Multiple sequence alignment - TraesCS2D01G094700

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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 TraesCS2D01G094700 chr2D 100.000 3457 0 0 1 3457 46694015 46690559 0.000000e+00 6384.0
1 TraesCS2D01G094700 chr7D 99.190 3208 23 2 250 3457 615778481 615781685 0.000000e+00 5777.0
2 TraesCS2D01G094700 chr5D 98.972 2918 28 1 250 3167 41776635 41779550 0.000000e+00 5221.0
3 TraesCS2D01G094700 chr6B 94.939 3221 138 18 250 3456 712151898 712155107 0.000000e+00 5022.0
4 TraesCS2D01G094700 chr6B 94.698 3225 139 17 249 3457 366596285 366593077 0.000000e+00 4979.0
5 TraesCS2D01G094700 chr6B 83.098 1556 156 45 752 2259 409295371 409293875 0.000000e+00 1317.0
6 TraesCS2D01G094700 chr1B 94.258 3222 147 19 250 3456 6396360 6399558 0.000000e+00 4891.0
7 TraesCS2D01G094700 chr4A 94.193 3220 154 19 250 3456 58507671 58510870 0.000000e+00 4879.0
8 TraesCS2D01G094700 chr7A 94.008 3221 157 22 250 3456 11051444 11048246 0.000000e+00 4846.0
9 TraesCS2D01G094700 chr3B 93.451 3222 165 25 251 3457 465857842 465861032 0.000000e+00 4739.0
10 TraesCS2D01G094700 chr3B 96.098 205 8 0 46 250 702846059 702846263 5.530000e-88 335.0
11 TraesCS2D01G094700 chr3B 89.706 204 21 0 48 251 702829069 702829272 9.520000e-66 261.0
12 TraesCS2D01G094700 chr6D 99.665 2390 8 0 250 2639 429473821 429476210 0.000000e+00 4370.0
13 TraesCS2D01G094700 chr3D 98.585 212 3 0 46 257 531359040 531358829 3.260000e-100 375.0
14 TraesCS2D01G094700 chr3D 89.806 206 21 0 46 251 426410422 426410217 7.360000e-67 265.0
15 TraesCS2D01G094700 chr3D 89.372 207 20 2 46 251 531371879 531372084 3.420000e-65 259.0
16 TraesCS2D01G094700 chr3D 98.039 51 1 0 2 52 531359114 531359064 4.750000e-14 89.8
17 TraesCS2D01G094700 chr3A 90.291 206 20 0 46 251 665982755 665982960 1.580000e-68 270.0


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 TraesCS2D01G094700 chr2D 46690559 46694015 3456 True 6384 6384 100.000 1 3457 1 chr2D.!!$R1 3456
1 TraesCS2D01G094700 chr7D 615778481 615781685 3204 False 5777 5777 99.190 250 3457 1 chr7D.!!$F1 3207
2 TraesCS2D01G094700 chr5D 41776635 41779550 2915 False 5221 5221 98.972 250 3167 1 chr5D.!!$F1 2917
3 TraesCS2D01G094700 chr6B 712151898 712155107 3209 False 5022 5022 94.939 250 3456 1 chr6B.!!$F1 3206
4 TraesCS2D01G094700 chr6B 366593077 366596285 3208 True 4979 4979 94.698 249 3457 1 chr6B.!!$R1 3208
5 TraesCS2D01G094700 chr6B 409293875 409295371 1496 True 1317 1317 83.098 752 2259 1 chr6B.!!$R2 1507
6 TraesCS2D01G094700 chr1B 6396360 6399558 3198 False 4891 4891 94.258 250 3456 1 chr1B.!!$F1 3206
7 TraesCS2D01G094700 chr4A 58507671 58510870 3199 False 4879 4879 94.193 250 3456 1 chr4A.!!$F1 3206
8 TraesCS2D01G094700 chr7A 11048246 11051444 3198 True 4846 4846 94.008 250 3456 1 chr7A.!!$R1 3206
9 TraesCS2D01G094700 chr3B 465857842 465861032 3190 False 4739 4739 93.451 251 3457 1 chr3B.!!$F1 3206
10 TraesCS2D01G094700 chr6D 429473821 429476210 2389 False 4370 4370 99.665 250 2639 1 chr6D.!!$F1 2389

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
162 163 0.033601 CCATTGGGGGAATCCACGAA 60.034 55.0 0.43 0.43 40.06 3.85 F
184 185 0.035820 TCCCGATGTTGCTAACACCC 60.036 55.0 4.23 0.57 45.50 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2387 2451 3.629142 AAGCACACCAGGTAGGATAAC 57.371 47.619 0.0 0.0 41.22 1.89 R
3092 3159 8.924691 TCAAATATGTTGCAGTTTTTATTGCTC 58.075 29.630 0.0 0.0 40.87 4.26 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 3.874383 TGTCTGGTCATCTGGGAAAAA 57.126 42.857 0.00 0.00 0.00 1.94
22 23 3.754965 TGTCTGGTCATCTGGGAAAAAG 58.245 45.455 0.00 0.00 0.00 2.27
23 24 3.394274 TGTCTGGTCATCTGGGAAAAAGA 59.606 43.478 0.00 0.00 0.00 2.52
24 25 4.043310 TGTCTGGTCATCTGGGAAAAAGAT 59.957 41.667 0.00 0.00 34.66 2.40
25 26 4.637977 GTCTGGTCATCTGGGAAAAAGATC 59.362 45.833 0.00 0.00 31.92 2.75
26 27 4.537688 TCTGGTCATCTGGGAAAAAGATCT 59.462 41.667 0.00 0.00 31.92 2.75
27 28 4.848357 TGGTCATCTGGGAAAAAGATCTC 58.152 43.478 0.00 0.00 31.92 2.75
28 29 4.203226 GGTCATCTGGGAAAAAGATCTCC 58.797 47.826 0.00 0.00 31.92 3.71
29 30 3.873952 GTCATCTGGGAAAAAGATCTCCG 59.126 47.826 0.00 0.00 31.92 4.63
30 31 2.403252 TCTGGGAAAAAGATCTCCGC 57.597 50.000 0.00 0.00 31.97 5.54
31 32 1.628340 TCTGGGAAAAAGATCTCCGCA 59.372 47.619 0.00 0.22 31.97 5.69
32 33 2.039746 TCTGGGAAAAAGATCTCCGCAA 59.960 45.455 0.00 0.00 31.97 4.85
33 34 2.819608 CTGGGAAAAAGATCTCCGCAAA 59.180 45.455 0.00 0.00 31.97 3.68
