D 98.297 2819 41 4 275 3092 164897179 164899991 0.000000e+00 4933.0
12 TraesCS5D01G167300 chr4D 90.909 187 10 4 91 275 215144420 215144601 8.560000e-61 244.0
13 TraesCS5D01G167300 chr4D 96.739 92 3 0 2 93 215144939 215145030 1.480000e-33 154.0
14 TraesCS5D01G167300 chr1D 98.226 2818 46 4 276 3092 22577395 22574581 0.000000e+00 4924.0
15 TraesCS5D01G167300 chr2B 88.235 187 17 4 91 275 138994566 138994383 5.190000e-53 219.0
16 TraesCS5D01G167300 chr2B 87.166 187 18 4 91 275 138996478 138996660 1.120000e-49 207.0
17 TraesCS5D01G167300 chr7B 85.027 187 23 3 91 275 120792778 120792595 5.270000e-43 185.0
18 TraesCS5D01G167300 chr6A 93.333 90 6 0 1 90 233350254 233350165 1.930000e-27 134.0
19 TraesCS5D01G167300 chr1B 91.765 85 7 0 3 87 601271179 601271095 5.420000e-23 119.0
20 TraesCS5D01G167300 chr1B 90.000 90 8 1 1 90 458379907 458379819 7.010000e-22 115.0
21 TraesCS5D01G167300 chr6B 90.000 90 9 0 3 92 213322136 213322047 1.950000e-22 117.0
22 TraesCS5D01G167300 chr1A 90.698 86 8 0 3 88 517177487 517177572 7.010000e-22 115.0


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 TraesCS5D01G167300 chr5D 260687146 260690237 3091 True 5710 5710 100.000 1 3092 1 chr5D.!!$R2 3091
1 TraesCS5D01G167300 chr5D 565815802 565818618 2816 False 5036 5036 98.935 276 3092 1 chr5D.!!$F2 2816
2 TraesCS5D01G167300 chr5D 75134017 75136832 2815 True 4929 4929 98.261 276 3092 1 chr5D.!!$R1 2816
3 TraesCS5D01G167300 chr7D 54580951 54583766 2815 True 5029 5029 98.900 276 3092 1 chr7D.!!$R2 2816
4 TraesCS5D01G167300 chr7D 245399614 245402431 2817 True 5003 5003 98.722 276 3092 1 chr7D.!!$R3 2816
5 TraesCS5D01G167300 chr7D 115100271 115103089 2818 False 4977 4977 98.546 275 3092 1 chr7D.!!$F1 2817
6 TraesCS5D01G167300 chr6D 51499463 51502280 2817 False 5005 5005 98.722 275 3092 1 chr6D.!!$F1 2817
7 TraesCS5D01G167300 chr6D 472510963 472513776 2813 False 4950 4950 98.404 276 3092 1 chr6D.!!$F3 2816
8 TraesCS5D01G167300 chr4D 164897179 164899991 2812 False 4933 4933 98.297 275 3092 1 chr4D.!!$F1 2817
9 TraesCS5D01G167300 chr1D 22574581 22577395 2814 True 4924 4924 98.226 276 3092 1 chr1D.!!$R1 2816

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
106 107 1.005332 ACTGCTAGAGACCTCAGCTCA 59.995 52.381 16.43 3.57 35.91 4.26 F
108 109 1.283321 TGCTAGAGACCTCAGCTCAGA 59.717 52.381 16.43 0.00 35.91 3.27 F
1022 1024 1.476165 AGGAGACCCCTGACACCAT 59.524 57.895 0.00 0.00 45.61 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1022 1024 1.048601 ACAGAAAAGAGGCTCCACGA 58.951 50.000 11.71 0.0 0.00 4.35 R
1060 1062 2.279842 GCATCATGCAGGTGGGTTT 58.720 52.632 4.20 0.0 44.26 3.27 R
2509 2511 1.462432 TAGAGGTGGGGTGTGGCAA 60.462 57.895 0.00 0.0 0.00 4.52 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
26 27 8.884124 AAGAGAGTTTATTCCCATGAAAATCA 57.116 30.769 0.00 0.00 33.32 2.57
27 28 8.884124 AGAGAGTTTATTCCCATGAAAATCAA 57.116 30.769 0.00 0.00 33.32 2.57
28 29 8.964772 AGAGAGTTTATTCCCATGAAAATCAAG 58.035 33.333 0.00 0.00 33.32 3.02
29 30 7.550712 AGAGTTTATTCCCATGAAAATCAAGC 58.449 34.615 0.00 0.00 33.32 4.01
30 31 6.332630 AGTTTATTCCCATGAAAATCAAGCG 58.667 36.000 0.00 0.00 33.32 4.68
31 32 5.913137 TTATTCCCATGAAAATCAAGCGT 57.087 34.783 0.00 0.00 33.32 5.07
32 33 3.574284 TTCCCATGAAAATCAAGCGTG 57.426 42.857 0.00 0.00 0.00 5.34
33 34 2.789213 TCCCATGAAAATCAAGCGTGA 58.211 42.857 4.40 4.40 38.41 4.35
34 35 2.749076 TCCCATGAAAATCAAGCGTGAG 59.251 45.455 8.63 0.00 37.14 3.51
35 36 2.749076 CCCATGAAAATCAAGCGTGAGA 59.251 45.455 8.63 0.00 37.14 3.27
36 37 3.191162 CCCATGAAAATCAAGCGTGAGAA 59.809 43.478 8.63 0.00 37.14 2.87
