Multiple sequence alignment - TraesCS3B01G055300

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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 TraesCS3B01G055300 chr3B 100.000 3089 0 0 1 3089 28542595 28539507 0.000000e+00 5705
1 TraesCS3B01G055300 chr3B 93.449 2931 151 14 193 3089 14024420 14021497 0.000000e+00 4311
2 TraesCS3B01G055300 chr3B 93.839 2808 151 14 301 3089 14106556 14103752 0.000000e+00 4207
3 TraesCS3B01G055300 chr3B 93.269 2808 162 16 193 2989 14066663 14063872 0.000000e+00 4113
4 TraesCS3B01G055300 chr3B 92.104 2913 195 19 193 3089 14113329 14110436 0.000000e+00 4072
5 TraesCS3B01G055300 chr3B 91.329 2860 191 20 250 3089 28410337 28407515 0.000000e+00 3855
6 TraesCS3B01G055300 chr3B 91.227 2861 193 20 250 3089 28456849 28454026 0.000000e+00 3840
7 TraesCS3B01G055300 chr3B 91.224 2860 194 21 250 3089 28423501 28420679 0.000000e+00 3838
8 TraesCS3B01G055300 chr3B 90.766 2859 204 19 250 3089 28530919 28528102 0.000000e+00 3762
9 TraesCS3B01G055300 chr3B 90.493 2861 206 24 250 3089 28519510 28516695 0.000000e+00 3716
10 TraesCS3B01G055300 chr3B 84.093 2326 286 43 191 2467 14224359 14222069 0.000000e+00 2169
11 TraesCS3B01G055300 chr3B 90.674 193 18 0 1 193 54156403 54156211 1.100000e-64 257
12 TraesCS3B01G055300 chr3B 89.637 193 20 0 1 193 54080693 54080501 2.380000e-61 246
13 TraesCS3B01G055300 chr3D 86.009 2909 296 57 191 3056 9949248 9946408 0.000000e+00 3014
14 TraesCS3B01G055300 chr3D 89.451 910 77 10 2156 3056 9880808 9879909 0.000000e+00 1131
15 TraesCS3B01G055300 chr3D 86.245 269 29 5 2203 2468 5680142 5679879 5.040000e-73 285
16 TraesCS3B01G055300 chr6A 92.697 178 13 0 1 178 518802612 518802789 1.100000e-64 257
17 TraesCS3B01G055300 chr3A 92.697 178 13 0 1 178 742590511 742590334 1.100000e-64 257
18 TraesCS3B01G055300 chr3A 90.155 193 19 0 1 193 730144583 730144391 5.110000e-63 252
19 TraesCS3B01G055300 chr2B 90.674 193 18 0 1 193 72941773 72941581 1.100000e-64 257
20 TraesCS3B01G055300 chr1B 92.697 178 13 0 1 178 127064707 127064884 1.100000e-64 257
21 TraesCS3B01G055300 chr4A 92.135 178 14 0 1 178 45729256 45729433 5.110000e-63 252
22 TraesCS3B01G055300 chr4B 91.573 178 15 0 1 178 668012286 668012463 2.380000e-61 246


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 TraesCS3B01G055300 chr3B 28539507 28542595 3088 True 5705.0 5705 100.0000 1 3089 1 chr3B.!!$R9 3088
1 TraesCS3B01G055300 chr3B 14021497 14024420 2923 True 4311.0 4311 93.4490 193 3089 1 chr3B.!!$R1 2896
2 TraesCS3B01G055300 chr3B 14103752 14113329 9577 True 4139.5 4207 92.9715 193 3089 2 chr3B.!!$R12 2896
3 TraesCS3B01G055300 chr3B 14063872 14066663 2791 True 4113.0 4113 93.2690 193 2989 1 chr3B.!!$R2 2796
4 TraesCS3B01G055300 chr3B 28407515 28410337 2822 True 3855.0 3855 91.3290 250 3089 1 chr3B.!!$R4 2839
5 TraesCS3B01G055300 chr3B 28454026 28456849 2823 True 3840.0 3840 91.2270 250 3089 1 chr3B.!!$R6 2839
6 TraesCS3B01G055300 chr3B 28420679 28423501 2822 True 3838.0 3838 91.2240 250 3089 1 chr3B.!!$R5 2839
7 TraesCS3B01G055300 chr3B 28528102 28530919 2817 True 3762.0 3762 90.7660 250 3089 1 chr3B.!!$R8 2839
8 TraesCS3B01G055300 chr3B 28516695 28519510 2815 True 3716.0 3716 90.4930 250 3089 1 chr3B.!!$R7 2839
9 TraesCS3B01G055300 chr3B 14222069 14224359 2290 True 2169.0 2169 84.0930 191 2467 1 chr3B.!!$R3 2276
10 TraesCS3B01G055300 chr3D 9946408 9949248 2840 True 3014.0 3014 86.0090 191 3056 1 chr3D.!!$R3 2865
11 TraesCS3B01G055300 chr3D 9879909 9880808 899 True 1131.0 1131 89.4510 2156 3056 1 chr3D.!!$R2 900

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
167 168 0.106268 TGTTTGAGGAAAGCAGGCCA 60.106 50.0 5.01 0.00 0.00 5.36 F
175 176 0.529378 GAAAGCAGGCCATGGAGTTG 59.471 55.0 18.40 10.98 0.00 3.16 F
176 177 0.901580 AAAGCAGGCCATGGAGTTGG 60.902 55.0 18.40 0.04 39.94 3.77 F
389 7055 0.961753 CTTTTGGAGGCTTGTGGTCC 59.038 55.0 0.00 0.00 0.00 4.46 F