34 35 3.430453 TGGGAAAAAGATCTCCGCAAAT 58.570 40.909 0.00 0.00 31.97 2.32
35 36 3.831911 TGGGAAAAAGATCTCCGCAAATT 59.168 39.130 0.00 0.00 31.97 1.82
36 37 4.176271 GGGAAAAAGATCTCCGCAAATTG 58.824 43.478 0.00 0.00 31.97 2.32
37 38 4.082245 GGGAAAAAGATCTCCGCAAATTGA 60.082 41.667 0.00 0.00 31.97 2.57
38 39 5.469479 GGAAAAAGATCTCCGCAAATTGAA 58.531 37.500 0.00 0.00 0.00 2.69
39 40 5.574443 GGAAAAAGATCTCCGCAAATTGAAG 59.426 40.000 0.00 0.00 0.00 3.02
40 41 5.712152 AAAAGATCTCCGCAAATTGAAGT 57.288 34.783 0.00 0.00 0.00 3.01
41 42 6.817765 AAAAGATCTCCGCAAATTGAAGTA 57.182 33.333 0.00 0.00 0.00 2.24
42 43 5.803020 AAGATCTCCGCAAATTGAAGTAC 57.197 39.130 0.00 0.00 0.00 2.73
43 44 4.832248 AGATCTCCGCAAATTGAAGTACA 58.168 39.130 0.00 0.00 0.00 2.90
44 45 5.245531 AGATCTCCGCAAATTGAAGTACAA 58.754 37.500 0.00 0.00 42.95 2.41
45 46 4.742438 TCTCCGCAAATTGAAGTACAAC 57.258 40.909 0.00 0.00 41.52 3.32
46 47 3.185594 TCTCCGCAAATTGAAGTACAACG 59.814 43.478 0.00 0.00 41.52 4.10
47 48 2.873472 TCCGCAAATTGAAGTACAACGT 59.127 40.909 0.00 0.00 41.52 3.99
48 49 4.056740 TCCGCAAATTGAAGTACAACGTA 58.943 39.130 0.00 0.00 41.52 3.57
49 50 4.150980 TCCGCAAATTGAAGTACAACGTAG 59.849 41.667 0.00 0.00 41.52 3.51
51 52 5.118971 CCGCAAATTGAAGTACAACGTAGTA 59.881 40.000 0.00 0.00 45.00 1.82
52 53 6.183360 CCGCAAATTGAAGTACAACGTAGTAT 60.183 38.462 0.00 0.00 45.00 2.12
53 54 6.892951 CGCAAATTGAAGTACAACGTAGTATC 59.107 38.462 0.00 0.00 45.00 2.24
54 55 7.201410 CGCAAATTGAAGTACAACGTAGTATCT 60.201 37.037 0.00 0.00 45.00 1.98
55 56 8.108782 GCAAATTGAAGTACAACGTAGTATCTC 58.891 37.037 0.00 0.00 45.00 2.75
56 57 9.135843 CAAATTGAAGTACAACGTAGTATCTCA 57.864 33.333 0.00 0.00 45.00 3.27
57 58 9.701098 AAATTGAAGTACAACGTAGTATCTCAA 57.299 29.630 0.00 0.00 45.00 3.02
58 59 9.871238 AATTGAAGTACAACGTAGTATCTCAAT 57.129 29.630 0.00 0.00 45.00 2.57
59 60 8.683550 TTGAAGTACAACGTAGTATCTCAATG 57.316 34.615 0.00 0.00 45.00 2.82
60 61 8.047413 TGAAGTACAACGTAGTATCTCAATGA 57.953 34.615 0.00 0.00 45.00 2.57
61 62 8.517056 TGAAGTACAACGTAGTATCTCAATGAA 58.483 33.333 0.00 0.00 45.00 2.57
62 63 8.912787 AAGTACAACGTAGTATCTCAATGAAG 57.087 34.615 0.00 0.00 45.00 3.02
63 64 8.277490 AGTACAACGTAGTATCTCAATGAAGA 57.723 34.615 0.00 0.00 45.00 2.87
64 65 8.399425 AGTACAACGTAGTATCTCAATGAAGAG 58.601 37.037 0.00 0.00 45.00 2.85
65 66 6.565234 ACAACGTAGTATCTCAATGAAGAGG 58.435 40.000 0.00 0.00 45.00 3.69
66 67 5.776173 ACGTAGTATCTCAATGAAGAGGG 57.224 43.478 0.00 0.00 41.94 4.30
67 68 5.202004 ACGTAGTATCTCAATGAAGAGGGT 58.798 41.667 0.00 0.00 41.94 4.34
68 69 5.067936 ACGTAGTATCTCAATGAAGAGGGTG 59.932 44.000 0.00 0.00 41.94 4.61
69 70 4.414337 AGTATCTCAATGAAGAGGGTGC 57.586 45.455 0.00 0.00 36.30 5.01
70 71 2.725221 ATCTCAATGAAGAGGGTGCC 57.275 50.000 0.00 0.00 36.30 5.01
71 72 1.361204 TCTCAATGAAGAGGGTGCCA 58.639 50.000 0.00 0.00 36.30 4.92
72 73 1.918262 TCTCAATGAAGAGGGTGCCAT 59.082 47.619 0.00 0.00 36.30 4.40
73 74 2.309755 TCTCAATGAAGAGGGTGCCATT 59.690 45.455 0.00 0.00 36.30 3.16
74 75 2.686915 CTCAATGAAGAGGGTGCCATTC 59.313 50.000 0.00 0.00 31.94 2.67
75 76 2.309755 TCAATGAAGAGGGTGCCATTCT 59.690 45.455 0.00 0.00 0.00 2.40
76 77 2.426024 CAATGAAGAGGGTGCCATTCTG 59.574 50.000 0.00 0.00 0.00 3.02
77 78 0.329261 TGAAGAGGGTGCCATTCTGG 59.671 55.000 0.00 0.00 41.55 3.86
78 79 0.620556 GAAGAGGGTGCCATTCTGGA 59.379 55.000 0.00 0.00 40.96 3.86
79 80 1.213926 GAAGAGGGTGCCATTCTGGAT 59.786 52.381 0.00 0.00 40.96 3.41
80 81 0.549950 AGAGGGTGCCATTCTGGATG 59.450 55.000 0.00 0.00 40.96 3.51
81 82 0.257039 GAGGGTGCCATTCTGGATGT 59.743 55.000 0.00 0.00 40.96 3.06
82 83 0.257039 AGGGTGCCATTCTGGATGTC 59.743 55.000 0.00 0.00 40.96 3.06
83 84 0.257039 GGGTGCCATTCTGGATGTCT 59.743 55.000 0.00 0.00 40.96 3.41
84 85 1.673168 GGTGCCATTCTGGATGTCTC 58.327 55.000 0.00 0.00 40.96 3.36
85 86 1.065199 GGTGCCATTCTGGATGTCTCA 60.065 52.381 0.00 0.00 40.96 3.27
86 87 2.618816 GGTGCCATTCTGGATGTCTCAA 60.619 50.000 0.00 0.00 40.96 3.02
87 88 3.084039 GTGCCATTCTGGATGTCTCAAA 58.916 45.455 0.00 0.00 40.96 2.69
88 89 3.698040 GTGCCATTCTGGATGTCTCAAAT 59.302 43.478 0.00 0.00 40.96 2.32
89 90 4.883585 GTGCCATTCTGGATGTCTCAAATA 59.116 41.667 0.00 0.00 40.96 1.40
90 91 5.008415 GTGCCATTCTGGATGTCTCAAATAG 59.992 44.000 0.00 0.00 40.96 1.73
91 92 5.128919 GCCATTCTGGATGTCTCAAATAGT 58.871 41.667 0.00 0.00 40.96 2.12
92 93 5.591877 GCCATTCTGGATGTCTCAAATAGTT 59.408 40.000 0.00 0.00 40.96 2.24
