Multiple sequence alignment - TraesCS7B01G120400

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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 TraesCS7B01G120400 chr7B 100.000 2445 0 0 1 2445 140148713 140146269 0.000000e+00 4516
1 TraesCS7B01G120400 chr7B 97.226 2235 52 9 217 2445 129205160 129202930 0.000000e+00 3775
2 TraesCS7B01G120400 chr7B 98.361 61 1 0 31 91 140148625 140148565 9.240000e-20 108
3 TraesCS7B01G120400 chr7B 98.361 61 1 0 89 149 140148683 140148623 9.240000e-20 108
4 TraesCS7B01G120400 chr6B 97.435 2222 49 6 229 2445 681827849 681825631 0.000000e+00 3781
5 TraesCS7B01G120400 chr6B 97.390 2222 49 8 229 2445 16629598 16631815 0.000000e+00 3773
6 TraesCS7B01G120400 chr6B 97.217 2228 50 8 227 2445 664475271 664473047 0.000000e+00 3760
7 TraesCS7B01G120400 chr6B 97.210 2222 53 8 229 2445 16684776 16686993 0.000000e+00 3751
8 TraesCS7B01G120400 chr6B 97.165 2222 53 9 229 2445 26102055 26099839 0.000000e+00 3746
9 TraesCS7B01G120400 chr4A 97.255 2222 53 6 229 2445 666773009 666770791 0.000000e+00 3759
10 TraesCS7B01G120400 chr3B 97.167 2224 51 9 229 2445 77659092 77656874 0.000000e+00 3747
11 TraesCS7B01G120400 chr2B 97.166 2223 54 7 229 2445 161970899 161968680 0.000000e+00 3747


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 TraesCS7B01G120400 chr7B 140146269 140148713 2444 True 1577.333333 4516 98.907333 1 2445 3 chr7B.!!$R2 2444
1 TraesCS7B01G120400 chr7B 129202930 129205160 2230 True 3775.000000 3775 97.226000 217 2445 1 chr7B.!!$R1 2228
2 TraesCS7B01G120400 chr6B 681825631 681827849 2218 True 3781.000000 3781 97.435000 229 2445 1 chr6B.!!$R3 2216
3 TraesCS7B01G120400 chr6B 16629598 16631815 2217 False 3773.000000 3773 97.390000 229 2445 1 chr6B.!!$F1 2216
4 TraesCS7B01G120400 chr6B 664473047 664475271 2224 True 3760.000000 3760 97.217000 227 2445 1 chr6B.!!$R2 2218
5 TraesCS7B01G120400 chr6B 16684776 16686993 2217 False 3751.000000 3751 97.210000 229 2445 1 chr6B.!!$F2 2216
6 TraesCS7B01G120400 chr6B 26099839 26102055 2216 True 3746.000000 3746 97.165000 229 2445 1 chr6B.!!$R1 2216
7 TraesCS7B01G120400 chr4A 666770791 666773009 2218 True 3759.000000 3759 97.255000 229 2445 1 chr4A.!!$R1 2216
8 TraesCS7B01G120400 chr3B 77656874 77659092 2218 True 3747.000000 3747 97.167000 229 2445 1 chr3B.!!$R1 2216
9 TraesCS7B01G120400 chr2B 161968680 161970899 2219 True 3747.000000 3747 97.166000 229 2445 1 chr2B.!!$R1 2216

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
357 358 0.038343 TTAGTACCGGTTCGTGGCAC 60.038 55.0 15.04 7.79 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2069 2079 0.10576 AATTCCAGTGTGGTGCCCAA 60.106 50.0 0.0 0.0 39.03 4.12 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
19 20 2.405892 CCGGTGCTTGTTTTGAGAAG 57.594 50.000 0.00 0.00 0.00 2.85
20 21 1.600413 CCGGTGCTTGTTTTGAGAAGC 60.600 52.381 0.00 0.00 44.10 3.86
21 22 1.334869 CGGTGCTTGTTTTGAGAAGCT 59.665 47.619 9.26 0.00 44.15 3.74
22 23 2.223572 CGGTGCTTGTTTTGAGAAGCTT 60.224 45.455 0.00 0.00 44.15 3.74
23 24 3.003275 CGGTGCTTGTTTTGAGAAGCTTA 59.997 43.478 0.00 0.00 44.15 3.09