943 7634 0.994247 TACTCGTCACCCACCTCCTA 59.006 55.0 0.00 0.00 0.00 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1059 7762 0.457851 GCGCCTTCTTAGAGCTCTCA 59.542 55.000 22.17 8.78 0.00 3.27 R
1398 8115 1.228367 CTTGCACTGCCTGAAGGGT 60.228 57.895 0.00 0.00 37.43 4.34 R
1538 8255 1.664649 CACGCTTTCTGGTGCTCGA 60.665 57.895 0.00 0.00 0.00 4.04 R
1908 8628 2.486013 GCTCCTCATATGCATGTCCACA 60.486 50.000 10.16 0.00 33.57 4.17 R
2434 9226 1.632920 AGAAGGCCTCCTTTCTTCCTG 59.367 52.381 5.23 0.00 44.82 3.86 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 3.018973 GTGGCGCACGTCAAGAAA 58.981 55.556 10.83 0.00 0.00 2.52
18 19 1.368850 GTGGCGCACGTCAAGAAAC 60.369 57.895 10.83 0.00 0.00 2.78
19 20 1.522806 TGGCGCACGTCAAGAAACT 60.523 52.632 10.83 0.00 0.00 2.66
20 21 1.092921 TGGCGCACGTCAAGAAACTT 61.093 50.000 10.83 0.00 0.00 2.66
21 22 0.657368 GGCGCACGTCAAGAAACTTG 60.657 55.000 10.83 5.29 0.00 3.16
22 23 0.657368 GCGCACGTCAAGAAACTTGG 60.657 55.000 0.30 0.29 0.00 3.61
23 24 0.657368 CGCACGTCAAGAAACTTGGC 60.657 55.000 10.84 8.53 0.00 4.52
24 25 0.317854 GCACGTCAAGAAACTTGGCC 60.318 55.000 9.89 0.00 0.00 5.36
25 26 0.310854 CACGTCAAGAAACTTGGCCC 59.689 55.000 0.00 0.00 0.00 5.80
26 27 0.182775 ACGTCAAGAAACTTGGCCCT 59.817 50.000 0.00 0.00 0.00 5.19
27 28 0.593128 CGTCAAGAAACTTGGCCCTG 59.407 55.000 0.00 0.00 0.00 4.45
28 29 0.961753 GTCAAGAAACTTGGCCCTGG 59.038 55.000 0.00 0.00 0.00 4.45
29 30 0.850100 TCAAGAAACTTGGCCCTGGA 59.150 50.000 0.00 0.00 0.00 3.86
30 31 1.202927 TCAAGAAACTTGGCCCTGGAG 60.203 52.381 0.00 0.00 0.00 3.86
31 32 0.853530 AAGAAACTTGGCCCTGGAGT 59.146 50.000 0.00 0.00 0.00 3.85
32 33 0.111253 AGAAACTTGGCCCTGGAGTG 59.889 55.000 0.00 0.00 0.00 3.51
33 34 0.110486 GAAACTTGGCCCTGGAGTGA 59.890 55.000 0.00 0.00 0.00 3.41
34 35 0.178990 AAACTTGGCCCTGGAGTGAC 60.179 55.000 0.00 0.00 0.00 3.67
35 36 2.046892 CTTGGCCCTGGAGTGACG 60.047 66.667 0.00 0.00 0.00 4.35
36 37 2.525629 TTGGCCCTGGAGTGACGA 60.526 61.111 0.00 0.00 0.00 4.20
37 38 2.111999 CTTGGCCCTGGAGTGACGAA 62.112 60.000 0.00 0.00 0.00 3.85
38 39 2.111999 TTGGCCCTGGAGTGACGAAG 62.112 60.000 0.00 0.00 0.00 3.79
39 40 2.435059 GCCCTGGAGTGACGAAGC 60.435 66.667 0.00 0.00 0.00 3.86
40 41 2.948720 GCCCTGGAGTGACGAAGCT 61.949 63.158 0.00 0.00 0.00 3.74
41 42 1.216710 CCCTGGAGTGACGAAGCTC 59.783 63.158 0.00 0.00 0.00 4.09
42 43 1.254284 CCCTGGAGTGACGAAGCTCT 61.254 60.000 0.00 0.00 32.67 4.09
43 44 0.172352 CCTGGAGTGACGAAGCTCTC 59.828 60.000 0.00 0.00 32.67 3.20
52 53 3.376347 CGAAGCTCTCGGATCGATC 57.624 57.895 17.36 17.36 44.20 3.69
53 54 0.588737 CGAAGCTCTCGGATCGATCA 59.411 55.000 25.93 6.51 44.20 2.92
54 55 1.002359 CGAAGCTCTCGGATCGATCAA 60.002 52.381 25.93 12.87 44.20 2.57
55 56 2.389998 GAAGCTCTCGGATCGATCAAC 58.610 52.381 25.93 9.47 34.61 3.18
56 57 0.671251 AGCTCTCGGATCGATCAACC 59.329 55.000 25.93 9.55 34.61 3.77
57 58 0.319125 GCTCTCGGATCGATCAACCC 60.319 60.000 25.93 9.18 34.61 4.11
58 59 0.315568 CTCTCGGATCGATCAACCCC 59.684 60.000 25.93 8.80 34.61 4.95
59 60 0.396556 TCTCGGATCGATCAACCCCA 60.397 55.000 25.93 2.62 34.61 4.96
60 61 0.464036 CTCGGATCGATCAACCCCAA 59.536 55.000 25.93 0.00 34.61 4.12
61 62 1.070758 CTCGGATCGATCAACCCCAAT 59.929 52.381 25.93 0.00 34.61 3.16
62 63 1.202639 TCGGATCGATCAACCCCAATG 60.203 52.381 25.93 4.96 0.00 2.82
63 64 1.202639 CGGATCGATCAACCCCAATGA 60.203 52.381 25.93 0.00 0.00 2.57
64 65 2.550855 CGGATCGATCAACCCCAATGAT 60.551 50.000 25.93 0.00 40.14 2.45
65 66 3.077359 GGATCGATCAACCCCAATGATC 58.923 50.000 25.93 6.47 46.23 2.92
70 71 3.545703 GATCAACCCCAATGATCTTCGT 58.454 45.455 8.80 0.00 46.21 3.85
71 72 3.433306 TCAACCCCAATGATCTTCGTT 57.567 42.857 0.00 0.00 0.00 3.85
72 73 3.081061 TCAACCCCAATGATCTTCGTTG 58.919 45.455 0.00 3.06 41.72 4.10
88 89 2.090400 GTTGGTTACGAGGAGGGAAC 57.910 55.000 0.00 0.00 0.00 3.62
103 104 2.109425 GGAACCAAAGGCTATCGTGT 57.891 50.000 0.00 0.00 0.00 4.49