93 94 6.238593 GCCATTCTGGATGTCTCAAATAGTTC 60.239 42.308 0.00 0.00 40.96 3.01
94 95 6.825213 CCATTCTGGATGTCTCAAATAGTTCA 59.175 38.462 0.00 0.00 40.96 3.18
95 96 7.012138 CCATTCTGGATGTCTCAAATAGTTCAG 59.988 40.741 0.00 0.00 40.96 3.02
96 97 6.857437 TCTGGATGTCTCAAATAGTTCAGA 57.143 37.500 0.00 0.00 0.00 3.27
97 98 7.244886 TCTGGATGTCTCAAATAGTTCAGAA 57.755 36.000 0.00 0.00 0.00 3.02
98 99 7.855375 TCTGGATGTCTCAAATAGTTCAGAAT 58.145 34.615 0.00 0.00 0.00 2.40
99 100 7.984050 TCTGGATGTCTCAAATAGTTCAGAATC 59.016 37.037 0.00 0.00 0.00 2.52
100 101 7.623630 TGGATGTCTCAAATAGTTCAGAATCA 58.376 34.615 0.00 0.00 0.00 2.57
101 102 8.102676 TGGATGTCTCAAATAGTTCAGAATCAA 58.897 33.333 0.00 0.00 0.00 2.57
102 103 8.610896 GGATGTCTCAAATAGTTCAGAATCAAG 58.389 37.037 0.00 0.00 0.00 3.02
103 104 9.160496 GATGTCTCAAATAGTTCAGAATCAAGT 57.840 33.333 0.00 0.00 0.00 3.16
104 105 8.315391 TGTCTCAAATAGTTCAGAATCAAGTG 57.685 34.615 0.00 0.00 0.00 3.16
105 106 7.095060 TGTCTCAAATAGTTCAGAATCAAGTGC 60.095 37.037 0.00 0.00 0.00 4.40
106 107 6.091305 TCTCAAATAGTTCAGAATCAAGTGCG 59.909 38.462 0.00 0.00 0.00 5.34
107 108 5.700832 TCAAATAGTTCAGAATCAAGTGCGT 59.299 36.000 0.00 0.00 0.00 5.24
108 109 5.786401 AATAGTTCAGAATCAAGTGCGTC 57.214 39.130 0.00 0.00 0.00 5.19
109 110 2.061773 AGTTCAGAATCAAGTGCGTCG 58.938 47.619 0.00 0.00 0.00 5.12
110 111 1.126846 GTTCAGAATCAAGTGCGTCGG 59.873 52.381 0.00 0.00 0.00 4.79
111 112 0.317160 TCAGAATCAAGTGCGTCGGT 59.683 50.000 0.00 0.00 0.00 4.69
112 113 1.542472 TCAGAATCAAGTGCGTCGGTA 59.458 47.619 0.00 0.00 0.00 4.02
113 114 2.029739 TCAGAATCAAGTGCGTCGGTAA 60.030 45.455 0.00 0.00 0.00 2.85
114 115 2.734606 CAGAATCAAGTGCGTCGGTAAA 59.265 45.455 0.00 0.00 0.00 2.01
115 116 2.735134 AGAATCAAGTGCGTCGGTAAAC 59.265 45.455 0.00 0.00 0.00 2.01
116 117 2.157834 ATCAAGTGCGTCGGTAAACA 57.842 45.000 0.00 0.00 0.00 2.83
117 118 1.493772 TCAAGTGCGTCGGTAAACAG 58.506 50.000 0.00 0.00 0.00 3.16
118 119 0.511221 CAAGTGCGTCGGTAAACAGG 59.489 55.000 0.00 0.00 0.00 4.00
119 120 1.226030 AAGTGCGTCGGTAAACAGGC 61.226 55.000 0.00 0.00 0.00 4.85
120 121 2.735478 TGCGTCGGTAAACAGGCG 60.735 61.111 2.86 2.86 41.81 5.52
121 122 2.431260 GCGTCGGTAAACAGGCGA 60.431 61.111 11.32 0.00 41.45 5.54
122 123 2.442188 GCGTCGGTAAACAGGCGAG 61.442 63.158 11.32 0.00 41.45 5.03
123 124 1.210931 CGTCGGTAAACAGGCGAGA 59.789 57.895 0.87 0.00 41.45 4.04
124 125 0.387622 CGTCGGTAAACAGGCGAGAA 60.388 55.000 0.87 0.00 41.45 2.87
125 126 1.347320 GTCGGTAAACAGGCGAGAAG 58.653 55.000 0.00 0.00 0.00 2.85
126 127 0.963962 TCGGTAAACAGGCGAGAAGT 59.036 50.000 0.00 0.00 0.00 3.01
127 128 1.068474 CGGTAAACAGGCGAGAAGTG 58.932 55.000 0.00 0.00 0.00 3.16
128 129 1.604693 CGGTAAACAGGCGAGAAGTGT 60.605 52.381 0.00 0.00 0.00 3.55
129 130 2.067013 GGTAAACAGGCGAGAAGTGTC 58.933 52.381 0.00 0.00 0.00 3.67
130 131 2.288886 GGTAAACAGGCGAGAAGTGTCT 60.289 50.000 0.00 0.00 36.55 3.41
131 132 3.057033 GGTAAACAGGCGAGAAGTGTCTA 60.057 47.826 0.00 0.00 32.80 2.59
132 133 3.963428 AAACAGGCGAGAAGTGTCTAT 57.037 42.857 0.00 0.00 32.80 1.98
133 134 3.963428 AACAGGCGAGAAGTGTCTATT 57.037 42.857 0.00 0.00 32.80 1.73
134 135 5.401531 AAACAGGCGAGAAGTGTCTATTA 57.598 39.130 0.00 0.00 32.80 0.98
135 136 5.599999 AACAGGCGAGAAGTGTCTATTAT 57.400 39.130 0.00 0.00 32.80 1.28
136 137 4.938080 ACAGGCGAGAAGTGTCTATTATG 58.062 43.478 0.00 0.00 32.80 1.90
137 138 4.402793 ACAGGCGAGAAGTGTCTATTATGT 59.597 41.667 0.00 0.00 32.80 2.29
138 139 5.593095 ACAGGCGAGAAGTGTCTATTATGTA 59.407 40.000 0.00 0.00 32.80 2.29
139 140 6.096423 ACAGGCGAGAAGTGTCTATTATGTAA 59.904 38.462 0.00 0.00 32.80 2.41
140 141 6.418226 CAGGCGAGAAGTGTCTATTATGTAAC 59.582 42.308 0.00 0.00 32.80 2.50
141 142 6.321690 AGGCGAGAAGTGTCTATTATGTAACT 59.678 38.462 0.00 0.00 32.80 2.24
142 143 6.637658 GGCGAGAAGTGTCTATTATGTAACTC 59.362 42.308 0.00 0.00 32.80 3.01
143 144 6.637658 GCGAGAAGTGTCTATTATGTAACTCC 59.362 42.308 0.00 0.00 32.80 3.85
144 145 7.140048 CGAGAAGTGTCTATTATGTAACTCCC 58.860 42.308 0.00 0.00 32.80 4.30
145 146 7.201794 CGAGAAGTGTCTATTATGTAACTCCCA 60.202 40.741 0.00 0.00 32.80 4.37
146 147 8.554490 AGAAGTGTCTATTATGTAACTCCCAT 57.446 34.615 0.00 0.00 29.93 4.00
147 148 8.993424 AGAAGTGTCTATTATGTAACTCCCATT 58.007 33.333 0.00 0.00 29.93 3.16
148 149 8.964476 AAGTGTCTATTATGTAACTCCCATTG 57.036 34.615 0.00 0.00 0.00 2.82
149 150 7.509546 AGTGTCTATTATGTAACTCCCATTGG 58.490 38.462 0.00 0.00 0.00 3.16
150 151 6.710744 GTGTCTATTATGTAACTCCCATTGGG 59.289 42.308 16.26 16.26 46.11 4.12