24 25 4.320494 CGGTGCTTGTTTTGAGAAGCTTAT 60.320 41.667 0.00 0.00 44.15 1.73
25 26 5.532557 GGTGCTTGTTTTGAGAAGCTTATT 58.467 37.500 0.00 0.00 44.15 1.40
26 27 6.567701 CGGTGCTTGTTTTGAGAAGCTTATTA 60.568 38.462 0.00 0.00 44.15 0.98
27 28 7.145323 GGTGCTTGTTTTGAGAAGCTTATTAA 58.855 34.615 0.00 0.00 44.15 1.40
28 29 7.327032 GGTGCTTGTTTTGAGAAGCTTATTAAG 59.673 37.037 0.00 0.00 44.15 1.85
29 30 7.862873 GTGCTTGTTTTGAGAAGCTTATTAAGT 59.137 33.333 0.00 0.00 44.15 2.24
30 31 8.076178 TGCTTGTTTTGAGAAGCTTATTAAGTC 58.924 33.333 0.00 0.00 44.15 3.01
31 32 7.269297 GCTTGTTTTGAGAAGCTTATTAAGTCG 59.731 37.037 0.00 0.00 41.21 4.18
32 33 6.599437 TGTTTTGAGAAGCTTATTAAGTCGC 58.401 36.000 0.00 0.00 0.00 5.19
33 34 5.796350 TTTGAGAAGCTTATTAAGTCGCC 57.204 39.130 0.00 0.00 0.00 5.54
34 35 3.444916 TGAGAAGCTTATTAAGTCGCCG 58.555 45.455 0.00 0.00 0.00 6.46
35 36 2.202566 AGAAGCTTATTAAGTCGCCGC 58.797 47.619 0.00 0.00 0.00 6.53
36 37 1.260825 GAAGCTTATTAAGTCGCCGCC 59.739 52.381 0.00 0.00 0.00 6.13
37 38 0.464452 AGCTTATTAAGTCGCCGCCT 59.536 50.000 5.38 0.00 0.00 5.52
38 39 0.582005 GCTTATTAAGTCGCCGCCTG 59.418 55.000 5.38 0.00 0.00 4.85
39 40 0.582005 CTTATTAAGTCGCCGCCTGC 59.418 55.000 0.00 0.00 0.00 4.85
40 41 0.177141 TTATTAAGTCGCCGCCTGCT 59.823 50.000 0.00 0.00 38.05 4.24
41 42 0.529773 TATTAAGTCGCCGCCTGCTG 60.530 55.000 0.00 0.00 38.05 4.41
42 43 2.238847 ATTAAGTCGCCGCCTGCTGA 62.239 55.000 0.00 0.00 38.05 4.26
43 44 2.835701 TTAAGTCGCCGCCTGCTGAG 62.836 60.000 0.00 0.00 38.05 3.35
45 46 4.521062 GTCGCCGCCTGCTGAGAT 62.521 66.667 0.00 0.00 38.05 2.75
46 47 2.833121 TCGCCGCCTGCTGAGATA 60.833 61.111 0.00 0.00 38.05 1.98
47 48 2.106938 CGCCGCCTGCTGAGATAA 59.893 61.111 0.00 0.00 38.05 1.75
48 49 1.521457 CGCCGCCTGCTGAGATAAA 60.521 57.895 0.00 0.00 38.05 1.40
49 50 0.882042 CGCCGCCTGCTGAGATAAAT 60.882 55.000 0.00 0.00 38.05 1.40
50 51 0.871057 GCCGCCTGCTGAGATAAATC 59.129 55.000 0.00 0.00 36.87 2.17
51 52 1.542108 GCCGCCTGCTGAGATAAATCT 60.542 52.381 0.00 0.00 37.07 2.40
52 53 2.141517 CCGCCTGCTGAGATAAATCTG 58.858 52.381 0.00 0.00 37.25 2.90
53 54 1.530293 CGCCTGCTGAGATAAATCTGC 59.470 52.381 0.00 0.00 42.58 4.26
54 55 2.806019 CGCCTGCTGAGATAAATCTGCT 60.806 50.000 0.00 0.00 42.67 4.24
55 56 3.553715 CGCCTGCTGAGATAAATCTGCTA 60.554 47.826 0.00 0.00 42.67 3.49
56 57 4.577875 GCCTGCTGAGATAAATCTGCTAT 58.422 43.478 0.00 0.00 42.67 2.97
57 58 4.392445 GCCTGCTGAGATAAATCTGCTATG 59.608 45.833 0.00 0.00 42.67 2.23
58 59 5.549347 CCTGCTGAGATAAATCTGCTATGT 58.451 41.667 0.00 0.00 42.67 2.29
59 60 5.408909 CCTGCTGAGATAAATCTGCTATGTG 59.591 44.000 0.00 0.00 42.67 3.21
60 61 5.922053 TGCTGAGATAAATCTGCTATGTGT 58.078 37.500 0.00 0.00 42.67 3.72
61 62 5.756833 TGCTGAGATAAATCTGCTATGTGTG 59.243 40.000 0.00 0.00 42.67 3.82
62 63 5.757320 GCTGAGATAAATCTGCTATGTGTGT 59.243 40.000 0.00 0.00 40.04 3.72
63 64 6.259608 GCTGAGATAAATCTGCTATGTGTGTT 59.740 38.462 0.00 0.00 40.04 3.32
64 65 7.518052 GCTGAGATAAATCTGCTATGTGTGTTC 60.518 40.741 0.00 0.00 40.04 3.18
65 66 6.763135 TGAGATAAATCTGCTATGTGTGTTCC 59.237 38.462 0.00 0.00 37.25 3.62
66 67 6.893583 AGATAAATCTGCTATGTGTGTTCCT 58.106 36.000 0.00 0.00 35.42 3.36