104 105 1.737793 GGAACCAAAGGCTATCGTGTG 59.262 52.381 0.00 0.00 0.00 3.82
105 106 2.423577 GAACCAAAGGCTATCGTGTGT 58.576 47.619 0.00 0.00 0.00 3.72
106 107 1.808411 ACCAAAGGCTATCGTGTGTG 58.192 50.000 0.00 0.00 0.00 3.82
107 108 0.447801 CCAAAGGCTATCGTGTGTGC 59.552 55.000 0.00 0.00 0.00 4.57
108 109 1.155889 CAAAGGCTATCGTGTGTGCA 58.844 50.000 0.00 0.00 0.00 4.57
109 110 1.535028 CAAAGGCTATCGTGTGTGCAA 59.465 47.619 0.00 0.00 0.00 4.08
110 111 2.113860 AAGGCTATCGTGTGTGCAAT 57.886 45.000 0.00 0.00 0.00 3.56
111 112 1.656652 AGGCTATCGTGTGTGCAATC 58.343 50.000 0.00 0.00 0.00 2.67
112 113 0.657840 GGCTATCGTGTGTGCAATCC 59.342 55.000 0.00 0.00 0.00 3.01
113 114 0.301687 GCTATCGTGTGTGCAATCCG 59.698 55.000 0.00 0.00 0.00 4.18
114 115 0.930310 CTATCGTGTGTGCAATCCGG 59.070 55.000 0.00 0.00 0.00 5.14
115 116 1.087202 TATCGTGTGTGCAATCCGGC 61.087 55.000 0.00 0.00 0.00 6.13
116 117 2.803155 ATCGTGTGTGCAATCCGGCT 62.803 55.000 0.00 0.00 34.04 5.52
117 118 1.739929 CGTGTGTGCAATCCGGCTA 60.740 57.895 0.00 0.00 34.04 3.93
118 119 1.794222 GTGTGTGCAATCCGGCTAC 59.206 57.895 0.00 0.00 34.04 3.58
119 120 0.953471 GTGTGTGCAATCCGGCTACA 60.953 55.000 0.00 0.00 34.04 2.74
120 121 0.953471 TGTGTGCAATCCGGCTACAC 60.953 55.000 15.05 15.05 41.67 2.90
121 122 0.953471 GTGTGCAATCCGGCTACACA 60.953 55.000 13.23 13.23 41.32 3.72
122 123 0.250510 TGTGCAATCCGGCTACACAA 60.251 50.000 14.41 2.43 38.24 3.33
123 124 0.878416 GTGCAATCCGGCTACACAAA 59.122 50.000 0.00 0.00 34.04 2.83
124 125 1.268352 GTGCAATCCGGCTACACAAAA 59.732 47.619 0.00 0.00 34.04 2.44
125 126 1.539388 TGCAATCCGGCTACACAAAAG 59.461 47.619 0.00 0.00 34.04 2.27
126 127 1.135402 GCAATCCGGCTACACAAAAGG 60.135 52.381 0.00 0.00 0.00 3.11
127 128 2.159382 CAATCCGGCTACACAAAAGGT 58.841 47.619 0.00 0.00 0.00 3.50
128 129 3.340034 CAATCCGGCTACACAAAAGGTA 58.660 45.455 0.00 0.00 0.00 3.08
129 130 2.460757 TCCGGCTACACAAAAGGTAC 57.539 50.000 0.00 0.00 0.00 3.34
130 131 1.693062 TCCGGCTACACAAAAGGTACA 59.307 47.619 0.00 0.00 0.00 2.90
131 132 2.104451 TCCGGCTACACAAAAGGTACAA 59.896 45.455 0.00 0.00 0.00 2.41
132 133 2.482721 CCGGCTACACAAAAGGTACAAG 59.517 50.000 0.00 0.00 0.00 3.16
133 134 3.135994 CGGCTACACAAAAGGTACAAGT 58.864 45.455 0.00 0.00 0.00 3.16
134 135 3.185797 CGGCTACACAAAAGGTACAAGTC 59.814 47.826 0.00 0.00 0.00 3.01
135 136 4.131596 GGCTACACAAAAGGTACAAGTCA 58.868 43.478 0.00 0.00 0.00 3.41
136 137 4.024302 GGCTACACAAAAGGTACAAGTCAC 60.024 45.833 0.00 0.00 0.00 3.67
137 138 4.573201 GCTACACAAAAGGTACAAGTCACA 59.427 41.667 0.00 0.00 0.00 3.58
138 139 4.957759 ACACAAAAGGTACAAGTCACAC 57.042 40.909 0.00 0.00 0.00 3.82
139 140 3.372822 ACACAAAAGGTACAAGTCACACG 59.627 43.478 0.00 0.00 0.00 4.49
140 141 3.372822 CACAAAAGGTACAAGTCACACGT 59.627 43.478 0.00 0.00 0.00 4.49
141 142 3.372822 ACAAAAGGTACAAGTCACACGTG 59.627 43.478 15.48 15.48 33.76 4.49
142 143 3.530265 AAAGGTACAAGTCACACGTGA 57.470 42.857 25.01 0.00 37.24 4.35
143 144 3.746045 AAGGTACAAGTCACACGTGAT 57.254 42.857 25.01 3.37 42.18 3.06
144 145 3.026630 AGGTACAAGTCACACGTGATG 57.973 47.619 25.01 16.43 42.18 3.07
145 146 2.364324 AGGTACAAGTCACACGTGATGT 59.636 45.455 25.01 18.84 44.81 3.06
146 147 3.128349 GGTACAAGTCACACGTGATGTT 58.872 45.455 25.01 6.96 40.64 2.71
147 148 3.059868 GGTACAAGTCACACGTGATGTTG 60.060 47.826 25.01 19.92 40.64 3.33
148 149 2.627945 ACAAGTCACACGTGATGTTGT 58.372 42.857 25.01 20.53 40.64 3.32
149 150 2.351418 ACAAGTCACACGTGATGTTGTG 59.649 45.455 25.01 14.37 42.70 3.33
151 152 2.627945 AGTCACACGTGATGTTGTGTT 58.372 42.857 25.01 0.00 46.61 3.32
152 153 3.006940 AGTCACACGTGATGTTGTGTTT 58.993 40.909 25.01 0.00 46.61 2.83
153 154 3.097910 GTCACACGTGATGTTGTGTTTG 58.902 45.455 25.01 5.81 46.61 2.93
154 155 3.003480 TCACACGTGATGTTGTGTTTGA 58.997 40.909 25.01 8.35 46.61 2.69
155 156 3.063316 TCACACGTGATGTTGTGTTTGAG 59.937 43.478 25.01 0.00 46.61 3.02
156 157 2.354510 ACACGTGATGTTGTGTTTGAGG 59.645 45.455 25.01 0.00 46.61 3.86