160 161 4.258206 CCATTGGGGGAATCCACG 57.742 61.111 0.09 0.00 40.06 4.94
161 162 1.612513 CCATTGGGGGAATCCACGA 59.387 57.895 0.09 0.00 40.06 4.35
162 163 0.033601 CCATTGGGGGAATCCACGAA 60.034 55.000 0.43 0.43 40.06 3.85
163 164 1.411501 CCATTGGGGGAATCCACGAAT 60.412 52.381 5.92 5.92 40.06 3.34
164 165 2.387757 CATTGGGGGAATCCACGAATT 58.612 47.619 9.14 0.00 40.06 2.17
165 166 2.614134 TTGGGGGAATCCACGAATTT 57.386 45.000 0.09 0.00 40.06 1.82
166 167 2.137810 TGGGGGAATCCACGAATTTC 57.862 50.000 0.09 0.00 40.06 2.17
167 168 1.341581 TGGGGGAATCCACGAATTTCC 60.342 52.381 0.09 0.00 40.06 3.13
169 170 1.021968 GGGAATCCACGAATTTCCCG 58.978 55.000 0.09 0.00 46.70 5.14
170 171 1.407712 GGGAATCCACGAATTTCCCGA 60.408 52.381 0.09 0.00 46.70 5.14
171 172 2.572290 GGAATCCACGAATTTCCCGAT 58.428 47.619 0.00 0.00 34.15 4.18
172 173 2.290641 GGAATCCACGAATTTCCCGATG 59.709 50.000 0.00 0.00 34.15 3.84
173 174 2.710096 ATCCACGAATTTCCCGATGT 57.290 45.000 0.00 0.00 0.00 3.06
174 175 2.483014 TCCACGAATTTCCCGATGTT 57.517 45.000 0.00 0.00 0.00 2.71
175 176 2.080693 TCCACGAATTTCCCGATGTTG 58.919 47.619 0.00 0.00 0.00 3.33
176 177 1.467374 CCACGAATTTCCCGATGTTGC 60.467 52.381 0.00 0.00 0.00 4.17
177 178 1.468520 CACGAATTTCCCGATGTTGCT 59.531 47.619 0.00 0.00 0.00 3.91
178 179 2.675844 CACGAATTTCCCGATGTTGCTA 59.324 45.455 0.00 0.00 0.00 3.49
179 180 3.126171 CACGAATTTCCCGATGTTGCTAA 59.874 43.478 0.00 0.00 0.00 3.09
180 181 3.126343 ACGAATTTCCCGATGTTGCTAAC 59.874 43.478 0.00 0.00 0.00 2.34
181 182 3.126171 CGAATTTCCCGATGTTGCTAACA 59.874 43.478 4.56 4.56 46.94 2.41
182 183 4.412207 GAATTTCCCGATGTTGCTAACAC 58.588 43.478 4.23 0.09 45.50 3.32
183 184 1.816074 TTCCCGATGTTGCTAACACC 58.184 50.000 4.23 0.00 45.50 4.16
184 185 0.035820 TCCCGATGTTGCTAACACCC 60.036 55.000 4.23 0.57 45.50 4.61
185 186 1.029947 CCCGATGTTGCTAACACCCC 61.030 60.000 4.23 0.00 45.50 4.95
186 187 0.322098 CCGATGTTGCTAACACCCCA 60.322 55.000 4.23 0.00 45.50 4.96
187 188 1.681780 CCGATGTTGCTAACACCCCAT 60.682 52.381 4.23 0.00 45.50 4.00
188 189 1.670811 CGATGTTGCTAACACCCCATC 59.329 52.381 4.23 0.00 45.50 3.51
189 190 2.680805 CGATGTTGCTAACACCCCATCT 60.681 50.000 4.23 0.00 45.50 2.90
190 191 2.489938 TGTTGCTAACACCCCATCTC 57.510 50.000 0.00 0.00 36.25 2.75
191 192 1.338674 TGTTGCTAACACCCCATCTCG 60.339 52.381 0.00 0.00 36.25 4.04
192 193 0.981183 TTGCTAACACCCCATCTCGT 59.019 50.000 0.00 0.00 0.00 4.18
193 194 0.981183 TGCTAACACCCCATCTCGTT 59.019 50.000 0.00 0.00 0.00 3.85
194 195 1.338674 TGCTAACACCCCATCTCGTTG 60.339 52.381 0.00 0.00 0.00 4.10
195 196 1.066430 GCTAACACCCCATCTCGTTGA 60.066 52.381 0.00 0.00 0.00 3.18
196 197 2.893637 CTAACACCCCATCTCGTTGAG 58.106 52.381 0.00 0.00 0.00 3.02
197 198 1.056660 AACACCCCATCTCGTTGAGT 58.943 50.000 0.00 0.00 0.00 3.41
198 199 1.056660 ACACCCCATCTCGTTGAGTT 58.943 50.000 0.00 0.00 0.00 3.01
199 200 1.420138 ACACCCCATCTCGTTGAGTTT 59.580 47.619 0.00 0.00 0.00 2.66
200 201 1.806542 CACCCCATCTCGTTGAGTTTG 59.193 52.381 0.00 0.00 0.00 2.93
201 202 1.420138 ACCCCATCTCGTTGAGTTTGT 59.580 47.619 0.00 0.00 0.00 2.83
202 203 2.635915 ACCCCATCTCGTTGAGTTTGTA 59.364 45.455 0.00 0.00 0.00 2.41
203 204 3.071892 ACCCCATCTCGTTGAGTTTGTAA 59.928 43.478 0.00 0.00 0.00 2.41
204 205 3.435671 CCCCATCTCGTTGAGTTTGTAAC 59.564 47.826 0.00 0.00 0.00 2.50
206 207 3.739300 CCATCTCGTTGAGTTTGTAACGT 59.261 43.478 8.99 0.00 46.90 3.99
207 208 4.919168 CCATCTCGTTGAGTTTGTAACGTA 59.081 41.667 8.99 0.96 46.90 3.57
208 209 5.060569 CCATCTCGTTGAGTTTGTAACGTAG 59.939 44.000 8.99 6.17 46.90 3.51
210 211 6.299023 TCTCGTTGAGTTTGTAACGTAGTA 57.701 37.500 8.99 0.00 45.00 1.82
211 212 6.902341 TCTCGTTGAGTTTGTAACGTAGTAT 58.098 36.000 8.99 0.00 45.00 2.12
212 213 6.798476 TCTCGTTGAGTTTGTAACGTAGTATG 59.202 38.462 8.99 0.00 45.00 2.39
213 214 6.667370 TCGTTGAGTTTGTAACGTAGTATGA 58.333 36.000 8.99 0.00 45.00 2.15
214 215 7.307694 TCGTTGAGTTTGTAACGTAGTATGAT 58.692 34.615 8.99 0.00 45.00 2.45
215 216 7.271868 TCGTTGAGTTTGTAACGTAGTATGATG 59.728 37.037 8.99 0.00 45.00 3.07
216 217 6.880822 TGAGTTTGTAACGTAGTATGATGC 57.119 37.500 0.00 0.00 45.00 3.91
217 218 6.391537 TGAGTTTGTAACGTAGTATGATGCA 58.608 36.000 0.00 0.00 45.00 3.96
218 219 6.309494 TGAGTTTGTAACGTAGTATGATGCAC 59.691 38.462 0.00 0.00 45.00 4.57
219 220 5.579511 AGTTTGTAACGTAGTATGATGCACC 59.420 40.000 0.00 0.00 45.00 5.01
220 221 4.994907 TGTAACGTAGTATGATGCACCT 57.005 40.909 0.00 0.00 45.00 4.00