67 68 7.341805 AGATAAATCTGCTATGTGTGTTCCTT 58.658 34.615 0.00 0.00 35.42 3.36
68 69 7.831193 AGATAAATCTGCTATGTGTGTTCCTTT 59.169 33.333 0.00 0.00 35.42 3.11
69 70 9.109393 GATAAATCTGCTATGTGTGTTCCTTTA 57.891 33.333 0.00 0.00 0.00 1.85
70 71 7.944729 AAATCTGCTATGTGTGTTCCTTTAT 57.055 32.000 0.00 0.00 0.00 1.40
72 73 9.461312 AAATCTGCTATGTGTGTTCCTTTATAA 57.539 29.630 0.00 0.00 0.00 0.98
73 74 9.632638 AATCTGCTATGTGTGTTCCTTTATAAT 57.367 29.630 0.00 0.00 0.00 1.28
75 76 9.542462 TCTGCTATGTGTGTTCCTTTATAATAC 57.458 33.333 0.00 0.00 0.00 1.89
76 77 9.325198 CTGCTATGTGTGTTCCTTTATAATACA 57.675 33.333 0.00 0.00 0.00 2.29
77 78 9.845740 TGCTATGTGTGTTCCTTTATAATACAT 57.154 29.630 0.00 0.00 31.83 2.29
81 82 8.203937 TGTGTGTTCCTTTATAATACATTCGG 57.796 34.615 0.00 0.00 31.83 4.30
82 83 7.130269 GTGTGTTCCTTTATAATACATTCGGC 58.870 38.462 0.00 0.00 31.83 5.54
83 84 6.824196 TGTGTTCCTTTATAATACATTCGGCA 59.176 34.615 0.00 0.00 0.00 5.69
84 85 7.011950 TGTGTTCCTTTATAATACATTCGGCAG 59.988 37.037 0.00 0.00 0.00 4.85
85 86 6.485313 TGTTCCTTTATAATACATTCGGCAGG 59.515 38.462 0.00 0.00 0.00 4.85
86 87 5.556915 TCCTTTATAATACATTCGGCAGGG 58.443 41.667 0.00 0.00 0.00 4.45
87 88 5.308497 TCCTTTATAATACATTCGGCAGGGA 59.692 40.000 0.00 0.00 0.00 4.20
88 89 5.411669 CCTTTATAATACATTCGGCAGGGAC 59.588 44.000 0.00 0.00 0.00 4.46
89 90 2.519377 TAATACATTCGGCAGGGACG 57.481 50.000 0.00 0.00 34.09 4.79
90 91 0.814010 AATACATTCGGCAGGGACGC 60.814 55.000 0.00 0.00 32.07 5.19
103 104 4.521062 GACGCCGCCTGCTGAGAT 62.521 66.667 0.00 0.00 38.05 2.75
104 105 3.138930 GACGCCGCCTGCTGAGATA 62.139 63.158 0.00 0.00 38.05 1.98
105 106 2.106938 CGCCGCCTGCTGAGATAA 59.893 61.111 0.00 0.00 38.05 1.75
106 107 1.521457 CGCCGCCTGCTGAGATAAA 60.521 57.895 0.00 0.00 38.05 1.40
107 108 0.882042 CGCCGCCTGCTGAGATAAAT 60.882 55.000 0.00 0.00 38.05 1.40
108 109 0.871057 GCCGCCTGCTGAGATAAATC 59.129 55.000 0.00 0.00 36.87 2.17
109 110 1.542108 GCCGCCTGCTGAGATAAATCT 60.542 52.381 0.00 0.00 37.07 2.40
110 111 2.141517 CCGCCTGCTGAGATAAATCTG 58.858 52.381 0.00 0.00 37.25 2.90
111 112 1.530293 CGCCTGCTGAGATAAATCTGC 59.470 52.381 0.00 0.00 42.58 4.26
112 113 2.806019 CGCCTGCTGAGATAAATCTGCT 60.806 50.000 0.00 0.00 42.67 4.24
113 114 3.553715 CGCCTGCTGAGATAAATCTGCTA 60.554 47.826 0.00 0.00 42.67 3.49
114 115 4.577875 GCCTGCTGAGATAAATCTGCTAT 58.422 43.478 0.00 0.00 42.67 2.97
115 116 4.392445 GCCTGCTGAGATAAATCTGCTATG 59.608 45.833 0.00 0.00 42.67 2.23
116 117 5.549347 CCTGCTGAGATAAATCTGCTATGT 58.451 41.667 0.00 0.00 42.67 2.29
117 118 5.408909 CCTGCTGAGATAAATCTGCTATGTG 59.591 44.000 0.00 0.00 42.67 3.21
118 119 5.922053 TGCTGAGATAAATCTGCTATGTGT 58.078 37.500 0.00 0.00 42.67 3.72
119 120 5.756833 TGCTGAGATAAATCTGCTATGTGTG 59.243 40.000 0.00 0.00 42.67 3.82
120 121 5.757320 GCTGAGATAAATCTGCTATGTGTGT 59.243 40.000 0.00 0.00 40.04 3.72
121 122 6.259608 GCTGAGATAAATCTGCTATGTGTGTT 59.740 38.462 0.00 0.00 40.04 3.32
122 123 7.518052 GCTGAGATAAATCTGCTATGTGTGTTC 60.518 40.741 0.00 0.00 40.04 3.18
123 124 6.763135 TGAGATAAATCTGCTATGTGTGTTCC 59.237 38.462 0.00 0.00 37.25 3.62