37 38 4.321156 CCCATGAAAATCAAGCGTGAGAAA 60.321 41.667 8.63 0.00 37.14 2.52
38 39 5.221880 CCATGAAAATCAAGCGTGAGAAAA 58.778 37.500 8.63 0.00 37.14 2.29
39 40 5.691305 CCATGAAAATCAAGCGTGAGAAAAA 59.309 36.000 8.63 0.00 37.14 1.94
40 41 6.366877 CCATGAAAATCAAGCGTGAGAAAAAT 59.633 34.615 8.63 0.00 37.14 1.82
41 42 7.541783 CCATGAAAATCAAGCGTGAGAAAAATA 59.458 33.333 8.63 0.00 37.14 1.40
42 43 8.581263 CATGAAAATCAAGCGTGAGAAAAATAG 58.419 33.333 8.63 0.00 37.14 1.73
43 44 7.083858 TGAAAATCAAGCGTGAGAAAAATAGG 58.916 34.615 8.63 0.00 37.14 2.57
44 45 5.567138 AATCAAGCGTGAGAAAAATAGGG 57.433 39.130 8.63 0.00 37.14 3.53
45 46 4.015872 TCAAGCGTGAGAAAAATAGGGT 57.984 40.909 0.00 0.00 0.00 4.34
46 47 3.751175 TCAAGCGTGAGAAAAATAGGGTG 59.249 43.478 0.00 0.00 0.00 4.61
47 48 2.711542 AGCGTGAGAAAAATAGGGTGG 58.288 47.619 0.00 0.00 0.00 4.61
48 49 1.132453 GCGTGAGAAAAATAGGGTGGC 59.868 52.381 0.00 0.00 0.00 5.01
49 50 2.432444 CGTGAGAAAAATAGGGTGGCA 58.568 47.619 0.00 0.00 0.00 4.92
50 51 2.817258 CGTGAGAAAAATAGGGTGGCAA 59.183 45.455 0.00 0.00 0.00 4.52
51 52 3.254657 CGTGAGAAAAATAGGGTGGCAAA 59.745 43.478 0.00 0.00 0.00 3.68
52 53 4.082245 CGTGAGAAAAATAGGGTGGCAAAT 60.082 41.667 0.00 0.00 0.00 2.32
53 54 5.566627 CGTGAGAAAAATAGGGTGGCAAATT 60.567 40.000 0.00 0.00 0.00 1.82
54 55 5.639082 GTGAGAAAAATAGGGTGGCAAATTG 59.361 40.000 0.00 0.00 0.00 2.32
55 56 5.164620 AGAAAAATAGGGTGGCAAATTGG 57.835 39.130 0.00 0.00 0.00 3.16
56 57 4.597075 AGAAAAATAGGGTGGCAAATTGGT 59.403 37.500 0.00 0.00 0.00 3.67
57 58 4.991789 AAAATAGGGTGGCAAATTGGTT 57.008 36.364 0.00 0.00 0.00 3.67
58 59 3.979101 AATAGGGTGGCAAATTGGTTG 57.021 42.857 0.00 0.00 40.50 3.77
59 60 2.685106 TAGGGTGGCAAATTGGTTGA 57.315 45.000 0.00 0.00 39.87 3.18
60 61 1.047801 AGGGTGGCAAATTGGTTGAC 58.952 50.000 0.00 0.00 46.59 3.18
65 66 2.723124 GGCAAATTGGTTGACGTCAT 57.277 45.000 20.80 0.00 39.87 3.06
66 67 3.840890 GGCAAATTGGTTGACGTCATA 57.159 42.857 20.80 7.70 39.87 2.15
67 68 4.370364 GGCAAATTGGTTGACGTCATAT 57.630 40.909 20.80 8.01 39.87 1.78
68 69 5.493133 GGCAAATTGGTTGACGTCATATA 57.507 39.130 20.80 0.76 39.87 0.86
69 70 5.510671 GGCAAATTGGTTGACGTCATATAG 58.489 41.667 20.80 5.63 39.87 1.31
70 71 5.065988 GGCAAATTGGTTGACGTCATATAGT 59.934 40.000 20.80 3.23 39.87 2.12
71 72 6.192360 GCAAATTGGTTGACGTCATATAGTC 58.808 40.000 20.80 6.26 39.87 2.59
72 73 6.410845 CAAATTGGTTGACGTCATATAGTCG 58.589 40.000 20.80 1.37 39.87 4.18
73 74 4.968812 TTGGTTGACGTCATATAGTCGA 57.031 40.909 20.80 0.00 40.05 4.20
74 75 4.547406 TGGTTGACGTCATATAGTCGAG 57.453 45.455 20.80 0.00 40.05 4.04
75 76 3.943381 TGGTTGACGTCATATAGTCGAGT 59.057 43.478 20.80 0.00 40.05 4.18
76 77 5.118286 TGGTTGACGTCATATAGTCGAGTA 58.882 41.667 20.80 1.68 40.05 2.59
77 78 5.235831 TGGTTGACGTCATATAGTCGAGTAG 59.764 44.000 20.80 0.00 40.05 2.57
78 79 5.464722 GGTTGACGTCATATAGTCGAGTAGA 59.535 44.000 20.80 1.11 40.05 2.59
79 80 6.018425 GGTTGACGTCATATAGTCGAGTAGAA 60.018 42.308 20.80 0.00 40.05 2.10
80 81 7.404985 GTTGACGTCATATAGTCGAGTAGAAA 58.595 38.462 20.80 0.00 40.05 2.52
81 82 7.175073 TGACGTCATATAGTCGAGTAGAAAG 57.825 40.000 15.76 0.00 40.05 2.62
82 83 6.760298 TGACGTCATATAGTCGAGTAGAAAGT 59.240 38.462 15.76 2.52 40.05 2.66
83 84 7.922811 TGACGTCATATAGTCGAGTAGAAAGTA 59.077 37.037 15.76 0.00 40.05 2.24
84 85 8.296799 ACGTCATATAGTCGAGTAGAAAGTAG 57.703 38.462 6.10 0.00 33.00 2.57
85 86 7.925483 ACGTCATATAGTCGAGTAGAAAGTAGT 59.075 37.037 6.10 0.00 33.00 2.73
86 87 9.404348 CGTCATATAGTCGAGTAGAAAGTAGTA 57.596 37.037 6.10 0.00 0.00 1.82
90 91 5.799681 AGTCGAGTAGAAAGTAGTACTGC 57.200 43.478 5.39 3.75 29.34 4.40
91 92 5.490159 AGTCGAGTAGAAAGTAGTACTGCT 58.510 41.667 7.78 7.78 29.34 4.24