221 222 5.333299 TGTAACGTAGTATGATGCACCTT 57.667 39.130 0.00 0.00 45.00 3.50
222 223 5.106442 TGTAACGTAGTATGATGCACCTTG 58.894 41.667 0.00 0.00 45.00 3.61
223 224 4.465632 AACGTAGTATGATGCACCTTGA 57.534 40.909 0.00 0.00 45.00 3.02
224 225 4.465632 ACGTAGTATGATGCACCTTGAA 57.534 40.909 0.00 0.00 41.94 2.69
225 226 4.433615 ACGTAGTATGATGCACCTTGAAG 58.566 43.478 0.00 0.00 41.94 3.02
226 227 4.159693 ACGTAGTATGATGCACCTTGAAGA 59.840 41.667 0.00 0.00 41.94 2.87
227 228 4.504461 CGTAGTATGATGCACCTTGAAGAC 59.496 45.833 0.00 0.00 0.00 3.01
228 229 4.833478 AGTATGATGCACCTTGAAGACT 57.167 40.909 0.00 0.00 0.00 3.24
229 230 4.511527 AGTATGATGCACCTTGAAGACTG 58.488 43.478 0.00 0.00 0.00 3.51
230 231 2.189594 TGATGCACCTTGAAGACTGG 57.810 50.000 0.00 0.00 0.00 4.00
231 232 0.807496 GATGCACCTTGAAGACTGGC 59.193 55.000 0.00 0.00 0.00 4.85
232 233 0.111061 ATGCACCTTGAAGACTGGCA 59.889 50.000 0.00 0.00 0.00 4.92
233 234 0.111061 TGCACCTTGAAGACTGGCAT 59.889 50.000 0.00 0.00 0.00 4.40
234 235 0.807496 GCACCTTGAAGACTGGCATC 59.193 55.000 0.00 0.00 0.00 3.91
235 236 1.883638 GCACCTTGAAGACTGGCATCA 60.884 52.381 0.00 0.00 0.00 3.07
236 237 2.719739 CACCTTGAAGACTGGCATCAT 58.280 47.619 0.00 0.00 0.00 2.45
237 238 2.681848 CACCTTGAAGACTGGCATCATC 59.318 50.000 0.00 0.00 0.00 2.92
238 239 2.306805 ACCTTGAAGACTGGCATCATCA 59.693 45.455 0.00 0.00 0.00 3.07
239 240 2.943690 CCTTGAAGACTGGCATCATCAG 59.056 50.000 0.00 0.00 38.16 2.90
240 241 2.704464 TGAAGACTGGCATCATCAGG 57.296 50.000 0.00 0.00 36.62 3.86
241 242 1.911357 TGAAGACTGGCATCATCAGGT 59.089 47.619 0.00 0.00 36.62 4.00
242 243 2.306805 TGAAGACTGGCATCATCAGGTT 59.693 45.455 0.00 0.00 36.62 3.50
243 244 2.706339 AGACTGGCATCATCAGGTTC 57.294 50.000 0.00 0.00 36.62 3.62
244 245 1.134580 AGACTGGCATCATCAGGTTCG 60.135 52.381 0.00 0.00 36.62 3.95
245 246 0.615331 ACTGGCATCATCAGGTTCGT 59.385 50.000 0.00 0.00 36.62 3.85
246 247 1.831106 ACTGGCATCATCAGGTTCGTA 59.169 47.619 0.00 0.00 36.62 3.43
247 248 2.236146 ACTGGCATCATCAGGTTCGTAA 59.764 45.455 0.00 0.00 36.62 3.18
2387 2451 6.314896 GGATCTCTCAATTGTAGAGGTTTGTG 59.685 42.308 23.26 7.73 40.77 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.043310 TCTTTTTCCCAGATGACCAGACAT 59.957 41.667 0.00 0.00 0.00 3.06
1 2 3.394274 TCTTTTTCCCAGATGACCAGACA 59.606 43.478 0.00 0.00 0.00 3.41
2 3 4.021102 TCTTTTTCCCAGATGACCAGAC 57.979 45.455 0.00 0.00 0.00 3.51
3 4 4.537688 AGATCTTTTTCCCAGATGACCAGA 59.462 41.667 0.00 0.00 30.70 3.86
4 5 4.853007 AGATCTTTTTCCCAGATGACCAG 58.147 43.478 0.00 0.00 30.70 4.00
5 6 4.324563 GGAGATCTTTTTCCCAGATGACCA 60.325 45.833 0.00 0.00 30.70 4.02
6 7 4.203226 GGAGATCTTTTTCCCAGATGACC 58.797 47.826 0.00 0.00 30.70 4.02
7 8 3.873952 CGGAGATCTTTTTCCCAGATGAC 59.126 47.826 0.00 0.00 30.70 3.06
8 9 3.682718 GCGGAGATCTTTTTCCCAGATGA 60.683 47.826 0.00 0.00 30.70 2.92
9 10 2.615912 GCGGAGATCTTTTTCCCAGATG 59.384 50.000 0.00 0.00 30.70 2.90
10 11 2.239654 TGCGGAGATCTTTTTCCCAGAT 59.760 45.455 0.00 0.00 33.42 2.90
11 12 1.628340 TGCGGAGATCTTTTTCCCAGA 59.372 47.619 0.00 0.00 0.00 3.86
12 13 2.113860 TGCGGAGATCTTTTTCCCAG 57.886 50.000 0.00 0.00 0.00 4.45
13 14 2.577606 TTGCGGAGATCTTTTTCCCA 57.422 45.000 0.00 0.00 0.00 4.37
14 15 4.082245 TCAATTTGCGGAGATCTTTTTCCC 60.082 41.667 0.00 0.00 0.00 3.97
15 16 5.059404 TCAATTTGCGGAGATCTTTTTCC 57.941 39.130 0.00 0.00 0.00 3.13
16 17 6.152379 ACTTCAATTTGCGGAGATCTTTTTC 58.848 36.000 0.00 0.00 0.00 2.29
17 18 6.089249 ACTTCAATTTGCGGAGATCTTTTT 57.911 33.333 0.00 0.00 0.00 1.94
18 19 5.712152 ACTTCAATTTGCGGAGATCTTTT 57.288 34.783 0.00 0.00 0.00 2.27
19 20 5.705441 TGTACTTCAATTTGCGGAGATCTTT 59.295 36.000 0.00 0.00 0.00 2.52
20 21 5.245531 TGTACTTCAATTTGCGGAGATCTT 58.754 37.500 0.00 0.00 0.00 2.40
21 22 4.832248 TGTACTTCAATTTGCGGAGATCT 58.168 39.130 0.00 0.00 0.00 2.75
22 23 5.324697 GTTGTACTTCAATTTGCGGAGATC 58.675 41.667 0.00 0.00 38.38 2.75
23 24 4.142902 CGTTGTACTTCAATTTGCGGAGAT 60.143 41.667 0.00 0.00 38.38 2.75
24 25 3.185594 CGTTGTACTTCAATTTGCGGAGA 59.814 43.478 0.00 0.00 38.38 3.71
25 26 3.059188 ACGTTGTACTTCAATTTGCGGAG 60.059 43.478 0.00 0.00 38.38 4.63
26 27 2.873472 ACGTTGTACTTCAATTTGCGGA 59.127 40.909 0.00 0.00 38.38 5.54
27 28 3.262135 ACGTTGTACTTCAATTTGCGG 57.738 42.857 0.00 0.00 38.38 5.69
28 29 5.013861 ACTACGTTGTACTTCAATTTGCG 57.986 39.130 0.00 0.00 38.38 4.85
29 30 7.960793 AGATACTACGTTGTACTTCAATTTGC 58.039 34.615 12.01 0.00 38.38 3.68
30 31 9.135843 TGAGATACTACGTTGTACTTCAATTTG 57.864 33.333 12.01 0.00 38.38 2.32