157 158 2.611751 CACGTGATGTTGTGTTTGAGGA 59.388 45.455 10.90 0.00 0.00 3.71
158 159 3.064682 CACGTGATGTTGTGTTTGAGGAA 59.935 43.478 10.90 0.00 0.00 3.36
159 160 3.692101 ACGTGATGTTGTGTTTGAGGAAA 59.308 39.130 0.00 0.00 0.00 3.13
160 161 4.201910 ACGTGATGTTGTGTTTGAGGAAAG 60.202 41.667 0.00 0.00 0.00 2.62
161 162 4.044426 GTGATGTTGTGTTTGAGGAAAGC 58.956 43.478 0.00 0.00 0.00 3.51
162 163 3.698539 TGATGTTGTGTTTGAGGAAAGCA 59.301 39.130 0.00 0.00 0.00 3.91
163 164 3.781079 TGTTGTGTTTGAGGAAAGCAG 57.219 42.857 0.00 0.00 28.55 4.24
164 165 2.426738 TGTTGTGTTTGAGGAAAGCAGG 59.573 45.455 0.00 0.00 28.55 4.85
165 166 1.032014 TGTGTTTGAGGAAAGCAGGC 58.968 50.000 0.00 0.00 28.55 4.85
166 167 0.315251 GTGTTTGAGGAAAGCAGGCC 59.685 55.000 0.00 0.00 28.55 5.19
167 168 0.106268 TGTTTGAGGAAAGCAGGCCA 60.106 50.000 5.01 0.00 0.00 5.36
168 169 1.260544 GTTTGAGGAAAGCAGGCCAT 58.739 50.000 5.01 0.00 0.00 4.40
169 170 1.067354 GTTTGAGGAAAGCAGGCCATG 60.067 52.381 5.01 0.97 0.00 3.66
170 171 0.612732 TTGAGGAAAGCAGGCCATGG 60.613 55.000 7.63 7.63 0.00 3.66
171 172 1.304282 GAGGAAAGCAGGCCATGGA 59.696 57.895 18.40 0.00 0.00 3.41
172 173 0.750911 GAGGAAAGCAGGCCATGGAG 60.751 60.000 18.40 5.33 0.00 3.86
173 174 1.000396 GGAAAGCAGGCCATGGAGT 60.000 57.895 18.40 0.00 0.00 3.85
174 175 0.613012 GGAAAGCAGGCCATGGAGTT 60.613 55.000 18.40 0.00 0.00 3.01
175 176 0.529378 GAAAGCAGGCCATGGAGTTG 59.471 55.000 18.40 10.98 0.00 3.16
176 177 0.901580 AAAGCAGGCCATGGAGTTGG 60.902 55.000 18.40 0.04 39.94 3.77
177 178 1.792757 AAGCAGGCCATGGAGTTGGA 61.793 55.000 18.40 0.00 39.25 3.53
178 179 1.751927 GCAGGCCATGGAGTTGGAG 60.752 63.158 18.40 0.00 39.25 3.86
179 180 1.751927 CAGGCCATGGAGTTGGAGC 60.752 63.158 18.40 0.00 39.25 4.70
180 181 2.233566 AGGCCATGGAGTTGGAGCA 61.234 57.895 18.40 0.00 39.25 4.26
181 182 2.048603 GGCCATGGAGTTGGAGCAC 61.049 63.158 18.40 0.00 39.25 4.40
182 183 2.048603 GCCATGGAGTTGGAGCACC 61.049 63.158 18.40 0.00 39.25 5.01
183 184 1.379044 CCATGGAGTTGGAGCACCC 60.379 63.158 5.56 0.00 39.25 4.61
184 185 1.379916 CATGGAGTTGGAGCACCCA 59.620 57.895 0.00 0.00 44.93 4.51
233 234 2.094675 GGACTAGGTAGTTGCGTGGTA 58.905 52.381 0.00 0.00 36.50 3.25
236 237 3.094572 ACTAGGTAGTTGCGTGGTATGT 58.905 45.455 0.00 0.00 31.13 2.29
289 290 1.667724 CATCTGCCGAATCAAGTGGTC 59.332 52.381 0.00 0.00 0.00 4.02
299 300 4.093998 CGAATCAAGTGGTCATTTCTCCTG 59.906 45.833 0.00 0.00 0.00 3.86
307 308 3.245016 TGGTCATTTCTCCTGCTTCATGT 60.245 43.478 0.00 0.00 0.00 3.21
389 7055 0.961753 CTTTTGGAGGCTTGTGGTCC 59.038 55.000 0.00 0.00 0.00 4.46
439 7105 1.934849 GCACATCAGCGATGGCGTATA 60.935 52.381 18.34 0.00 43.60 1.47
569 7236 7.023575 GTGCTTACACATGTATCCTTTTCTTG 58.976 38.462 0.00 0.00 46.61 3.02
625 7311 2.932614 CTGGCGATGGAGTCAAAAGTAG 59.067 50.000 0.00 0.00 0.00 2.57
632 7318 1.275573 GGAGTCAAAAGTAGTCCGCCT 59.724 52.381 0.00 0.00 0.00 5.52
728 7416 9.187996 TCTAAAAATAACATGGATCTGCAATGA 57.812 29.630 2.39 0.00 0.00 2.57
729 7417 9.241317 CTAAAAATAACATGGATCTGCAATGAC 57.759 33.333 2.39 0.00 0.00 3.06
870 7560 3.228188 TGGAAAGCACAATGAGGAAGT 57.772 42.857 0.00 0.00 0.00 3.01
892 7582 6.817184 AGTATTTATAGTGTACTGTGGCTGG 58.183 40.000 0.00 0.00 0.00 4.85
929 7619 3.727726 TCTCAGATCTCTGCTCTACTCG 58.272 50.000 2.21 0.00 43.46 4.18
943 7634 0.994247 TACTCGTCACCCACCTCCTA 59.006 55.000 0.00 0.00 0.00 2.94
1287 7991 3.338249 CTTCTTTCTTCCTCGATTGGCA 58.662 45.455 0.00 0.00 0.00 4.92
1325 8041 6.093082 CGATTCTTTCGTGTTAATTTAGGGGT 59.907 38.462 0.00 0.00 43.01 4.95
1326 8042 7.361457 CGATTCTTTCGTGTTAATTTAGGGGTT 60.361 37.037 0.00 0.00 43.01 4.11
1457 8174 3.322466 CTTCGACCCCTGCCCTGT 61.322 66.667 0.00 0.00 0.00 4.00
1467 8184 3.640257 CTGCCCTGTGCTGGATGCT 62.640 63.158 0.00 0.00 43.37 3.79
1500 8217 1.616921 CAGGATCAGGTGCCCCAAT 59.383 57.895 0.00 0.00 0.00 3.16
1519 8236 3.706373 CCGGCTGCCAGTGGTACT 61.706 66.667 20.29 0.00 0.00 2.73