92 93 6.638610 AGTCGAGTAGAAAGTAGTACTGCTA 58.361 40.000 14.28 6.35 29.34 3.49
93 94 6.757947 AGTCGAGTAGAAAGTAGTACTGCTAG 59.242 42.308 14.28 0.00 29.34 3.42
94 95 6.756074 GTCGAGTAGAAAGTAGTACTGCTAGA 59.244 42.308 14.28 0.00 29.34 2.43
95 96 6.979817 TCGAGTAGAAAGTAGTACTGCTAGAG 59.020 42.308 14.28 4.23 29.34 2.43
96 97 6.979817 CGAGTAGAAAGTAGTACTGCTAGAGA 59.020 42.308 14.28 0.00 29.34 3.10
97 98 7.043192 CGAGTAGAAAGTAGTACTGCTAGAGAC 60.043 44.444 14.28 10.16 29.34 3.36
98 99 7.049754 AGTAGAAAGTAGTACTGCTAGAGACC 58.950 42.308 14.28 1.77 0.00 3.85
99 100 6.069705 AGAAAGTAGTACTGCTAGAGACCT 57.930 41.667 14.28 3.06 0.00 3.85
100 101 6.117488 AGAAAGTAGTACTGCTAGAGACCTC 58.883 44.000 14.28 3.31 0.00 3.85
101 102 5.438698 AAGTAGTACTGCTAGAGACCTCA 57.561 43.478 14.28 0.00 0.00 3.86
102 103 5.031066 AGTAGTACTGCTAGAGACCTCAG 57.969 47.826 12.23 0.00 0.00 3.35
103 104 2.650322 AGTACTGCTAGAGACCTCAGC 58.350 52.381 0.00 11.73 35.66 4.26
104 105 2.241176 AGTACTGCTAGAGACCTCAGCT 59.759 50.000 16.43 0.00 35.91 4.24
105 106 1.762708 ACTGCTAGAGACCTCAGCTC 58.237 55.000 16.43 0.00 35.91 4.09
106 107 1.005332 ACTGCTAGAGACCTCAGCTCA 59.995 52.381 16.43 3.57 35.91 4.26
107 108 1.677576 CTGCTAGAGACCTCAGCTCAG 59.322 57.143 16.43 0.00 35.91 3.35
108 109 1.283321 TGCTAGAGACCTCAGCTCAGA 59.717 52.381 16.43 0.00 35.91 3.27
109 110 1.676006 GCTAGAGACCTCAGCTCAGAC 59.324 57.143 0.00 0.00 34.85 3.51
110 111 2.943646 GCTAGAGACCTCAGCTCAGACA 60.944 54.545 0.00 0.00 34.85 3.41
111 112 2.300956 AGAGACCTCAGCTCAGACAA 57.699 50.000 0.00 0.00 34.85 3.18
112 113 2.818921 AGAGACCTCAGCTCAGACAAT 58.181 47.619 0.00 0.00 34.85 2.71
113 114 3.172339 AGAGACCTCAGCTCAGACAATT 58.828 45.455 0.00 0.00 34.85 2.32
114 115 3.582208 AGAGACCTCAGCTCAGACAATTT 59.418 43.478 0.00 0.00 34.85 1.82
115 116 3.672808 AGACCTCAGCTCAGACAATTTG 58.327 45.455 0.00 0.00 0.00 2.32
116 117 3.072184 AGACCTCAGCTCAGACAATTTGT 59.928 43.478 0.63 0.63 0.00 2.83
117 118 4.284490 AGACCTCAGCTCAGACAATTTGTA 59.716 41.667 1.15 0.00 0.00 2.41
118 119 4.319177 ACCTCAGCTCAGACAATTTGTAC 58.681 43.478 1.15 0.00 0.00 2.90
119 120 4.040952 ACCTCAGCTCAGACAATTTGTACT 59.959 41.667 1.15 0.00 0.00 2.73
120 121 4.999950 CCTCAGCTCAGACAATTTGTACTT 59.000 41.667 1.15 0.00 0.00 2.24
121 122 5.106791 CCTCAGCTCAGACAATTTGTACTTG 60.107 44.000 1.15 2.40 0.00 3.16
122 123 4.214119 TCAGCTCAGACAATTTGTACTTGC 59.786 41.667 1.15 5.64 0.00 4.01
123 124 4.023792 CAGCTCAGACAATTTGTACTTGCA 60.024 41.667 1.15 0.00 0.00 4.08
124 125 4.023707 AGCTCAGACAATTTGTACTTGCAC 60.024 41.667 1.15 0.00 0.00 4.57
125 126 4.261155 GCTCAGACAATTTGTACTTGCACA 60.261 41.667 1.15 0.00 0.00 4.57
126 127 5.168526 TCAGACAATTTGTACTTGCACAC 57.831 39.130 1.15 0.00 0.00 3.82
127 128 4.637977 TCAGACAATTTGTACTTGCACACA 59.362 37.500 1.15 0.00 0.00 3.72
128 129 5.299028 TCAGACAATTTGTACTTGCACACAT 59.701 36.000 1.15 0.00 0.00 3.21
129 130 5.400188 CAGACAATTTGTACTTGCACACATG 59.600 40.000 1.15 0.00 0.00 3.21
130 131 4.619973 ACAATTTGTACTTGCACACATGG 58.380 39.130 0.00 0.00 0.00 3.66
131 132 3.940209 ATTTGTACTTGCACACATGGG 57.060 42.857 0.00 0.00 0.00 4.00
132 133 2.356665 TTGTACTTGCACACATGGGT 57.643 45.000 0.00 0.00 0.00 4.51
133 134 3.493767 TTGTACTTGCACACATGGGTA 57.506 42.857 0.00 0.00 0.00 3.69
134 135 2.773487 TGTACTTGCACACATGGGTAC 58.227 47.619 0.00 0.00 32.31 3.34
150 151 2.590821 GGTACCTACTTCCTATGCGGA 58.409 52.381 4.06 0.00 41.06 5.54
151 152 2.295629 GGTACCTACTTCCTATGCGGAC 59.704 54.545 4.06 0.00 42.97 4.79
152 153 2.456073 ACCTACTTCCTATGCGGACT 57.544 50.000 0.00 0.00 42.97 3.85
153 154 2.308690 ACCTACTTCCTATGCGGACTC 58.691 52.381 0.00 0.00 42.97 3.36