31 32 9.701098 TTGAGATACTACGTTGTACTTCAATTT 57.299 29.630 22.20 5.22 38.38 1.82
32 33 9.871238 ATTGAGATACTACGTTGTACTTCAATT 57.129 29.630 26.47 18.27 36.51 2.32
33 34 9.302345 CATTGAGATACTACGTTGTACTTCAAT 57.698 33.333 26.47 26.47 38.23 2.57
34 35 8.517056 TCATTGAGATACTACGTTGTACTTCAA 58.483 33.333 25.24 25.24 35.06 2.69
35 36 8.047413 TCATTGAGATACTACGTTGTACTTCA 57.953 34.615 12.01 14.45 0.00 3.02
36 37 8.906636 TTCATTGAGATACTACGTTGTACTTC 57.093 34.615 12.01 12.34 0.00 3.01
37 38 8.737175 TCTTCATTGAGATACTACGTTGTACTT 58.263 33.333 12.01 3.75 0.00 2.24
38 39 8.277490 TCTTCATTGAGATACTACGTTGTACT 57.723 34.615 12.01 10.97 0.00 2.73
39 40 7.644551 CCTCTTCATTGAGATACTACGTTGTAC 59.355 40.741 12.01 6.79 36.23 2.90
40 41 7.201794 CCCTCTTCATTGAGATACTACGTTGTA 60.202 40.741 12.15 12.15 36.23 2.41
41 42 6.405953 CCCTCTTCATTGAGATACTACGTTGT 60.406 42.308 7.95 7.95 36.23 3.32
42 43 5.980116 CCCTCTTCATTGAGATACTACGTTG 59.020 44.000 0.00 0.00 36.23 4.10
43 44 5.657302 ACCCTCTTCATTGAGATACTACGTT 59.343 40.000 0.00 0.00 36.23 3.99
44 45 5.067936 CACCCTCTTCATTGAGATACTACGT 59.932 44.000 0.00 0.00 36.23 3.57
45 46 5.524284 CACCCTCTTCATTGAGATACTACG 58.476 45.833 0.00 0.00 36.23 3.51
46 47 5.293560 GCACCCTCTTCATTGAGATACTAC 58.706 45.833 0.00 0.00 36.23 2.73
47 48 4.345257 GGCACCCTCTTCATTGAGATACTA 59.655 45.833 0.00 0.00 36.23 1.82
48 49 3.135530 GGCACCCTCTTCATTGAGATACT 59.864 47.826 0.00 0.00 36.23 2.12
49 50 3.118261 TGGCACCCTCTTCATTGAGATAC 60.118 47.826 0.00 0.00 36.23 2.24
50 51 3.114606 TGGCACCCTCTTCATTGAGATA 58.885 45.455 0.00 0.00 36.23 1.98
51 52 1.918262 TGGCACCCTCTTCATTGAGAT 59.082 47.619 0.00 0.00 36.23 2.75
52 53 1.361204 TGGCACCCTCTTCATTGAGA 58.639 50.000 0.00 0.00 36.23 3.27
53 54 2.431954 ATGGCACCCTCTTCATTGAG 57.568 50.000 0.00 0.00 0.00 3.02
54 55 2.309755 AGAATGGCACCCTCTTCATTGA 59.690 45.455 0.00 0.00 30.97 2.57
55 56 2.426024 CAGAATGGCACCCTCTTCATTG 59.574 50.000 0.00 0.00 30.97 2.82
56 57 2.731572 CAGAATGGCACCCTCTTCATT 58.268 47.619 0.00 0.00 33.17 2.57
57 58 2.431954 CAGAATGGCACCCTCTTCAT 57.568 50.000 0.00 0.00 0.00 2.57
58 59 3.963733 CAGAATGGCACCCTCTTCA 57.036 52.632 0.00 0.00 0.00 3.02
70 71 7.767659 TCTGAACTATTTGAGACATCCAGAATG 59.232 37.037 0.00 0.00 41.48 2.67
71 72 7.855375 TCTGAACTATTTGAGACATCCAGAAT 58.145 34.615 0.00 0.00 0.00 2.40
72 73 7.244886 TCTGAACTATTTGAGACATCCAGAA 57.755 36.000 0.00 0.00 0.00 3.02
73 74 6.857437 TCTGAACTATTTGAGACATCCAGA 57.143 37.500 0.00 0.00 0.00 3.86
74 75 7.767659 TGATTCTGAACTATTTGAGACATCCAG 59.232 37.037 0.00 0.00 0.00 3.86
75 76 7.623630 TGATTCTGAACTATTTGAGACATCCA 58.376 34.615 0.00 0.00 0.00 3.41
76 77 8.498054 TTGATTCTGAACTATTTGAGACATCC 57.502 34.615 0.00 0.00 0.00 3.51
77 78 9.160496 ACTTGATTCTGAACTATTTGAGACATC 57.840 33.333 0.00 0.00 0.00 3.06
78 79 8.944029 CACTTGATTCTGAACTATTTGAGACAT 58.056 33.333 0.00 0.00 0.00 3.06
79 80 7.095060 GCACTTGATTCTGAACTATTTGAGACA 60.095 37.037 0.00 0.00 0.00 3.41
80 81 7.239972 GCACTTGATTCTGAACTATTTGAGAC 58.760 38.462 0.00 0.00 0.00 3.36
81 82 6.091305 CGCACTTGATTCTGAACTATTTGAGA 59.909 38.462 0.00 0.00 0.00 3.27
82 83 6.128445 ACGCACTTGATTCTGAACTATTTGAG 60.128 38.462 0.00 0.00 0.00 3.02
83 84 5.700832 ACGCACTTGATTCTGAACTATTTGA 59.299 36.000 0.00 0.00 0.00 2.69
84 85 5.931532 ACGCACTTGATTCTGAACTATTTG 58.068 37.500 0.00 0.00 0.00 2.32
85 86 5.163953 CGACGCACTTGATTCTGAACTATTT 60.164 40.000 0.00 0.00 0.00 1.40
86 87 4.327357 CGACGCACTTGATTCTGAACTATT 59.673 41.667 0.00 0.00 0.00 1.73
87 88 3.859961 CGACGCACTTGATTCTGAACTAT 59.140 43.478 0.00 0.00 0.00 2.12
88 89 3.242518 CGACGCACTTGATTCTGAACTA 58.757 45.455 0.00 0.00 0.00 2.24
89 90 2.061773 CGACGCACTTGATTCTGAACT 58.938 47.619 0.00 0.00 0.00 3.01
90 91 1.126846 CCGACGCACTTGATTCTGAAC 59.873 52.381 0.00 0.00 0.00 3.18
91 92 1.270094 ACCGACGCACTTGATTCTGAA 60.270 47.619 0.00 0.00 0.00 3.02
92 93 0.317160 ACCGACGCACTTGATTCTGA 59.683 50.000 0.00 0.00 0.00 3.27
93 94 1.990799 TACCGACGCACTTGATTCTG 58.009 50.000 0.00 0.00 0.00 3.02
94 95 2.735134 GTTTACCGACGCACTTGATTCT 59.265 45.455 0.00 0.00 0.00 2.40
95 96 2.477375 TGTTTACCGACGCACTTGATTC 59.523 45.455 0.00 0.00 0.00 2.52
96 97 2.478894 CTGTTTACCGACGCACTTGATT 59.521 45.455 0.00 0.00 0.00 2.57
97 98 2.066262 CTGTTTACCGACGCACTTGAT 58.934 47.619 0.00 0.00 0.00 2.57
98 99 1.493772 CTGTTTACCGACGCACTTGA 58.506 50.000 0.00 0.00 0.00 3.02
99 100 0.511221 CCTGTTTACCGACGCACTTG 59.489 55.000 0.00 0.00 0.00 3.16