1763 8483 2.203252 CCTCATGACCATGGGCGG 60.203 66.667 18.09 9.96 37.97 6.13
1908 8628 0.610232 GCAAGGAGGACATGGTGCTT 60.610 55.000 0.00 0.00 33.56 3.91
1979 8699 2.579201 CGAGCCCACGTTCCTGAT 59.421 61.111 0.00 0.00 0.00 2.90
2065 8797 0.600557 CCGCATCGATAAGCTCTCCT 59.399 55.000 0.00 0.00 0.00 3.69
2073 8805 2.690497 CGATAAGCTCTCCTCTTGGTCA 59.310 50.000 0.00 0.00 34.23 4.02
2077 8809 1.203112 AGCTCTCCTCTTGGTCAGACA 60.203 52.381 2.17 0.00 34.23 3.41
2119 8856 2.036217 CTGCTGCTGATGGGAAACAAAA 59.964 45.455 0.00 0.00 0.00 2.44
2138 8875 4.612264 AAAGATGCATTCAAGGCAGTTT 57.388 36.364 1.98 2.09 45.68 2.66
2194 8937 9.920946 ATTTGGGTGATGTTAATTAGTAGATGT 57.079 29.630 0.00 0.00 0.00 3.06
2237 9005 4.039488 TGTTGGGTACTGTATTCAAGTCGT 59.961 41.667 0.00 0.00 0.00 4.34
2285 9053 6.208007 TCATGTTGTGAAATGCATCTTCTTCT 59.792 34.615 16.99 0.00 32.78 2.85
2434 9226 3.118884 TGCGGGTTTACTGGAGAATAGTC 60.119 47.826 0.00 0.00 0.00 2.59
2474 9266 6.461509 CCTTCTGTTAAACAAATCTGCCAAGT 60.462 38.462 0.00 0.00 0.00 3.16
2516 9312 6.173427 TGATGCAGCATAGAGTATAACCAA 57.827 37.500 8.22 0.00 0.00 3.67
2537 9333 4.184079 AGCAACAATTCTTGATGAAGCC 57.816 40.909 0.00 0.00 38.18 4.35
2575 9371 7.828508 TCCTAAGGAATGAATCAAATCCATG 57.171 36.000 17.17 8.73 34.30 3.66
2800 9604 9.906660 ATTAAAATAAAACAAGTCATCGAGCAA 57.093 25.926 0.00 0.00 0.00 3.91
2844 9649 2.550699 AATGGAATGGCGGCCGAGAA 62.551 55.000 33.48 14.02 0.00 2.87
2906 9711 1.962807 TGCATTTGGACAACTCCCAAG 59.037 47.619 0.00 0.00 43.72 3.61
3046 9859 6.554334 ACGCATGTCAGTGTATTTAAAACT 57.446 33.333 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.368850 GTTTCTTGACGTGCGCCAC 60.369 57.895 4.18 1.96 0.00 5.01
1 2 1.092921 AAGTTTCTTGACGTGCGCCA 61.093 50.000 4.18 0.00 0.00 5.69
2 3 0.657368 CAAGTTTCTTGACGTGCGCC 60.657 55.000 4.18 0.00 0.00 6.53
3 4 0.657368 CCAAGTTTCTTGACGTGCGC 60.657 55.000 0.00 0.00 0.00 6.09
4 5 0.657368 GCCAAGTTTCTTGACGTGCG 60.657 55.000 10.54 0.00 0.00 5.34
5 6 0.317854 GGCCAAGTTTCTTGACGTGC 60.318 55.000 10.54 5.72 0.00 5.34
6 7 0.310854 GGGCCAAGTTTCTTGACGTG 59.689 55.000 4.39 0.00 0.00 4.49
7 8 0.182775 AGGGCCAAGTTTCTTGACGT 59.817 50.000 6.18 0.00 0.00 4.34
8 9 0.593128 CAGGGCCAAGTTTCTTGACG 59.407 55.000 6.18 0.00 0.00 4.35
9 10 0.961753 CCAGGGCCAAGTTTCTTGAC 59.038 55.000 6.18 0.00 0.00 3.18
10 11 0.850100 TCCAGGGCCAAGTTTCTTGA 59.150 50.000 6.18 0.00 0.00 3.02
11 12 1.251251 CTCCAGGGCCAAGTTTCTTG 58.749 55.000 6.18 2.90 0.00 3.02
12 13 0.853530 ACTCCAGGGCCAAGTTTCTT 59.146 50.000 6.18 0.00 0.00 2.52
13 14 0.111253 CACTCCAGGGCCAAGTTTCT 59.889 55.000 6.18 0.00 0.00 2.52
14 15 0.110486 TCACTCCAGGGCCAAGTTTC 59.890 55.000 6.18 0.00 0.00 2.78
15 16 0.178990 GTCACTCCAGGGCCAAGTTT 60.179 55.000 6.18 0.00 0.00 2.66
16 17 1.456287 GTCACTCCAGGGCCAAGTT 59.544 57.895 6.18 0.00 0.00 2.66
17 18 2.883828 CGTCACTCCAGGGCCAAGT 61.884 63.158 6.18 2.99 0.00 3.16
18 19 2.046892 CGTCACTCCAGGGCCAAG 60.047 66.667 6.18 2.24 0.00 3.61
19 20 2.111999 CTTCGTCACTCCAGGGCCAA 62.112 60.000 6.18 0.00 0.00 4.52
20 21 2.525629 TTCGTCACTCCAGGGCCA 60.526 61.111 6.18 0.00 0.00 5.36
21 22 2.266055 CTTCGTCACTCCAGGGCC 59.734 66.667 0.00 0.00 0.00 5.80
22 23 2.435059 GCTTCGTCACTCCAGGGC 60.435 66.667 0.00 0.00 0.00 5.19
23 24 1.216710 GAGCTTCGTCACTCCAGGG 59.783 63.158 0.00 0.00 0.00 4.45
24 25 0.172352 GAGAGCTTCGTCACTCCAGG 59.828 60.000 0.00 0.00 33.18 4.45
25 26 0.179176 CGAGAGCTTCGTCACTCCAG 60.179 60.000 9.30 0.00 44.27 3.86
26 27 1.876664 CGAGAGCTTCGTCACTCCA 59.123 57.895 9.30 0.00 44.27 3.86
27 28 4.775746 CGAGAGCTTCGTCACTCC 57.224 61.111 9.30 0.00 44.27 3.85
35 36 2.389998 GTTGATCGATCCGAGAGCTTC 58.610 52.381 22.31 0.00 39.91 3.86
36 37 1.067821 GGTTGATCGATCCGAGAGCTT 59.932 52.381 22.31 0.00 39.91 3.74
37 38 0.671251 GGTTGATCGATCCGAGAGCT 59.329 55.000 22.31 0.00 39.91 4.09
38 39 0.319125 GGGTTGATCGATCCGAGAGC 60.319 60.000 22.31 14.02 39.91 4.09