154 155 2.091775 ACCTACTTCCTATGCGGACTCT 60.092 50.000 0.00 0.00 42.97 3.24
155 156 2.959707 CCTACTTCCTATGCGGACTCTT 59.040 50.000 0.00 0.00 42.97 2.85
156 157 3.004944 CCTACTTCCTATGCGGACTCTTC 59.995 52.174 0.00 0.00 42.97 2.87
157 158 2.741145 ACTTCCTATGCGGACTCTTCT 58.259 47.619 0.00 0.00 42.97 2.85
158 159 3.100671 ACTTCCTATGCGGACTCTTCTT 58.899 45.455 0.00 0.00 42.97 2.52
159 160 3.515901 ACTTCCTATGCGGACTCTTCTTT 59.484 43.478 0.00 0.00 42.97 2.52
160 161 4.020128 ACTTCCTATGCGGACTCTTCTTTT 60.020 41.667 0.00 0.00 42.97 2.27
161 162 4.553330 TCCTATGCGGACTCTTCTTTTT 57.447 40.909 0.00 0.00 36.69 1.94
162 163 5.670792 TCCTATGCGGACTCTTCTTTTTA 57.329 39.130 0.00 0.00 36.69 1.52
163 164 5.661458 TCCTATGCGGACTCTTCTTTTTAG 58.339 41.667 0.00 0.00 36.69 1.85
164 165 4.271291 CCTATGCGGACTCTTCTTTTTAGC 59.729 45.833 0.00 0.00 33.16 3.09
165 166 3.402628 TGCGGACTCTTCTTTTTAGCT 57.597 42.857 0.00 0.00 0.00 3.32
166 167 3.067106 TGCGGACTCTTCTTTTTAGCTG 58.933 45.455 0.00 0.00 0.00 4.24
167 168 2.159639 GCGGACTCTTCTTTTTAGCTGC 60.160 50.000 0.00 0.00 0.00 5.25
168 169 3.330267 CGGACTCTTCTTTTTAGCTGCT 58.670 45.455 7.57 7.57 0.00 4.24
169 170 3.369451 CGGACTCTTCTTTTTAGCTGCTC 59.631 47.826 4.91 0.00 0.00 4.26
170 171 4.574892 GGACTCTTCTTTTTAGCTGCTCT 58.425 43.478 4.91 0.00 0.00 4.09
171 172 5.000591 GGACTCTTCTTTTTAGCTGCTCTT 58.999 41.667 4.91 0.00 0.00 2.85
172 173 5.471797 GGACTCTTCTTTTTAGCTGCTCTTT 59.528 40.000 4.91 0.00 0.00 2.52
173 174 6.016693 GGACTCTTCTTTTTAGCTGCTCTTTT 60.017 38.462 4.91 0.00 0.00 2.27
174 175 7.340122 ACTCTTCTTTTTAGCTGCTCTTTTT 57.660 32.000 4.91 0.00 0.00 1.94
242 243 7.768807 AAAATACAGTTTGGCCATTACTACA 57.231 32.000 17.82 10.70 0.00 2.74
243 244 7.391148 AAATACAGTTTGGCCATTACTACAG 57.609 36.000 17.82 10.42 0.00 2.74
244 245 4.367039 ACAGTTTGGCCATTACTACAGT 57.633 40.909 17.82 10.94 0.00 3.55
245 246 5.492855 ACAGTTTGGCCATTACTACAGTA 57.507 39.130 17.82 0.00 0.00 2.74
246 247 6.062258 ACAGTTTGGCCATTACTACAGTAT 57.938 37.500 17.82 1.56 0.00 2.12
247 248 6.481643 ACAGTTTGGCCATTACTACAGTATT 58.518 36.000 17.82 0.00 0.00 1.89
248 249 7.626390 ACAGTTTGGCCATTACTACAGTATTA 58.374 34.615 17.82 0.00 0.00 0.98
249 250 8.104566 ACAGTTTGGCCATTACTACAGTATTAA 58.895 33.333 17.82 0.00 0.00 1.40
250 251 8.952278 CAGTTTGGCCATTACTACAGTATTAAA 58.048 33.333 17.82 0.00 0.00 1.52
251 252 9.523168 AGTTTGGCCATTACTACAGTATTAAAA 57.477 29.630 17.01 0.00 0.00 1.52
254 255 9.688091 TTGGCCATTACTACAGTATTAAAATCA 57.312 29.630 6.09 0.00 0.00 2.57
255 256 9.116067 TGGCCATTACTACAGTATTAAAATCAC 57.884 33.333 0.00 0.00 0.00 3.06
256 257 9.116067 GGCCATTACTACAGTATTAAAATCACA 57.884 33.333 0.00 0.00 0.00 3.58
268 269 8.947115 AGTATTAAAATCACAGTTGTTAGAGGC 58.053 33.333 0.00 0.00 0.00 4.70
269 270 7.759489 ATTAAAATCACAGTTGTTAGAGGCA 57.241 32.000 0.00 0.00 0.00 4.75
270 271 7.575414 TTAAAATCACAGTTGTTAGAGGCAA 57.425 32.000 0.00 0.00 0.00 4.52
271 272 5.438761 AAATCACAGTTGTTAGAGGCAAC 57.561 39.130 0.00 0.00 44.57 4.17
272 273 2.846193 TCACAGTTGTTAGAGGCAACC 58.154 47.619 4.78 0.00 45.14 3.77
273 274 2.171659 TCACAGTTGTTAGAGGCAACCA 59.828 45.455 4.78 0.00 45.14 3.67
1022 1024 1.476165 AGGAGACCCCTGACACCAT 59.524 57.895 0.00 0.00 45.61 3.55
1281 1283 4.833380 AGTTGCTCTTCTGAACCTACACTA 59.167 41.667 0.00 0.00 0.00 2.74
1556 1558 4.948341 TGCAGAGTGAAGGTGTTAACTA 57.052 40.909 7.22 0.00 25.78 2.24
1714 1716 7.420800 CAAGCTTAAGACTGAAAATGACAAGT 58.579 34.615 6.67 0.00 0.00 3.16
2303 2305 5.316167 TGACTGTTCTGCCTGTATTTGAAT 58.684 37.500 0.00 0.00 0.00 2.57
2309 2311 6.716628 TGTTCTGCCTGTATTTGAATCTCTTT 59.283 34.615 0.00 0.00 0.00 2.52