124 125 6.893583 AGATAAATCTGCTATGTGTGTTCCT 58.106 36.000 0.00 0.00 35.42 3.36
125 126 7.341805 AGATAAATCTGCTATGTGTGTTCCTT 58.658 34.615 0.00 0.00 35.42 3.36
126 127 7.831193 AGATAAATCTGCTATGTGTGTTCCTTT 59.169 33.333 0.00 0.00 35.42 3.11
127 128 9.109393 GATAAATCTGCTATGTGTGTTCCTTTA 57.891 33.333 0.00 0.00 0.00 1.85
128 129 7.944729 AAATCTGCTATGTGTGTTCCTTTAT 57.055 32.000 0.00 0.00 0.00 1.40
130 131 9.461312 AAATCTGCTATGTGTGTTCCTTTATAA 57.539 29.630 0.00 0.00 0.00 0.98
131 132 9.632638 AATCTGCTATGTGTGTTCCTTTATAAT 57.367 29.630 0.00 0.00 0.00 1.28
133 134 9.542462 TCTGCTATGTGTGTTCCTTTATAATAC 57.458 33.333 0.00 0.00 0.00 1.89
134 135 9.325198 CTGCTATGTGTGTTCCTTTATAATACA 57.675 33.333 0.00 0.00 0.00 2.29
135 136 9.845740 TGCTATGTGTGTTCCTTTATAATACAT 57.154 29.630 0.00 0.00 31.83 2.29
139 140 8.203937 TGTGTGTTCCTTTATAATACATTCGG 57.796 34.615 0.00 0.00 31.83 4.30
140 141 7.130269 GTGTGTTCCTTTATAATACATTCGGC 58.870 38.462 0.00 0.00 31.83 5.54
141 142 6.824196 TGTGTTCCTTTATAATACATTCGGCA 59.176 34.615 0.00 0.00 0.00 5.69
142 143 7.011950 TGTGTTCCTTTATAATACATTCGGCAG 59.988 37.037 0.00 0.00 0.00 4.85
143 144 6.485313 TGTTCCTTTATAATACATTCGGCAGG 59.515 38.462 0.00 0.00 0.00 4.85
144 145 5.556915 TCCTTTATAATACATTCGGCAGGG 58.443 41.667 0.00 0.00 0.00 4.45
145 146 5.308497 TCCTTTATAATACATTCGGCAGGGA 59.692 40.000 0.00 0.00 0.00 4.20
146 147 6.012858 TCCTTTATAATACATTCGGCAGGGAT 60.013 38.462 0.00 0.00 0.00 3.85
147 148 6.094048 CCTTTATAATACATTCGGCAGGGATG 59.906 42.308 0.00 0.00 0.00 3.51
148 149 1.609208 AATACATTCGGCAGGGATGC 58.391 50.000 0.00 0.00 0.00 3.91
149 150 0.473755 ATACATTCGGCAGGGATGCA 59.526 50.000 2.29 0.00 36.33 3.96
150 151 0.179048 TACATTCGGCAGGGATGCAG 60.179 55.000 2.29 0.00 36.33 4.41
151 152 1.153107 CATTCGGCAGGGATGCAGA 60.153 57.895 2.29 0.51 37.24 4.26
152 153 3.076999 TTCGGCAGGGATGCAGAA 58.923 55.556 10.96 10.96 44.23 3.02
153 154 1.078214 TTCGGCAGGGATGCAGAAG 60.078 57.895 10.96 0.00 42.29 2.85
154 155 2.515523 CGGCAGGGATGCAGAAGG 60.516 66.667 2.29 0.00 36.33 3.46
155 156 3.001514 GGCAGGGATGCAGAAGGA 58.998 61.111 2.29 0.00 36.33 3.36
156 157 1.153005 GGCAGGGATGCAGAAGGAG 60.153 63.158 2.29 0.00 36.33 3.69
157 158 1.630126 GGCAGGGATGCAGAAGGAGA 61.630 60.000 2.29 0.00 36.33 3.71
158 159 0.463474 GCAGGGATGCAGAAGGAGAC 60.463 60.000 0.00 0.00 34.41 3.36
159 160 0.907486 CAGGGATGCAGAAGGAGACA 59.093 55.000 0.00 0.00 0.00 3.41
160 161 1.134461 CAGGGATGCAGAAGGAGACAG 60.134 57.143 0.00 0.00 0.00 3.51
161 162 1.198713 GGGATGCAGAAGGAGACAGA 58.801 55.000 0.00 0.00 0.00 3.41
162 163 1.134551 GGGATGCAGAAGGAGACAGAC 60.135 57.143 0.00 0.00 0.00 3.51
163 164 1.470632 GGATGCAGAAGGAGACAGACG 60.471 57.143 0.00 0.00 0.00 4.18
164 165 1.474478 GATGCAGAAGGAGACAGACGA 59.526 52.381 0.00 0.00 0.00 4.20
165 166 0.884514 TGCAGAAGGAGACAGACGAG 59.115 55.000 0.00 0.00 0.00 4.18
166 167 0.172352 GCAGAAGGAGACAGACGAGG 59.828 60.000 0.00 0.00 0.00 4.63
167 168 1.827681 CAGAAGGAGACAGACGAGGA 58.172 55.000 0.00 0.00 0.00 3.71
168 169 1.742831 CAGAAGGAGACAGACGAGGAG 59.257 57.143 0.00 0.00 0.00 3.69