39 40 0.315568 GGGGTTGATCGATCCGAGAG 59.684 60.000 22.31 0.00 39.91 3.20
40 41 0.396556 TGGGGTTGATCGATCCGAGA 60.397 55.000 22.31 0.65 39.91 4.04
41 42 0.464036 TTGGGGTTGATCGATCCGAG 59.536 55.000 22.31 0.00 39.91 4.63
42 43 1.128200 ATTGGGGTTGATCGATCCGA 58.872 50.000 22.31 7.67 41.13 4.55
43 44 1.202639 TCATTGGGGTTGATCGATCCG 60.203 52.381 22.31 0.00 0.00 4.18
44 45 2.638480 TCATTGGGGTTGATCGATCC 57.362 50.000 22.31 3.25 0.00 3.36
49 50 3.545703 ACGAAGATCATTGGGGTTGATC 58.454 45.455 5.70 5.70 46.42 2.92
50 51 3.652057 ACGAAGATCATTGGGGTTGAT 57.348 42.857 0.00 0.00 36.54 2.57
51 52 3.081061 CAACGAAGATCATTGGGGTTGA 58.919 45.455 0.00 0.00 36.34 3.18
52 53 2.164219 CCAACGAAGATCATTGGGGTTG 59.836 50.000 9.18 7.32 39.42 3.77
53 54 2.225017 ACCAACGAAGATCATTGGGGTT 60.225 45.455 17.34 2.30 46.03 4.11
54 55 1.354368 ACCAACGAAGATCATTGGGGT 59.646 47.619 17.34 9.43 46.03 4.95
55 56 2.128771 ACCAACGAAGATCATTGGGG 57.871 50.000 17.34 8.93 46.03 4.96
56 57 4.616181 GTAACCAACGAAGATCATTGGG 57.384 45.455 17.34 5.24 46.03 4.12
69 70 1.338484 GGTTCCCTCCTCGTAACCAAC 60.338 57.143 0.00 0.00 40.89 3.77
70 71 0.978907 GGTTCCCTCCTCGTAACCAA 59.021 55.000 0.00 0.00 40.89 3.67
71 72 0.178926 TGGTTCCCTCCTCGTAACCA 60.179 55.000 1.77 1.77 46.88 3.67
72 73 0.978907 TTGGTTCCCTCCTCGTAACC 59.021 55.000 0.00 0.00 41.45 2.85
73 74 2.614734 CCTTTGGTTCCCTCCTCGTAAC 60.615 54.545 0.00 0.00 0.00 2.50
74 75 1.626825 CCTTTGGTTCCCTCCTCGTAA 59.373 52.381 0.00 0.00 0.00 3.18
75 76 1.272807 CCTTTGGTTCCCTCCTCGTA 58.727 55.000 0.00 0.00 0.00 3.43
76 77 2.067197 CCTTTGGTTCCCTCCTCGT 58.933 57.895 0.00 0.00 0.00 4.18
77 78 1.377333 GCCTTTGGTTCCCTCCTCG 60.377 63.158 0.00 0.00 0.00 4.63
78 79 1.286248 TAGCCTTTGGTTCCCTCCTC 58.714 55.000 0.00 0.00 0.00 3.71
79 80 1.847088 GATAGCCTTTGGTTCCCTCCT 59.153 52.381 0.00 0.00 0.00 3.69
80 81 1.475213 CGATAGCCTTTGGTTCCCTCC 60.475 57.143 0.00 0.00 0.00 4.30
81 82 1.209747 ACGATAGCCTTTGGTTCCCTC 59.790 52.381 0.00 0.00 42.67 4.30
82 83 1.065418 CACGATAGCCTTTGGTTCCCT 60.065 52.381 0.00 0.00 42.67 4.20
83 84 1.339727 ACACGATAGCCTTTGGTTCCC 60.340 52.381 0.00 0.00 42.67 3.97
84 85 1.737793 CACACGATAGCCTTTGGTTCC 59.262 52.381 0.00 0.00 42.67 3.62
85 86 2.159627 CACACACGATAGCCTTTGGTTC 59.840 50.000 0.00 0.00 42.67 3.62
86 87 2.151202 CACACACGATAGCCTTTGGTT 58.849 47.619 0.00 0.00 42.67 3.67
87 88 1.808411 CACACACGATAGCCTTTGGT 58.192 50.000 0.00 0.00 42.67 3.67
88 89 0.447801 GCACACACGATAGCCTTTGG 59.552 55.000 0.00 0.00 42.67 3.28
89 90 1.155889 TGCACACACGATAGCCTTTG 58.844 50.000 0.00 0.00 42.67 2.77
90 91 1.890876 TTGCACACACGATAGCCTTT 58.109 45.000 0.00 0.00 42.67 3.11
91 92 2.009774 GATTGCACACACGATAGCCTT 58.990 47.619 0.00 0.00 42.67 4.35
92 93 1.656652 GATTGCACACACGATAGCCT 58.343 50.000 0.00 0.00 42.67 4.58
93 94 0.657840 GGATTGCACACACGATAGCC 59.342 55.000 0.00 0.00 42.67 3.93
94 95 0.301687 CGGATTGCACACACGATAGC 59.698 55.000 0.00 0.00 42.67 2.97
95 96 0.930310 CCGGATTGCACACACGATAG 59.070 55.000 0.00 0.00 46.19 2.08
96 97 1.087202 GCCGGATTGCACACACGATA 61.087 55.000 5.05 0.00 0.00 2.92
97 98 2.398554 GCCGGATTGCACACACGAT 61.399 57.895 5.05 0.00 0.00 3.73
98 99 2.161078 TAGCCGGATTGCACACACGA 62.161 55.000 5.05 0.00 0.00 4.35
99 100 1.739929 TAGCCGGATTGCACACACG 60.740 57.895 5.05 0.00 0.00 4.49
100 101 0.953471 TGTAGCCGGATTGCACACAC 60.953 55.000 5.05 0.00 0.00 3.82
101 102 0.953471 GTGTAGCCGGATTGCACACA 60.953 55.000 17.19 3.79 40.15 3.72
102 103 0.953471 TGTGTAGCCGGATTGCACAC 60.953 55.000 20.76 18.37 40.48 3.82
103 104 0.250510 TTGTGTAGCCGGATTGCACA 60.251 50.000 20.76 20.76 38.98 4.57
104 105 0.878416 TTTGTGTAGCCGGATTGCAC 59.122 50.000 16.82 16.82 0.00 4.57
105 106 1.539388 CTTTTGTGTAGCCGGATTGCA 59.461 47.619 5.05 0.00 0.00 4.08
106 107 1.135402 CCTTTTGTGTAGCCGGATTGC 60.135 52.381 5.05 0.00 0.00 3.56
107 108 2.159382 ACCTTTTGTGTAGCCGGATTG 58.841 47.619 5.05 0.00 0.00 2.67