2509 2511 0.191064 TCCTCCCTCCAGAACACAGT 59.809 55.000 0.00 0.00 0.00 3.55
2510 2512 1.059913 CCTCCCTCCAGAACACAGTT 58.940 55.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.960591 TGATTTTCATGGGAATAAACTCTCTTC 58.039 33.333 0.00 0.00 31.93 2.87
1 2 8.884124 TGATTTTCATGGGAATAAACTCTCTT 57.116 30.769 0.00 0.00 31.93 2.85
2 3 8.884124 TTGATTTTCATGGGAATAAACTCTCT 57.116 30.769 0.00 0.00 31.93 3.10
3 4 7.704047 GCTTGATTTTCATGGGAATAAACTCTC 59.296 37.037 0.00 0.00 31.93 3.20
4 5 7.550712 GCTTGATTTTCATGGGAATAAACTCT 58.449 34.615 0.00 0.00 31.93 3.24
5 6 6.473455 CGCTTGATTTTCATGGGAATAAACTC 59.527 38.462 0.00 0.00 36.87 3.01
6 7 6.071391 ACGCTTGATTTTCATGGGAATAAACT 60.071 34.615 12.36 0.00 37.72 2.66
7 8 6.034898 CACGCTTGATTTTCATGGGAATAAAC 59.965 38.462 12.36 0.00 37.72 2.01
8 9 6.071672 TCACGCTTGATTTTCATGGGAATAAA 60.072 34.615 12.36 0.00 37.72 1.40
9 10 5.417266 TCACGCTTGATTTTCATGGGAATAA 59.583 36.000 12.36 0.00 37.72 1.40
10 11 4.946772 TCACGCTTGATTTTCATGGGAATA 59.053 37.500 12.36 0.00 37.72 1.75
11 12 3.763360 TCACGCTTGATTTTCATGGGAAT 59.237 39.130 12.36 0.00 37.72 3.01
12 13 3.153130 TCACGCTTGATTTTCATGGGAA 58.847 40.909 12.36 0.00 37.72 3.97
13 14 2.749076 CTCACGCTTGATTTTCATGGGA 59.251 45.455 12.36 0.00 37.72 4.37
14 15 2.749076 TCTCACGCTTGATTTTCATGGG 59.251 45.455 0.00 6.08 39.36 4.00
15 16 4.424061 TTCTCACGCTTGATTTTCATGG 57.576 40.909 0.00 0.00 0.00 3.66
16 17 6.752335 TTTTTCTCACGCTTGATTTTCATG 57.248 33.333 0.00 0.00 0.00 3.07
17 18 7.756722 CCTATTTTTCTCACGCTTGATTTTCAT 59.243 33.333 0.00 0.00 0.00 2.57
18 19 7.083858 CCTATTTTTCTCACGCTTGATTTTCA 58.916 34.615 0.00 0.00 0.00 2.69
19 20 6.528072 CCCTATTTTTCTCACGCTTGATTTTC 59.472 38.462 0.00 0.00 0.00 2.29
20 21 6.015434 ACCCTATTTTTCTCACGCTTGATTTT 60.015 34.615 0.00 0.00 0.00 1.82
21 22 5.476945 ACCCTATTTTTCTCACGCTTGATTT 59.523 36.000 0.00 0.00 0.00 2.17
22 23 5.010282 ACCCTATTTTTCTCACGCTTGATT 58.990 37.500 0.00 0.00 0.00 2.57
23 24 4.396166 CACCCTATTTTTCTCACGCTTGAT 59.604 41.667 0.00 0.00 0.00 2.57
24 25 3.751175 CACCCTATTTTTCTCACGCTTGA 59.249 43.478 0.00 0.00 0.00 3.02
25 26 3.119849 CCACCCTATTTTTCTCACGCTTG 60.120 47.826 0.00 0.00 0.00 4.01
26 27 3.081804 CCACCCTATTTTTCTCACGCTT 58.918 45.455 0.00 0.00 0.00 4.68
27 28 2.711542 CCACCCTATTTTTCTCACGCT 58.288 47.619 0.00 0.00 0.00 5.07
28 29 1.132453 GCCACCCTATTTTTCTCACGC 59.868 52.381 0.00 0.00 0.00 5.34
29 30 2.432444 TGCCACCCTATTTTTCTCACG 58.568 47.619 0.00 0.00 0.00 4.35
30 31 4.864704 TTTGCCACCCTATTTTTCTCAC 57.135 40.909 0.00 0.00 0.00 3.51
31 32 5.279910 CCAATTTGCCACCCTATTTTTCTCA 60.280 40.000 0.00 0.00 0.00 3.27
32 33 5.178061 CCAATTTGCCACCCTATTTTTCTC 58.822 41.667 0.00 0.00 0.00 2.87
33 34 4.597075 ACCAATTTGCCACCCTATTTTTCT 59.403 37.500 0.00 0.00 0.00 2.52
34 35 4.905429 ACCAATTTGCCACCCTATTTTTC 58.095 39.130 0.00 0.00 0.00 2.29
35 36 4.991789 ACCAATTTGCCACCCTATTTTT 57.008 36.364 0.00 0.00 0.00 1.94
36 37 4.349342 TCAACCAATTTGCCACCCTATTTT 59.651 37.500 0.00 0.00 34.88 1.82
37 38 3.906846 TCAACCAATTTGCCACCCTATTT 59.093 39.130 0.00 0.00 34.88 1.40
38 39 3.260632 GTCAACCAATTTGCCACCCTATT 59.739 43.478 0.00 0.00 34.88 1.73
39 40 2.831526 GTCAACCAATTTGCCACCCTAT 59.168 45.455 0.00 0.00 34.88 2.57
40 41 2.243810 GTCAACCAATTTGCCACCCTA 58.756 47.619 0.00 0.00 34.88 3.53
41 42 1.047801 GTCAACCAATTTGCCACCCT 58.952 50.000 0.00 0.00 34.88 4.34
42 43 0.319469 CGTCAACCAATTTGCCACCC 60.319 55.000 0.00 0.00 34.88 4.61
43 44 0.387565 ACGTCAACCAATTTGCCACC 59.612 50.000 0.00 0.00 34.88 4.61
44 45 1.066303 TGACGTCAACCAATTTGCCAC 59.934 47.619 17.62 0.00 34.88 5.01
45 46 1.393603 TGACGTCAACCAATTTGCCA 58.606 45.000 17.62 0.00 34.88 4.92