100 101 1.226030 GCCTGTTTACCGACGCACTT 61.226 55.000 0.00 0.00 0.00 3.16
101 102 1.666872 GCCTGTTTACCGACGCACT 60.667 57.895 0.00 0.00 0.00 4.40
102 103 2.858158 GCCTGTTTACCGACGCAC 59.142 61.111 0.00 0.00 0.00 5.34
103 104 2.735478 CGCCTGTTTACCGACGCA 60.735 61.111 0.00 0.00 0.00 5.24
104 105 2.431260 TCGCCTGTTTACCGACGC 60.431 61.111 0.00 0.00 0.00 5.19
105 106 0.387622 TTCTCGCCTGTTTACCGACG 60.388 55.000 0.00 0.00 0.00 5.12
106 107 1.336609 ACTTCTCGCCTGTTTACCGAC 60.337 52.381 0.00 0.00 0.00 4.79
107 108 0.963962 ACTTCTCGCCTGTTTACCGA 59.036 50.000 0.00 0.00 0.00 4.69
108 109 1.068474 CACTTCTCGCCTGTTTACCG 58.932 55.000 0.00 0.00 0.00 4.02
109 110 2.067013 GACACTTCTCGCCTGTTTACC 58.933 52.381 0.00 0.00 0.00 2.85
110 111 3.027974 AGACACTTCTCGCCTGTTTAC 57.972 47.619 0.00 0.00 0.00 2.01
111 112 5.401531 AATAGACACTTCTCGCCTGTTTA 57.598 39.130 0.00 0.00 32.75 2.01
112 113 3.963428 ATAGACACTTCTCGCCTGTTT 57.037 42.857 0.00 0.00 32.75 2.83
113 114 3.963428 AATAGACACTTCTCGCCTGTT 57.037 42.857 0.00 0.00 32.75 3.16
114 115 4.402793 ACATAATAGACACTTCTCGCCTGT 59.597 41.667 0.00 0.00 32.75 4.00
115 116 4.938080 ACATAATAGACACTTCTCGCCTG 58.062 43.478 0.00 0.00 32.75 4.85
116 117 6.321690 AGTTACATAATAGACACTTCTCGCCT 59.678 38.462 0.00 0.00 32.75 5.52
117 118 6.505272 AGTTACATAATAGACACTTCTCGCC 58.495 40.000 0.00 0.00 32.75 5.54
118 119 6.637658 GGAGTTACATAATAGACACTTCTCGC 59.362 42.308 0.00 0.00 32.75 5.03
119 120 7.140048 GGGAGTTACATAATAGACACTTCTCG 58.860 42.308 0.00 0.00 32.75 4.04
120 121 8.008513 TGGGAGTTACATAATAGACACTTCTC 57.991 38.462 0.00 0.00 32.75 2.87
121 122 7.973048 TGGGAGTTACATAATAGACACTTCT 57.027 36.000 0.00 0.00 35.66 2.85
122 123 9.046296 CAATGGGAGTTACATAATAGACACTTC 57.954 37.037 0.00 0.00 0.00 3.01
123 124 7.993183 CCAATGGGAGTTACATAATAGACACTT 59.007 37.037 0.00 0.00 35.59 3.16
124 125 7.509546 CCAATGGGAGTTACATAATAGACACT 58.490 38.462 0.00 0.00 35.59 3.55
125 126 7.730364 CCAATGGGAGTTACATAATAGACAC 57.270 40.000 0.00 0.00 35.59 3.67
143 144 0.033601 TTCGTGGATTCCCCCAATGG 60.034 55.000 0.00 0.00 38.06 3.16
144 145 2.071778 ATTCGTGGATTCCCCCAATG 57.928 50.000 0.00 0.00 38.06 2.82
145 146 2.846665 AATTCGTGGATTCCCCCAAT 57.153 45.000 0.00 0.00 38.06 3.16
146 147 2.452505 GAAATTCGTGGATTCCCCCAA 58.547 47.619 0.00 0.00 38.06 4.12
147 148 1.341581 GGAAATTCGTGGATTCCCCCA 60.342 52.381 0.00 0.00 37.28 4.96
148 149 1.399714 GGAAATTCGTGGATTCCCCC 58.600 55.000 0.00 0.00 37.28 5.40
151 152 2.032680 TCGGGAAATTCGTGGATTCC 57.967 50.000 0.00 0.00 41.53 3.01
152 153 2.943033 ACATCGGGAAATTCGTGGATTC 59.057 45.455 0.00 0.00 0.00 2.52
153 154 2.999331 ACATCGGGAAATTCGTGGATT 58.001 42.857 0.00 0.00 0.00 3.01
154 155 2.682856 CAACATCGGGAAATTCGTGGAT 59.317 45.455 0.00 0.00 0.00 3.41
155 156 2.080693 CAACATCGGGAAATTCGTGGA 58.919 47.619 0.00 0.00 0.00 4.02
156 157 1.467374 GCAACATCGGGAAATTCGTGG 60.467 52.381 0.00 0.00 0.00 4.94
157 158 1.468520 AGCAACATCGGGAAATTCGTG 59.531 47.619 0.00 0.00 0.00 4.35
158 159 1.821216 AGCAACATCGGGAAATTCGT 58.179 45.000 0.00 0.00 0.00 3.85
159 160 3.126171 TGTTAGCAACATCGGGAAATTCG 59.874 43.478 0.00 0.00 36.25 3.34
160 161 4.412207 GTGTTAGCAACATCGGGAAATTC 58.588 43.478 5.26 0.00 44.35 2.17
161 162 3.192633 GGTGTTAGCAACATCGGGAAATT 59.807 43.478 5.26 0.00 44.35 1.82
162 163 2.752903 GGTGTTAGCAACATCGGGAAAT 59.247 45.455 5.26 0.00 44.35 2.17
163 164 2.156098 GGTGTTAGCAACATCGGGAAA 58.844 47.619 5.26 0.00 44.35 3.13
164 165 1.612199 GGGTGTTAGCAACATCGGGAA 60.612 52.381 0.00 0.00 43.49 3.97
165 166 0.035820 GGGTGTTAGCAACATCGGGA 60.036 55.000 0.00 0.00 43.49 5.14
166 167 1.029947 GGGGTGTTAGCAACATCGGG 61.030 60.000 0.00 0.00 43.49 5.14
167 168 0.322098 TGGGGTGTTAGCAACATCGG 60.322 55.000 0.00 0.00 43.49 4.18
168 169 1.670811 GATGGGGTGTTAGCAACATCG 59.329 52.381 0.00 0.00 43.49 3.84
169 170 2.945668 GAGATGGGGTGTTAGCAACATC 59.054 50.000 0.00 4.76 44.35 3.06
170 171 2.680805 CGAGATGGGGTGTTAGCAACAT 60.681 50.000 0.00 0.00 44.35 2.71
171 172 1.338674 CGAGATGGGGTGTTAGCAACA 60.339 52.381 0.00 0.00 39.52 3.33
172 173 1.338769 ACGAGATGGGGTGTTAGCAAC 60.339 52.381 0.00 0.00 0.00 4.17
173 174 0.981183 ACGAGATGGGGTGTTAGCAA 59.019 50.000 0.00 0.00 0.00 3.91
174 175 0.981183 AACGAGATGGGGTGTTAGCA 59.019 50.000 0.00 0.00 0.00 3.49
175 176 1.066430 TCAACGAGATGGGGTGTTAGC 60.066 52.381 0.00 0.00 0.00 3.09
176 177 2.233922 ACTCAACGAGATGGGGTGTTAG 59.766 50.000 0.00 0.00 33.32 2.34
177 178 2.253610 ACTCAACGAGATGGGGTGTTA 58.746 47.619 0.00 0.00 33.32 2.41