169 170 0.454196 GAAGGAGACAGACGAGGAGC 59.546 60.000 0.00 0.00 0.00 4.70
170 171 0.039035 AAGGAGACAGACGAGGAGCT 59.961 55.000 0.00 0.00 0.00 4.09
171 172 0.039035 AGGAGACAGACGAGGAGCTT 59.961 55.000 0.00 0.00 0.00 3.74
172 173 0.454196 GGAGACAGACGAGGAGCTTC 59.546 60.000 0.00 0.00 0.00 3.86
173 174 1.459450 GAGACAGACGAGGAGCTTCT 58.541 55.000 0.00 0.00 0.00 2.85
174 175 1.132262 GAGACAGACGAGGAGCTTCTG 59.868 57.143 0.00 4.82 45.57 3.02
175 176 0.172352 GACAGACGAGGAGCTTCTGG 59.828 60.000 15.09 9.70 44.69 3.86
176 177 0.540830 ACAGACGAGGAGCTTCTGGT 60.541 55.000 9.80 9.80 44.69 4.00
177 178 0.108898 CAGACGAGGAGCTTCTGGTG 60.109 60.000 15.28 0.00 38.76 4.17
178 179 1.446966 GACGAGGAGCTTCTGGTGC 60.447 63.158 15.28 2.85 0.00 5.01
179 180 2.125350 CGAGGAGCTTCTGGTGCC 60.125 66.667 0.00 0.00 32.28 5.01
180 181 2.654079 CGAGGAGCTTCTGGTGCCT 61.654 63.158 0.00 0.00 32.28 4.75
181 182 1.078567 GAGGAGCTTCTGGTGCCTG 60.079 63.158 0.00 0.00 32.28 4.85
182 183 2.045536 GGAGCTTCTGGTGCCTGG 60.046 66.667 0.00 0.00 0.00 4.45
183 184 2.753029 GAGCTTCTGGTGCCTGGT 59.247 61.111 0.00 0.00 0.00 4.00
184 185 1.553690 GGAGCTTCTGGTGCCTGGTA 61.554 60.000 0.00 0.00 0.00 3.25
185 186 0.391793 GAGCTTCTGGTGCCTGGTAC 60.392 60.000 6.35 6.35 0.00 3.34
186 187 1.127567 AGCTTCTGGTGCCTGGTACA 61.128 55.000 16.84 2.38 0.00 2.90
187 188 0.250727 GCTTCTGGTGCCTGGTACAA 60.251 55.000 16.84 4.39 38.70 2.41
188 189 1.523758 CTTCTGGTGCCTGGTACAAC 58.476 55.000 16.84 0.00 38.70 3.32
189 190 0.250124 TTCTGGTGCCTGGTACAACG 60.250 55.000 16.84 4.39 38.70 4.10
190 191 1.116536 TCTGGTGCCTGGTACAACGA 61.117 55.000 16.84 6.60 38.70 3.85
191 192 0.949105 CTGGTGCCTGGTACAACGAC 60.949 60.000 16.84 0.00 38.70 4.34
192 193 2.025418 GGTGCCTGGTACAACGACG 61.025 63.158 16.84 0.00 38.70 5.12
193 194 2.356553 TGCCTGGTACAACGACGC 60.357 61.111 0.00 0.00 38.70 5.19
194 195 3.116531 GCCTGGTACAACGACGCC 61.117 66.667 0.00 0.00 38.70 5.68
195 196 2.340809 CCTGGTACAACGACGCCA 59.659 61.111 0.00 0.00 38.70 5.69
196 197 2.025418 CCTGGTACAACGACGCCAC 61.025 63.158 0.00 0.00 38.70 5.01
197 198 1.300311 CTGGTACAACGACGCCACA 60.300 57.895 0.00 0.00 38.70 4.17
198 199 1.282248 CTGGTACAACGACGCCACAG 61.282 60.000 0.00 0.00 38.70 3.66
199 200 1.007038 GGTACAACGACGCCACAGA 60.007 57.895 0.00 0.00 0.00 3.41
200 201 1.007336 GGTACAACGACGCCACAGAG 61.007 60.000 0.00 0.00 0.00 3.35
201 202 0.039798 GTACAACGACGCCACAGAGA 60.040 55.000 0.00 0.00 0.00 3.10
202 203 0.669619 TACAACGACGCCACAGAGAA 59.330 50.000 0.00 0.00 0.00 2.87
203 204 0.874607 ACAACGACGCCACAGAGAAC 60.875 55.000 0.00 0.00 0.00 3.01
204 205 1.660575 AACGACGCCACAGAGAACG 60.661 57.895 0.00 0.00 0.00 3.95
205 206 2.805353 CGACGCCACAGAGAACGG 60.805 66.667 0.00 0.00 0.00 4.44
206 207 3.112709 GACGCCACAGAGAACGGC 61.113 66.667 0.00 0.00 42.64 5.68
207 208 3.575351 GACGCCACAGAGAACGGCT 62.575 63.158 0.00 0.00 43.95 5.52
208 209 2.811317 CGCCACAGAGAACGGCTC 60.811 66.667 0.00 0.00 43.95 4.70
216 217 3.712020 GAGAACGGCTCTCTCTGTG 57.288 57.895 9.00 0.00 46.32 3.66
217 218 1.169577 GAGAACGGCTCTCTCTGTGA 58.830 55.000 9.00 0.00 46.32 3.58
218 219 0.885196 AGAACGGCTCTCTCTGTGAC 59.115 55.000 0.00 0.00 0.00 3.67