46 47 2.723124 ATGACGTCAACCAATTTGCC 57.277 45.000 24.13 0.00 34.88 4.52
47 48 6.119144 ACTATATGACGTCAACCAATTTGC 57.881 37.500 24.13 0.00 34.88 3.68
48 49 6.254804 TCGACTATATGACGTCAACCAATTTG 59.745 38.462 24.13 9.52 35.51 2.32
49 50 6.334989 TCGACTATATGACGTCAACCAATTT 58.665 36.000 24.13 6.57 35.51 1.82
50 51 5.898174 TCGACTATATGACGTCAACCAATT 58.102 37.500 24.13 7.38 35.51 2.32
51 52 5.067413 ACTCGACTATATGACGTCAACCAAT 59.933 40.000 24.13 15.38 35.51 3.16
52 53 4.397103 ACTCGACTATATGACGTCAACCAA 59.603 41.667 24.13 8.98 35.51 3.67
53 54 3.943381 ACTCGACTATATGACGTCAACCA 59.057 43.478 24.13 11.28 35.51 3.67
54 55 4.548991 ACTCGACTATATGACGTCAACC 57.451 45.455 24.13 7.17 35.51 3.77
55 56 6.522233 TCTACTCGACTATATGACGTCAAC 57.478 41.667 24.13 8.89 35.51 3.18
56 57 7.279536 ACTTTCTACTCGACTATATGACGTCAA 59.720 37.037 24.13 12.36 35.51 3.18
57 58 6.760298 ACTTTCTACTCGACTATATGACGTCA 59.240 38.462 22.48 22.48 35.51 4.35
58 59 7.176285 ACTTTCTACTCGACTATATGACGTC 57.824 40.000 9.11 9.11 35.51 4.34
59 60 7.925483 ACTACTTTCTACTCGACTATATGACGT 59.075 37.037 0.00 0.00 35.51 4.34
60 61 8.296799 ACTACTTTCTACTCGACTATATGACG 57.703 38.462 0.00 0.00 35.33 4.35
64 65 9.206870 GCAGTACTACTTTCTACTCGACTATAT 57.793 37.037 0.00 0.00 0.00 0.86
65 66 8.420222 AGCAGTACTACTTTCTACTCGACTATA 58.580 37.037 0.00 0.00 0.00 1.31
66 67 7.274447 AGCAGTACTACTTTCTACTCGACTAT 58.726 38.462 0.00 0.00 0.00 2.12
67 68 6.638610 AGCAGTACTACTTTCTACTCGACTA 58.361 40.000 0.00 0.00 0.00 2.59
68 69 5.490159 AGCAGTACTACTTTCTACTCGACT 58.510 41.667 0.00 0.00 0.00 4.18
69 70 5.799681 AGCAGTACTACTTTCTACTCGAC 57.200 43.478 0.00 0.00 0.00 4.20
70 71 6.871844 TCTAGCAGTACTACTTTCTACTCGA 58.128 40.000 0.00 0.00 0.00 4.04
71 72 6.979817 TCTCTAGCAGTACTACTTTCTACTCG 59.020 42.308 0.00 0.00 0.00 4.18
72 73 7.225341 GGTCTCTAGCAGTACTACTTTCTACTC 59.775 44.444 0.00 0.00 0.00 2.59
73 74 7.049754 GGTCTCTAGCAGTACTACTTTCTACT 58.950 42.308 0.00 0.00 0.00 2.57
74 75 7.049754 AGGTCTCTAGCAGTACTACTTTCTAC 58.950 42.308 0.00 0.00 0.00 2.59
75 76 7.092979 TGAGGTCTCTAGCAGTACTACTTTCTA 60.093 40.741 0.00 0.00 0.00 2.10
76 77 6.069705 AGGTCTCTAGCAGTACTACTTTCT 57.930 41.667 0.00 0.00 0.00 2.52
77 78 5.881443 TGAGGTCTCTAGCAGTACTACTTTC 59.119 44.000 0.00 0.00 0.00 2.62
78 79 5.817784 TGAGGTCTCTAGCAGTACTACTTT 58.182 41.667 0.00 0.00 0.00 2.66
79 80 5.433526 CTGAGGTCTCTAGCAGTACTACTT 58.566 45.833 0.00 0.00 0.00 2.24
80 81 4.685030 GCTGAGGTCTCTAGCAGTACTACT 60.685 50.000 0.31 0.31 35.40 2.57
81 82 3.562557 GCTGAGGTCTCTAGCAGTACTAC 59.437 52.174 0.00 0.00 35.40 2.73
82 83 3.456644 AGCTGAGGTCTCTAGCAGTACTA 59.543 47.826 17.74 0.00 36.72 1.82
83 84 2.241176 AGCTGAGGTCTCTAGCAGTACT 59.759 50.000 17.74 0.00 36.72 2.73
84 85 2.616842 GAGCTGAGGTCTCTAGCAGTAC 59.383 54.545 17.74 0.00 36.72 2.73
85 86 2.239907 TGAGCTGAGGTCTCTAGCAGTA 59.760 50.000 13.27 6.95 36.72 2.74
86 87 1.005332 TGAGCTGAGGTCTCTAGCAGT 59.995 52.381 13.27 5.27 36.72 4.40
87 88 1.677576 CTGAGCTGAGGTCTCTAGCAG 59.322 57.143 13.27 0.00 36.72 4.24
88 89 1.283321 TCTGAGCTGAGGTCTCTAGCA 59.717 52.381 13.27 0.00 36.72 3.49
89 90 1.676006 GTCTGAGCTGAGGTCTCTAGC 59.324 57.143 13.27 11.64 35.48 3.42
90 91 2.997980 TGTCTGAGCTGAGGTCTCTAG 58.002 52.381 13.27 2.28 0.00 2.43
91 92 3.441500 TTGTCTGAGCTGAGGTCTCTA 57.558 47.619 13.27 0.00 0.00 2.43
92 93 2.300956 TTGTCTGAGCTGAGGTCTCT 57.699 50.000 13.27 0.00 0.00 3.10
93 94 3.608316 AATTGTCTGAGCTGAGGTCTC 57.392 47.619 13.27 4.48 0.00 3.36
94 95 3.072184 ACAAATTGTCTGAGCTGAGGTCT 59.928 43.478 13.27 0.00 0.00 3.85
95 96 3.406764 ACAAATTGTCTGAGCTGAGGTC 58.593 45.455 4.41 4.41 0.00 3.85
96 97 3.498774 ACAAATTGTCTGAGCTGAGGT 57.501 42.857 0.00 0.00 0.00 3.85