108 109 2.579410 ACCTTTTGTGTAGCCGGATT 57.421 45.000 5.05 0.00 0.00 3.01
109 110 2.303600 TGTACCTTTTGTGTAGCCGGAT 59.696 45.455 5.05 0.00 0.00 4.18
110 111 1.693062 TGTACCTTTTGTGTAGCCGGA 59.307 47.619 5.05 0.00 0.00 5.14
111 112 2.172851 TGTACCTTTTGTGTAGCCGG 57.827 50.000 0.00 0.00 0.00 6.13
112 113 3.135994 ACTTGTACCTTTTGTGTAGCCG 58.864 45.455 0.00 0.00 0.00 5.52
113 114 4.024302 GTGACTTGTACCTTTTGTGTAGCC 60.024 45.833 0.00 0.00 0.00 3.93
114 115 4.573201 TGTGACTTGTACCTTTTGTGTAGC 59.427 41.667 0.00 0.00 0.00 3.58
115 116 5.276678 CGTGTGACTTGTACCTTTTGTGTAG 60.277 44.000 0.00 0.00 0.00 2.74
116 117 4.567558 CGTGTGACTTGTACCTTTTGTGTA 59.432 41.667 0.00 0.00 0.00 2.90
117 118 3.372822 CGTGTGACTTGTACCTTTTGTGT 59.627 43.478 0.00 0.00 0.00 3.72
118 119 3.372822 ACGTGTGACTTGTACCTTTTGTG 59.627 43.478 0.00 0.00 0.00 3.33
119 120 3.372822 CACGTGTGACTTGTACCTTTTGT 59.627 43.478 7.58 0.00 0.00 2.83
120 121 3.619483 TCACGTGTGACTTGTACCTTTTG 59.381 43.478 16.51 0.00 34.14 2.44
121 122 3.864243 TCACGTGTGACTTGTACCTTTT 58.136 40.909 16.51 0.00 34.14 2.27
122 123 3.530265 TCACGTGTGACTTGTACCTTT 57.470 42.857 16.51 0.00 34.14 3.11
123 124 3.181469 ACATCACGTGTGACTTGTACCTT 60.181 43.478 16.51 0.00 43.11 3.50
124 125 2.364324 ACATCACGTGTGACTTGTACCT 59.636 45.455 16.51 0.00 43.11 3.08
125 126 2.750948 ACATCACGTGTGACTTGTACC 58.249 47.619 16.51 0.00 43.11 3.34
126 127 3.554324 ACAACATCACGTGTGACTTGTAC 59.446 43.478 16.51 0.00 43.11 2.90
127 128 3.553917 CACAACATCACGTGTGACTTGTA 59.446 43.478 16.51 0.00 43.11 2.41
128 129 2.351418 CACAACATCACGTGTGACTTGT 59.649 45.455 16.51 15.52 43.11 3.16
129 130 2.351418 ACACAACATCACGTGTGACTTG 59.649 45.455 16.51 14.98 44.45 3.16
130 131 2.627945 ACACAACATCACGTGTGACTT 58.372 42.857 16.51 2.33 44.45 3.01
131 132 2.309528 ACACAACATCACGTGTGACT 57.690 45.000 16.51 4.01 44.45 3.41
132 133 3.097910 CAAACACAACATCACGTGTGAC 58.902 45.455 16.51 0.00 45.37 3.67
133 134 3.003480 TCAAACACAACATCACGTGTGA 58.997 40.909 16.51 4.99 45.37 3.58
134 135 3.353524 CTCAAACACAACATCACGTGTG 58.646 45.455 16.51 15.05 45.37 3.82
136 137 2.611751 TCCTCAAACACAACATCACGTG 59.388 45.455 9.94 9.94 39.10 4.49
137 138 2.912771 TCCTCAAACACAACATCACGT 58.087 42.857 0.00 0.00 0.00 4.49
138 139 3.961477 TTCCTCAAACACAACATCACG 57.039 42.857 0.00 0.00 0.00 4.35
139 140 4.044426 GCTTTCCTCAAACACAACATCAC 58.956 43.478 0.00 0.00 0.00 3.06
140 141 3.698539 TGCTTTCCTCAAACACAACATCA 59.301 39.130 0.00 0.00 0.00 3.07
141 142 4.293415 CTGCTTTCCTCAAACACAACATC 58.707 43.478 0.00 0.00 0.00 3.06
142 143 3.068590 CCTGCTTTCCTCAAACACAACAT 59.931 43.478 0.00 0.00 0.00 2.71
143 144 2.426738 CCTGCTTTCCTCAAACACAACA 59.573 45.455 0.00 0.00 0.00 3.33
144 145 2.799562 GCCTGCTTTCCTCAAACACAAC 60.800 50.000 0.00 0.00 0.00 3.32
145 146 1.408702 GCCTGCTTTCCTCAAACACAA 59.591 47.619 0.00 0.00 0.00 3.33
146 147 1.032014 GCCTGCTTTCCTCAAACACA 58.968 50.000 0.00 0.00 0.00 3.72
147 148 0.315251 GGCCTGCTTTCCTCAAACAC 59.685 55.000 0.00 0.00 0.00 3.32
148 149 0.106268 TGGCCTGCTTTCCTCAAACA 60.106 50.000 3.32 0.00 0.00 2.83
149 150 1.067354 CATGGCCTGCTTTCCTCAAAC 60.067 52.381 3.32 0.00 0.00 2.93
150 151 1.259609 CATGGCCTGCTTTCCTCAAA 58.740 50.000 3.32 0.00 0.00 2.69
151 152 0.612732 CCATGGCCTGCTTTCCTCAA 60.613 55.000 3.32 0.00 0.00 3.02
152 153 1.000521 CCATGGCCTGCTTTCCTCA 60.001 57.895 3.32 0.00 0.00 3.86
153 154 0.750911 CTCCATGGCCTGCTTTCCTC 60.751 60.000 6.96 0.00 0.00 3.71
154 155 1.305623 CTCCATGGCCTGCTTTCCT 59.694 57.895 6.96 0.00 0.00 3.36
155 156 0.613012 AACTCCATGGCCTGCTTTCC 60.613 55.000 6.96 0.00 0.00 3.13
156 157 0.529378 CAACTCCATGGCCTGCTTTC 59.471 55.000 6.96 0.00 0.00 2.62
157 158 0.901580 CCAACTCCATGGCCTGCTTT 60.902 55.000 6.96 0.00 32.78 3.51
158 159 1.304713 CCAACTCCATGGCCTGCTT 60.305 57.895 6.96 0.00 32.78 3.91
159 160 2.207501 CTCCAACTCCATGGCCTGCT 62.208 60.000 6.96 0.00 40.46 4.24
160 161 1.751927 CTCCAACTCCATGGCCTGC 60.752 63.158 6.96 0.00 40.46 4.85