219 220 0.455295 GAACGGCTCTCTCTGTGACG 60.455 60.000 0.00 0.00 45.22 4.35
220 221 0.889638 AACGGCTCTCTCTGTGACGA 60.890 55.000 0.00 0.00 42.69 4.20
221 222 1.135731 CGGCTCTCTCTGTGACGAC 59.864 63.158 0.00 0.00 42.69 4.34
222 223 1.302383 CGGCTCTCTCTGTGACGACT 61.302 60.000 0.00 0.00 42.69 4.18
356 357 0.896923 ATTAGTACCGGTTCGTGGCA 59.103 50.000 15.04 0.00 0.00 4.92
357 358 0.038343 TTAGTACCGGTTCGTGGCAC 60.038 55.000 15.04 7.79 0.00 5.01
358 359 2.198906 TAGTACCGGTTCGTGGCACG 62.199 60.000 32.75 32.75 44.19 5.34
373 374 2.159181 CACGAACCGGTGCTAAAGG 58.841 57.895 8.52 0.00 0.00 3.11
374 375 0.601841 CACGAACCGGTGCTAAAGGT 60.602 55.000 8.52 0.00 40.50 3.50
585 586 2.490903 GAGCTCATCACACATTTTGCCT 59.509 45.455 9.40 0.00 0.00 4.75
589 590 5.186409 AGCTCATCACACATTTTGCCTAAAT 59.814 36.000 0.00 0.00 36.90 1.40
846 854 1.172180 TCTCCGTCGTAACCACCGTT 61.172 55.000 0.00 0.00 35.90 4.44
853 861 0.734942 CGTAACCACCGTTGATCGCT 60.735 55.000 0.00 0.00 38.35 4.93
858 866 2.167219 CACCGTTGATCGCTCGCAT 61.167 57.895 0.00 0.00 38.35 4.73
1049 1057 2.540101 CTCGTCCTTGTTATGATTCGGC 59.460 50.000 0.00 0.00 0.00 5.54
1133 1141 9.740239 CCCATCAAGTTGACATAGATATTTTTG 57.260 33.333 7.96 0.00 0.00 2.44
1253 1261 4.953781 AGAATTGAGGGGGAAAAGATGA 57.046 40.909 0.00 0.00 0.00 2.92
1542 1550 3.885724 TGTGTAATGAAGATGAGCCGA 57.114 42.857 0.00 0.00 0.00 5.54
1551 1559 3.387699 TGAAGATGAGCCGACAATGGATA 59.612 43.478 0.00 0.00 0.00 2.59
1554 1562 5.946942 AGATGAGCCGACAATGGATATAT 57.053 39.130 0.00 0.00 0.00 0.86
1658 1666 1.601419 ATGCCTTGTCCATGTGCTGC 61.601 55.000 0.00 0.00 0.00 5.25
1757 1765 1.686355 AATGTTTGGACCAAGCACGA 58.314 45.000 24.10 4.07 37.39 4.35
2069 2079 3.537580 TGCGTAGGTGACAAGAAAAAGT 58.462 40.909 0.00 0.00 0.00 2.66
2098 2108 2.029739 CACACTGGAATTGCTGCAATGA 60.030 45.455 26.87 13.71 34.04 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.600413 GCTTCTCAAAACAAGCACCGG 60.600 52.381 0.00 0.00 43.87 5.28
1 2 1.334869 AGCTTCTCAAAACAAGCACCG 59.665 47.619 6.44 0.00 46.37 4.94
2 3 3.443099 AAGCTTCTCAAAACAAGCACC 57.557 42.857 6.44 0.00 46.37 5.01
4 5 7.940850 ACTTAATAAGCTTCTCAAAACAAGCA 58.059 30.769 0.00 0.00 46.37 3.91
5 6 7.269297 CGACTTAATAAGCTTCTCAAAACAAGC 59.731 37.037 0.00 0.00 44.63 4.01
6 7 7.269297 GCGACTTAATAAGCTTCTCAAAACAAG 59.731 37.037 0.00 0.00 0.00 3.16
7 8 7.075741 GCGACTTAATAAGCTTCTCAAAACAA 58.924 34.615 0.00 0.00 0.00 2.83
8 9 6.348213 GGCGACTTAATAAGCTTCTCAAAACA 60.348 38.462 0.00 0.00 0.00 2.83
9 10 6.022208 GGCGACTTAATAAGCTTCTCAAAAC 58.978 40.000 0.00 0.00 0.00 2.43
10 11 5.163893 CGGCGACTTAATAAGCTTCTCAAAA 60.164 40.000 0.00 0.00 0.00 2.44
11 12 4.328983 CGGCGACTTAATAAGCTTCTCAAA 59.671 41.667 0.00 0.00 0.00 2.69
12 13 3.863424 CGGCGACTTAATAAGCTTCTCAA 59.137 43.478 0.00 0.00 0.00 3.02
13 14 3.444916 CGGCGACTTAATAAGCTTCTCA 58.555 45.455 0.00 0.00 0.00 3.27
14 15 2.218987 GCGGCGACTTAATAAGCTTCTC 59.781 50.000 12.98 0.00 0.00 2.87
15 16 2.202566 GCGGCGACTTAATAAGCTTCT 58.797 47.619 12.98 0.00 0.00 2.85
16 17 1.260825 GGCGGCGACTTAATAAGCTTC 59.739 52.381 12.98 0.00 0.00 3.86