97 98 4.573900 AGTACAAATTGTCTGAGCTGAGG 58.426 43.478 0.22 0.00 0.00 3.86
98 99 5.616424 GCAAGTACAAATTGTCTGAGCTGAG 60.616 44.000 0.22 0.00 0.00 3.35
99 100 4.214119 GCAAGTACAAATTGTCTGAGCTGA 59.786 41.667 0.22 0.00 0.00 4.26
100 101 4.023792 TGCAAGTACAAATTGTCTGAGCTG 60.024 41.667 0.22 0.00 0.00 4.24
101 102 4.023707 GTGCAAGTACAAATTGTCTGAGCT 60.024 41.667 0.22 0.00 0.00 4.09
102 103 4.222114 GTGCAAGTACAAATTGTCTGAGC 58.778 43.478 0.22 4.36 0.00 4.26
103 104 5.207768 GTGTGCAAGTACAAATTGTCTGAG 58.792 41.667 0.22 0.00 31.36 3.35
104 105 4.637977 TGTGTGCAAGTACAAATTGTCTGA 59.362 37.500 0.22 0.00 31.36 3.27
105 106 4.919206 TGTGTGCAAGTACAAATTGTCTG 58.081 39.130 0.22 0.20 31.36 3.51
106 107 5.507817 CCATGTGTGCAAGTACAAATTGTCT 60.508 40.000 0.22 0.00 31.36 3.41
107 108 4.681025 CCATGTGTGCAAGTACAAATTGTC 59.319 41.667 0.22 0.00 31.36 3.18
108 109 4.501229 CCCATGTGTGCAAGTACAAATTGT 60.501 41.667 3.43 3.43 31.36 2.71
109 110 3.989167 CCCATGTGTGCAAGTACAAATTG 59.011 43.478 0.00 0.00 31.36 2.32
110 111 3.640967 ACCCATGTGTGCAAGTACAAATT 59.359 39.130 0.00 0.00 31.36 1.82
111 112 3.230134 ACCCATGTGTGCAAGTACAAAT 58.770 40.909 0.00 0.00 31.36 2.32
112 113 2.660572 ACCCATGTGTGCAAGTACAAA 58.339 42.857 0.00 0.00 31.36 2.83
113 114 2.356665 ACCCATGTGTGCAAGTACAA 57.643 45.000 0.00 0.00 31.36 2.41
114 115 2.551287 GGTACCCATGTGTGCAAGTACA 60.551 50.000 0.00 0.00 34.31 2.90
115 116 2.081462 GGTACCCATGTGTGCAAGTAC 58.919 52.381 0.00 0.00 33.07 2.73
116 117 1.982226 AGGTACCCATGTGTGCAAGTA 59.018 47.619 8.74 0.00 0.00 2.24
117 118 0.771127 AGGTACCCATGTGTGCAAGT 59.229 50.000 8.74 0.00 0.00 3.16
118 119 2.027192 AGTAGGTACCCATGTGTGCAAG 60.027 50.000 8.74 0.00 0.00 4.01
119 120 1.982226 AGTAGGTACCCATGTGTGCAA 59.018 47.619 8.74 0.00 0.00 4.08
120 121 1.651737 AGTAGGTACCCATGTGTGCA 58.348 50.000 8.74 0.00 0.00 4.57
121 122 2.629051 GAAGTAGGTACCCATGTGTGC 58.371 52.381 8.74 0.00 0.00 4.57
122 123 2.838202 AGGAAGTAGGTACCCATGTGTG 59.162 50.000 8.74 0.00 0.00 3.82
123 124 3.200958 AGGAAGTAGGTACCCATGTGT 57.799 47.619 8.74 0.00 0.00 3.72
124 125 4.503296 GCATAGGAAGTAGGTACCCATGTG 60.503 50.000 8.74 0.13 0.00 3.21
125 126 3.646637 GCATAGGAAGTAGGTACCCATGT 59.353 47.826 8.74 0.00 0.00 3.21
126 127 3.306088 CGCATAGGAAGTAGGTACCCATG 60.306 52.174 8.74 1.23 0.00 3.66
127 128 2.897969 CGCATAGGAAGTAGGTACCCAT 59.102 50.000 8.74 0.00 0.00 4.00
128 129 2.313317 CGCATAGGAAGTAGGTACCCA 58.687 52.381 8.74 0.00 0.00 4.51
129 130 1.617357 CCGCATAGGAAGTAGGTACCC 59.383 57.143 8.74 0.00 45.00 3.69
141 142 4.271291 GCTAAAAAGAAGAGTCCGCATAGG 59.729 45.833 0.00 0.00 42.97 2.57
142 143 5.006165 CAGCTAAAAAGAAGAGTCCGCATAG 59.994 44.000 0.00 0.00 0.00 2.23
143 144 4.870426 CAGCTAAAAAGAAGAGTCCGCATA 59.130 41.667 0.00 0.00 0.00 3.14
144 145 3.686726 CAGCTAAAAAGAAGAGTCCGCAT 59.313 43.478 0.00 0.00 0.00 4.73
145 146 3.067106 CAGCTAAAAAGAAGAGTCCGCA 58.933 45.455 0.00 0.00 0.00 5.69
146 147 2.159639 GCAGCTAAAAAGAAGAGTCCGC 60.160 50.000 0.00 0.00 0.00 5.54
147 148 3.330267 AGCAGCTAAAAAGAAGAGTCCG 58.670 45.455 0.00 0.00 0.00 4.79
148 149 4.574892 AGAGCAGCTAAAAAGAAGAGTCC 58.425 43.478 0.00 0.00 0.00 3.85
149 150 6.552859 AAAGAGCAGCTAAAAAGAAGAGTC 57.447 37.500 0.00 0.00 0.00 3.36
150 151 6.951062 AAAAGAGCAGCTAAAAAGAAGAGT 57.049 33.333 0.00 0.00 0.00 3.24
217 218 8.184304 TGTAGTAATGGCCAAACTGTATTTTT 57.816 30.769 26.48 9.69 0.00 1.94
218 219 7.450323 ACTGTAGTAATGGCCAAACTGTATTTT 59.550 33.333 26.48 10.35 0.00 1.82
219 220 6.946009 ACTGTAGTAATGGCCAAACTGTATTT 59.054 34.615 26.48 11.00 0.00 1.40
220 221 6.481643 ACTGTAGTAATGGCCAAACTGTATT 58.518 36.000 26.48 11.67 0.00 1.89