178 179 1.056660 ACTCAACGAGATGGGGTGTT 58.943 50.000 0.00 0.00 33.32 3.32
179 180 1.056660 AACTCAACGAGATGGGGTGT 58.943 50.000 0.00 0.00 33.32 4.16
180 181 1.806542 CAAACTCAACGAGATGGGGTG 59.193 52.381 0.00 0.00 33.32 4.61
181 182 1.420138 ACAAACTCAACGAGATGGGGT 59.580 47.619 0.00 0.00 33.32 4.95
182 183 2.185004 ACAAACTCAACGAGATGGGG 57.815 50.000 0.00 0.00 33.32 4.96
183 184 4.663636 GTTACAAACTCAACGAGATGGG 57.336 45.455 0.00 0.00 33.32 4.00
191 192 7.148705 TGCATCATACTACGTTACAAACTCAAC 60.149 37.037 0.00 0.00 0.00 3.18
192 193 6.869388 TGCATCATACTACGTTACAAACTCAA 59.131 34.615 0.00 0.00 0.00 3.02
193 194 6.309494 GTGCATCATACTACGTTACAAACTCA 59.691 38.462 0.00 0.00 0.00 3.41
194 195 6.237755 GGTGCATCATACTACGTTACAAACTC 60.238 42.308 0.00 0.00 0.00 3.01
195 196 5.579511 GGTGCATCATACTACGTTACAAACT 59.420 40.000 0.00 0.00 0.00 2.66
196 197 5.579511 AGGTGCATCATACTACGTTACAAAC 59.420 40.000 0.00 0.00 0.00 2.93
197 198 5.726397 AGGTGCATCATACTACGTTACAAA 58.274 37.500 0.00 0.00 0.00 2.83
198 199 5.333299 AGGTGCATCATACTACGTTACAA 57.667 39.130 0.00 0.00 0.00 2.41
199 200 4.994907 AGGTGCATCATACTACGTTACA 57.005 40.909 0.00 0.00 0.00 2.41
200 201 5.345702 TCAAGGTGCATCATACTACGTTAC 58.654 41.667 0.00 0.00 0.00 2.50
201 202 5.585820 TCAAGGTGCATCATACTACGTTA 57.414 39.130 0.00 0.00 0.00 3.18
202 203 4.465632 TCAAGGTGCATCATACTACGTT 57.534 40.909 0.00 0.00 0.00 3.99
203 204 4.159693 TCTTCAAGGTGCATCATACTACGT 59.840 41.667 0.00 0.00 0.00 3.57
204 205 4.504461 GTCTTCAAGGTGCATCATACTACG 59.496 45.833 0.00 0.00 0.00 3.51
205 206 5.521735 CAGTCTTCAAGGTGCATCATACTAC 59.478 44.000 0.00 0.00 0.00 2.73
206 207 5.395657 CCAGTCTTCAAGGTGCATCATACTA 60.396 44.000 0.00 0.00 0.00 1.82
207 208 4.511527 CAGTCTTCAAGGTGCATCATACT 58.488 43.478 0.00 0.00 0.00 2.12
208 209 3.624861 CCAGTCTTCAAGGTGCATCATAC 59.375 47.826 0.00 0.00 0.00 2.39
209 210 3.877559 CCAGTCTTCAAGGTGCATCATA 58.122 45.455 0.00 0.00 0.00 2.15
210 211 2.719739 CCAGTCTTCAAGGTGCATCAT 58.280 47.619 0.00 0.00 0.00 2.45
211 212 1.883638 GCCAGTCTTCAAGGTGCATCA 60.884 52.381 0.00 0.00 0.00 3.07
212 213 0.807496 GCCAGTCTTCAAGGTGCATC 59.193 55.000 0.00 0.00 0.00 3.91
213 214 0.111061 TGCCAGTCTTCAAGGTGCAT 59.889 50.000 0.00 0.00 0.00 3.96
214 215 0.111061 ATGCCAGTCTTCAAGGTGCA 59.889 50.000 0.00 0.00 0.00 4.57
215 216 0.807496 GATGCCAGTCTTCAAGGTGC 59.193 55.000 0.00 0.00 0.00 5.01
216 217 2.189594 TGATGCCAGTCTTCAAGGTG 57.810 50.000 0.00 0.00 0.00 4.00
217 218 2.306805 TGATGATGCCAGTCTTCAAGGT 59.693 45.455 0.00 0.00 33.33 3.50
218 219 2.943690 CTGATGATGCCAGTCTTCAAGG 59.056 50.000 0.00 0.00 33.54 3.61
219 220 2.943690 CCTGATGATGCCAGTCTTCAAG 59.056 50.000 0.00 0.00 33.54 3.02
220 221 2.306805 ACCTGATGATGCCAGTCTTCAA 59.693 45.455 0.00 0.00 33.54 2.69
221 222 1.911357 ACCTGATGATGCCAGTCTTCA 59.089 47.619 0.00 0.00 34.00 3.02
222 223 2.706339 ACCTGATGATGCCAGTCTTC 57.294 50.000 0.00 0.00 0.00 2.87
223 224 2.679059 CGAACCTGATGATGCCAGTCTT 60.679 50.000 0.00 0.00 0.00 3.01
224 225 1.134580 CGAACCTGATGATGCCAGTCT 60.135 52.381 0.00 0.00 0.00 3.24
225 226 1.293924 CGAACCTGATGATGCCAGTC 58.706 55.000 0.00 0.00 0.00 3.51
226 227 0.615331 ACGAACCTGATGATGCCAGT 59.385 50.000 0.00 0.00 0.00 4.00
227 228 2.602257 TACGAACCTGATGATGCCAG 57.398 50.000 0.00 0.00 0.00 4.85
228 229 3.342377 TTTACGAACCTGATGATGCCA 57.658 42.857 0.00 0.00 0.00 4.92
229 230 3.627577 ACATTTACGAACCTGATGATGCC 59.372 43.478 0.00 0.00 0.00 4.40
230 231 4.882671 ACATTTACGAACCTGATGATGC 57.117 40.909 0.00 0.00 0.00 3.91
231 232 5.123820 ACCAACATTTACGAACCTGATGATG 59.876 40.000 0.00 0.00 0.00 3.07
232 233 5.123820 CACCAACATTTACGAACCTGATGAT 59.876 40.000 0.00 0.00 0.00 2.45
233 234 4.454161 CACCAACATTTACGAACCTGATGA 59.546 41.667 0.00 0.00 0.00 2.92
234 235 4.215399 ACACCAACATTTACGAACCTGATG 59.785 41.667 0.00 0.00 0.00 3.07
235 236 4.394729 ACACCAACATTTACGAACCTGAT 58.605 39.130 0.00 0.00 0.00 2.90
236 237 3.811083 ACACCAACATTTACGAACCTGA 58.189 40.909 0.00 0.00 0.00 3.86
237 238 5.873179 ATACACCAACATTTACGAACCTG 57.127 39.130 0.00 0.00 0.00 4.00
238 239 6.938507 TCTATACACCAACATTTACGAACCT 58.061 36.000 0.00 0.00 0.00 3.50
239 240 7.781548 ATCTATACACCAACATTTACGAACC 57.218 36.000 0.00 0.00 0.00 3.62
2387 2451 3.629142 AAGCACACCAGGTAGGATAAC 57.371 47.619 0.00 0.00 41.22 1.89
3092 3159 8.924691 TCAAATATGTTGCAGTTTTTATTGCTC 58.075 29.630 0.00 0.00 40.87 4.26


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

AutoCloner maintained by Alex Coulton.