17 18 1.134491 AGGCGGCGACTTAATAAGCTT 60.134 47.619 10.88 3.48 0.00 3.74
18 19 0.464452 AGGCGGCGACTTAATAAGCT 59.536 50.000 10.88 0.00 0.00 3.74
19 20 0.582005 CAGGCGGCGACTTAATAAGC 59.418 55.000 15.41 0.00 0.00 3.09
20 21 0.582005 GCAGGCGGCGACTTAATAAG 59.418 55.000 15.41 0.47 0.00 1.73
21 22 2.685364 GCAGGCGGCGACTTAATAA 58.315 52.632 15.41 0.00 0.00 1.40
22 23 4.431035 GCAGGCGGCGACTTAATA 57.569 55.556 15.41 0.00 0.00 0.98
31 32 0.871057 GATTTATCTCAGCAGGCGGC 59.129 55.000 0.00 0.00 45.30 6.53
32 33 2.141517 CAGATTTATCTCAGCAGGCGG 58.858 52.381 0.00 0.00 34.22 6.13
33 34 1.530293 GCAGATTTATCTCAGCAGGCG 59.470 52.381 0.00 0.00 34.22 5.52
34 35 2.848691 AGCAGATTTATCTCAGCAGGC 58.151 47.619 5.26 0.00 34.22 4.85
35 36 5.408909 CACATAGCAGATTTATCTCAGCAGG 59.591 44.000 5.26 0.00 34.22 4.85
36 37 5.990386 ACACATAGCAGATTTATCTCAGCAG 59.010 40.000 5.26 0.00 34.22 4.24
37 38 5.756833 CACACATAGCAGATTTATCTCAGCA 59.243 40.000 5.26 0.00 34.22 4.41
38 39 5.757320 ACACACATAGCAGATTTATCTCAGC 59.243 40.000 0.00 0.00 34.22 4.26
39 40 7.042187 GGAACACACATAGCAGATTTATCTCAG 60.042 40.741 0.00 0.00 34.22 3.35
40 41 6.763135 GGAACACACATAGCAGATTTATCTCA 59.237 38.462 0.00 0.00 34.22 3.27
41 42 6.989169 AGGAACACACATAGCAGATTTATCTC 59.011 38.462 0.00 0.00 34.22 2.75
42 43 6.893583 AGGAACACACATAGCAGATTTATCT 58.106 36.000 0.00 0.00 37.72 1.98
43 44 7.559590 AAGGAACACACATAGCAGATTTATC 57.440 36.000 0.00 0.00 0.00 1.75
44 45 7.944729 AAAGGAACACACATAGCAGATTTAT 57.055 32.000 0.00 0.00 0.00 1.40
46 47 7.944729 ATAAAGGAACACACATAGCAGATTT 57.055 32.000 0.00 0.00 0.00 2.17
47 48 9.632638 ATTATAAAGGAACACACATAGCAGATT 57.367 29.630 0.00 0.00 0.00 2.40
49 50 9.542462 GTATTATAAAGGAACACACATAGCAGA 57.458 33.333 0.00 0.00 0.00 4.26
50 51 9.325198 TGTATTATAAAGGAACACACATAGCAG 57.675 33.333 0.00 0.00 0.00 4.24
51 52 9.845740 ATGTATTATAAAGGAACACACATAGCA 57.154 29.630 0.00 0.00 0.00 3.49
55 56 8.836413 CCGAATGTATTATAAAGGAACACACAT 58.164 33.333 0.00 0.00 0.00 3.21
56 57 7.201661 GCCGAATGTATTATAAAGGAACACACA 60.202 37.037 0.00 0.00 0.00 3.72
57 58 7.130269 GCCGAATGTATTATAAAGGAACACAC 58.870 38.462 0.00 0.00 0.00 3.82
58 59 6.824196 TGCCGAATGTATTATAAAGGAACACA 59.176 34.615 0.00 0.00 0.00 3.72
59 60 7.254227 TGCCGAATGTATTATAAAGGAACAC 57.746 36.000 0.00 0.00 0.00 3.32
60 61 6.485313 CCTGCCGAATGTATTATAAAGGAACA 59.515 38.462 0.00 0.00 0.00 3.18
61 62 6.072673 CCCTGCCGAATGTATTATAAAGGAAC 60.073 42.308 0.00 0.00 0.00 3.62
62 63 6.001460 CCCTGCCGAATGTATTATAAAGGAA 58.999 40.000 0.00 0.00 0.00 3.36
63 64 5.308497 TCCCTGCCGAATGTATTATAAAGGA 59.692 40.000 0.00 0.00 0.00 3.36
64 65 5.411669 GTCCCTGCCGAATGTATTATAAAGG 59.588 44.000 0.00 0.00 0.00 3.11
65 66 5.120208 CGTCCCTGCCGAATGTATTATAAAG 59.880 44.000 0.00 0.00 0.00 1.85
66 67 4.992319 CGTCCCTGCCGAATGTATTATAAA 59.008 41.667 0.00 0.00 0.00 1.40
67 68 4.562082 CGTCCCTGCCGAATGTATTATAA 58.438 43.478 0.00 0.00 0.00 0.98
68 69 3.615592 GCGTCCCTGCCGAATGTATTATA 60.616 47.826 0.00 0.00 0.00 0.98
69 70 2.870435 GCGTCCCTGCCGAATGTATTAT 60.870 50.000 0.00 0.00 0.00 1.28
70 71 1.539496 GCGTCCCTGCCGAATGTATTA 60.539 52.381 0.00 0.00 0.00 0.98