161 162 1.751927 GCTCCAACTCCATGGCCTG 60.752 63.158 6.96 3.67 40.46 4.85
162 163 2.233566 TGCTCCAACTCCATGGCCT 61.234 57.895 6.96 0.00 40.46 5.19
163 164 2.048603 GTGCTCCAACTCCATGGCC 61.049 63.158 6.96 0.00 40.46 5.36
164 165 2.048603 GGTGCTCCAACTCCATGGC 61.049 63.158 6.96 0.00 40.46 4.40
165 166 1.379044 GGGTGCTCCAACTCCATGG 60.379 63.158 4.97 4.97 42.12 3.66
166 167 1.379916 TGGGTGCTCCAACTCCATG 59.620 57.895 7.20 0.00 43.84 3.66
167 168 3.920817 TGGGTGCTCCAACTCCAT 58.079 55.556 7.20 0.00 43.84 3.41
187 188 3.643978 CTAAGCAGGCATCCGCGC 61.644 66.667 0.00 0.00 39.92 6.86
188 189 1.493950 CTTCTAAGCAGGCATCCGCG 61.494 60.000 0.00 0.00 39.92 6.46
189 190 0.462759 ACTTCTAAGCAGGCATCCGC 60.463 55.000 0.00 0.00 37.44 5.54
222 223 2.248280 TGTCAACATACCACGCAACT 57.752 45.000 0.00 0.00 0.00 3.16
233 234 5.670792 ATGAGCAATCCATTTGTCAACAT 57.329 34.783 0.00 0.00 37.65 2.71
236 237 4.247258 GCAATGAGCAATCCATTTGTCAA 58.753 39.130 0.00 0.00 44.79 3.18
285 286 3.245016 ACATGAAGCAGGAGAAATGACCA 60.245 43.478 0.00 0.00 0.00 4.02
307 308 6.332630 GCCAAAAATCTTGATTAGCTGCTTA 58.667 36.000 7.79 0.00 0.00 3.09
389 7055 3.485378 CACCAGCAAATAACAACAACGTG 59.515 43.478 0.00 0.00 0.00 4.49
625 7311 3.002348 GCTTAATTGATACACAGGCGGAC 59.998 47.826 0.00 0.00 0.00 4.79
728 7416 3.219281 AGTGTGCGATAAAAAGGTTGGT 58.781 40.909 0.00 0.00 0.00 3.67
729 7417 3.915437 AGTGTGCGATAAAAAGGTTGG 57.085 42.857 0.00 0.00 0.00 3.77
800 7488 6.534475 AGCCATGCTCTTAATCAATTTCAA 57.466 33.333 0.00 0.00 30.62 2.69
870 7560 5.365605 AGCCAGCCACAGTACACTATAAATA 59.634 40.000 0.00 0.00 0.00 1.40
883 7573 2.042831 GTTGCCTAGCCAGCCACAG 61.043 63.158 0.00 0.00 0.00 3.66
892 7582 2.999355 CTGAGAACAGAAGTTGCCTAGC 59.001 50.000 0.00 0.00 46.03 3.42
904 7594 4.883585 AGTAGAGCAGAGATCTGAGAACAG 59.116 45.833 13.98 0.00 46.59 3.16
1059 7762 0.457851 GCGCCTTCTTAGAGCTCTCA 59.542 55.000 22.17 8.78 0.00 3.27
1143 7846 3.961838 GATGTACGCCGCCCCAACA 62.962 63.158 0.00 0.00 0.00 3.33
1287 7991 4.872664 GAAAGAATCGATCTATCACCGGT 58.127 43.478 0.00 0.00 37.42 5.28
1313 8029 8.276477 ACAAATCGGAGATAACCCCTAAATTAA 58.724 33.333 0.00 0.00 45.12 1.40
1321 8037 2.943033 CACACAAATCGGAGATAACCCC 59.057 50.000 0.00 0.00 45.12 4.95
1325 8041 3.126858 GCAAGCACACAAATCGGAGATAA 59.873 43.478 0.00 0.00 45.12 1.75
1326 8042 2.677836 GCAAGCACACAAATCGGAGATA 59.322 45.455 0.00 0.00 45.12 1.98
1398 8115 1.228367 CTTGCACTGCCTGAAGGGT 60.228 57.895 0.00 0.00 37.43 4.34
1538 8255 1.664649 CACGCTTTCTGGTGCTCGA 60.665 57.895 0.00 0.00 0.00 4.04
1908 8628 2.486013 GCTCCTCATATGCATGTCCACA 60.486 50.000 10.16 0.00 33.57 4.17
2065 8797 2.849942 CACCAATGTGTCTGACCAAGA 58.150 47.619 5.17 0.00 37.72 3.02
2077 8809 2.939640 GCGGACCTAATCACACCAATGT 60.940 50.000 0.00 0.00 40.80 2.71
2119 8856 2.895404 ACAAACTGCCTTGAATGCATCT 59.105 40.909 0.00 0.00 38.22 2.90
2138 8875 3.552684 GCTGCAACTCCAAAATAAGCACA 60.553 43.478 0.00 0.00 0.00 4.57
2194 8937 8.739039 CCCAACAATGACATTAAAGATGAACTA 58.261 33.333 0.00 0.00 0.00 2.24
2285 9053 7.459795 TGCAAGTTGGAATGACATAACAATA 57.540 32.000 4.75 0.00 0.00 1.90
2336 9104 9.627123 GCTCTACTCCTGACTTGAGATATATAT 57.373 37.037 0.00 0.00 33.95 0.86
2434 9226 1.632920 AGAAGGCCTCCTTTCTTCCTG 59.367 52.381 5.23 0.00 44.82 3.86
2474 9266 5.513094 GCATCAACATTGGCTAGGTATCCTA 60.513 44.000 0.00 0.00 34.61 2.94
2537 9333 6.597832 TTCCTTAGGAAGACTTTGAGAGAG 57.402 41.667 10.01 0.00 36.71 3.20
2844 9649 3.312736 CCAATGGGTTGCTAGGGTAAT 57.687 47.619 0.00 0.00 33.90 1.89
2906 9711 7.897575 AATGTCAGTGAGTCAGATCTAAAAC 57.102 36.000 0.00 0.00 0.00 2.43
2944 9750 8.680261 GCGTAGTCTTCTACTATCAATAAAACG 58.320 37.037 4.33 0.00 42.63 3.60
3005 9818 2.852901 GCGTCGTGCACAAAATCAAGAA 60.853 45.455 18.64 0.00 45.45 2.52
3057 9870 4.243270 GTCCATCTGTTGTAGTTACGCTT 58.757 43.478 0.00 0.00 0.00 4.68


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

AutoCloner maintained by Alex Coulton.