221 222 6.062258 ACTGTAGTAATGGCCAAACTGTAT 57.938 37.500 26.48 11.80 0.00 2.29
222 223 5.492855 ACTGTAGTAATGGCCAAACTGTA 57.507 39.130 26.48 16.86 0.00 2.74
223 224 4.367039 ACTGTAGTAATGGCCAAACTGT 57.633 40.909 26.48 16.67 0.00 3.55
224 225 8.500753 TTAATACTGTAGTAATGGCCAAACTG 57.499 34.615 26.48 16.16 33.76 3.16
225 226 9.523168 TTTTAATACTGTAGTAATGGCCAAACT 57.477 29.630 23.25 23.25 33.76 2.66
228 229 9.688091 TGATTTTAATACTGTAGTAATGGCCAA 57.312 29.630 10.96 0.00 33.76 4.52
229 230 9.116067 GTGATTTTAATACTGTAGTAATGGCCA 57.884 33.333 8.56 8.56 33.76 5.36
230 231 9.116067 TGTGATTTTAATACTGTAGTAATGGCC 57.884 33.333 8.35 0.00 33.76 5.36
242 243 8.947115 GCCTCTAACAACTGTGATTTTAATACT 58.053 33.333 0.00 0.00 0.00 2.12
243 244 8.726988 TGCCTCTAACAACTGTGATTTTAATAC 58.273 33.333 0.00 0.00 0.00 1.89
244 245 8.856153 TGCCTCTAACAACTGTGATTTTAATA 57.144 30.769 0.00 0.00 0.00 0.98
245 246 7.759489 TGCCTCTAACAACTGTGATTTTAAT 57.241 32.000 0.00 0.00 0.00 1.40
246 247 7.422399 GTTGCCTCTAACAACTGTGATTTTAA 58.578 34.615 0.00 0.00 43.23 1.52
247 248 6.016610 GGTTGCCTCTAACAACTGTGATTTTA 60.017 38.462 6.59 0.00 45.34 1.52
248 249 5.221244 GGTTGCCTCTAACAACTGTGATTTT 60.221 40.000 6.59 0.00 45.34 1.82
249 250 4.278419 GGTTGCCTCTAACAACTGTGATTT 59.722 41.667 6.59 0.00 45.34 2.17
250 251 3.821033 GGTTGCCTCTAACAACTGTGATT 59.179 43.478 6.59 0.00 45.34 2.57
251 252 3.181445 TGGTTGCCTCTAACAACTGTGAT 60.181 43.478 6.59 0.00 45.34 3.06
252 253 2.171659 TGGTTGCCTCTAACAACTGTGA 59.828 45.455 6.59 0.00 45.34 3.58
253 254 2.571212 TGGTTGCCTCTAACAACTGTG 58.429 47.619 6.59 0.00 45.34 3.66
254 255 3.118038 TCTTGGTTGCCTCTAACAACTGT 60.118 43.478 6.59 0.00 45.34 3.55
255 256 3.476552 TCTTGGTTGCCTCTAACAACTG 58.523 45.455 6.59 0.00 45.34 3.16
256 257 3.136626 ACTCTTGGTTGCCTCTAACAACT 59.863 43.478 6.59 0.00 45.34 3.16
257 258 3.477530 ACTCTTGGTTGCCTCTAACAAC 58.522 45.455 0.00 0.00 45.30 3.32
258 259 3.857157 ACTCTTGGTTGCCTCTAACAA 57.143 42.857 0.00 0.00 32.22 2.83
259 260 4.967084 TTACTCTTGGTTGCCTCTAACA 57.033 40.909 0.00 0.00 32.22 2.41
260 261 6.037281 GCTATTTACTCTTGGTTGCCTCTAAC 59.963 42.308 0.00 0.00 0.00 2.34
261 262 6.113411 GCTATTTACTCTTGGTTGCCTCTAA 58.887 40.000 0.00 0.00 0.00 2.10
262 263 5.188948 TGCTATTTACTCTTGGTTGCCTCTA 59.811 40.000 0.00 0.00 0.00 2.43
263 264 4.019321 TGCTATTTACTCTTGGTTGCCTCT 60.019 41.667 0.00 0.00 0.00 3.69
264 265 4.261801 TGCTATTTACTCTTGGTTGCCTC 58.738 43.478 0.00 0.00 0.00 4.70
265 266 4.301072 TGCTATTTACTCTTGGTTGCCT 57.699 40.909 0.00 0.00 0.00 4.75
266 267 6.693315 TTATGCTATTTACTCTTGGTTGCC 57.307 37.500 0.00 0.00 0.00 4.52
267 268 8.244113 AGTTTTATGCTATTTACTCTTGGTTGC 58.756 33.333 0.00 0.00 0.00 4.17
270 271 9.392259 GGTAGTTTTATGCTATTTACTCTTGGT 57.608 33.333 0.00 0.00 0.00 3.67
271 272 9.391006 TGGTAGTTTTATGCTATTTACTCTTGG 57.609 33.333 0.00 0.00 0.00 3.61
673 675 1.002069 TCATTCCAGGAAGGCATGGT 58.998 50.000 9.14 0.00 45.89 3.55
1022 1024 1.048601 ACAGAAAAGAGGCTCCACGA 58.951 50.000 11.71 0.00 0.00 4.35
1060 1062 2.279842 GCATCATGCAGGTGGGTTT 58.720 52.632 4.20 0.00 44.26 3.27
1175 1177 5.048782 TGTGGGTTCAGAAGAAAATGATTCG 60.049 40.000 0.00 0.00 35.08 3.34
1556 1558 2.708861 TCAACCCACTCAGTAACACCAT 59.291 45.455 0.00 0.00 0.00 3.55
2303 2305 6.946340 TGACTCCATAACATAGCAAAAGAGA 58.054 36.000 0.00 0.00 0.00 3.10
2309 2311 5.675684 TCACTGACTCCATAACATAGCAA 57.324 39.130 0.00 0.00 0.00 3.91
2509 2511 1.462432 TAGAGGTGGGGTGTGGCAA 60.462 57.895 0.00 0.00 0.00 4.52
2510 2512 1.918293 CTAGAGGTGGGGTGTGGCA 60.918 63.158 0.00 0.00 0.00 4.92


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

AutoCloner maintained by Alex Coulton.