71 72 0.814010 GCGTCCCTGCCGAATGTATT 60.814 55.000 0.00 0.00 0.00 1.89
72 73 1.227556 GCGTCCCTGCCGAATGTAT 60.228 57.895 0.00 0.00 0.00 2.29
73 74 2.185867 GCGTCCCTGCCGAATGTA 59.814 61.111 0.00 0.00 0.00 2.29
74 75 4.778143 GGCGTCCCTGCCGAATGT 62.778 66.667 0.00 0.00 46.75 2.71
89 90 0.871057 GATTTATCTCAGCAGGCGGC 59.129 55.000 0.00 0.00 45.30 6.53
90 91 2.141517 CAGATTTATCTCAGCAGGCGG 58.858 52.381 0.00 0.00 34.22 6.13
91 92 1.530293 GCAGATTTATCTCAGCAGGCG 59.470 52.381 0.00 0.00 34.22 5.52
92 93 2.848691 AGCAGATTTATCTCAGCAGGC 58.151 47.619 5.26 0.00 34.22 4.85
93 94 5.408909 CACATAGCAGATTTATCTCAGCAGG 59.591 44.000 5.26 0.00 34.22 4.85
94 95 5.990386 ACACATAGCAGATTTATCTCAGCAG 59.010 40.000 5.26 0.00 34.22 4.24
95 96 5.756833 CACACATAGCAGATTTATCTCAGCA 59.243 40.000 5.26 0.00 34.22 4.41
96 97 5.757320 ACACACATAGCAGATTTATCTCAGC 59.243 40.000 0.00 0.00 34.22 4.26
97 98 7.042187 GGAACACACATAGCAGATTTATCTCAG 60.042 40.741 0.00 0.00 34.22 3.35
98 99 6.763135 GGAACACACATAGCAGATTTATCTCA 59.237 38.462 0.00 0.00 34.22 3.27
99 100 6.989169 AGGAACACACATAGCAGATTTATCTC 59.011 38.462 0.00 0.00 34.22 2.75
100 101 6.893583 AGGAACACACATAGCAGATTTATCT 58.106 36.000 0.00 0.00 37.72 1.98
101 102 7.559590 AAGGAACACACATAGCAGATTTATC 57.440 36.000 0.00 0.00 0.00 1.75
102 103 7.944729 AAAGGAACACACATAGCAGATTTAT 57.055 32.000 0.00 0.00 0.00 1.40
104 105 7.944729 ATAAAGGAACACACATAGCAGATTT 57.055 32.000 0.00 0.00 0.00 2.17
105 106 9.632638 ATTATAAAGGAACACACATAGCAGATT 57.367 29.630 0.00 0.00 0.00 2.40
107 108 9.542462 GTATTATAAAGGAACACACATAGCAGA 57.458 33.333 0.00 0.00 0.00 4.26
108 109 9.325198 TGTATTATAAAGGAACACACATAGCAG 57.675 33.333 0.00 0.00 0.00 4.24
109 110 9.845740 ATGTATTATAAAGGAACACACATAGCA 57.154 29.630 0.00 0.00 0.00 3.49
113 114 8.836413 CCGAATGTATTATAAAGGAACACACAT 58.164 33.333 0.00 0.00 0.00 3.21
114 115 7.201661 GCCGAATGTATTATAAAGGAACACACA 60.202 37.037 0.00 0.00 0.00 3.72
115 116 7.130269 GCCGAATGTATTATAAAGGAACACAC 58.870 38.462 0.00 0.00 0.00 3.82
116 117 6.824196 TGCCGAATGTATTATAAAGGAACACA 59.176 34.615 0.00 0.00 0.00 3.72
117 118 7.254227 TGCCGAATGTATTATAAAGGAACAC 57.746 36.000 0.00 0.00 0.00 3.32
118 119 6.485313 CCTGCCGAATGTATTATAAAGGAACA 59.515 38.462 0.00 0.00 0.00 3.18
119 120 6.072673 CCCTGCCGAATGTATTATAAAGGAAC 60.073 42.308 0.00 0.00 0.00 3.62
120 121 6.001460 CCCTGCCGAATGTATTATAAAGGAA 58.999 40.000 0.00 0.00 0.00 3.36
121 122 5.308497 TCCCTGCCGAATGTATTATAAAGGA 59.692 40.000 0.00 0.00 0.00 3.36
122 123 5.556915 TCCCTGCCGAATGTATTATAAAGG 58.443 41.667 0.00 0.00 0.00 3.11
123 124 6.403636 GCATCCCTGCCGAATGTATTATAAAG 60.404 42.308 0.00 0.00 42.88 1.85
124 125 5.414454 GCATCCCTGCCGAATGTATTATAAA 59.586 40.000 0.00 0.00 42.88 1.40
125 126 4.941263 GCATCCCTGCCGAATGTATTATAA 59.059 41.667 0.00 0.00 42.88 0.98
126 127 4.513442 GCATCCCTGCCGAATGTATTATA 58.487 43.478 0.00 0.00 42.88 0.98
127 128 3.347216 GCATCCCTGCCGAATGTATTAT 58.653 45.455 0.00 0.00 42.88 1.28
128 129 2.778299 GCATCCCTGCCGAATGTATTA 58.222 47.619 0.00 0.00 42.88 0.98
129 130 1.609208 GCATCCCTGCCGAATGTATT 58.391 50.000 0.00 0.00 42.88 1.89
130 131 3.329300 GCATCCCTGCCGAATGTAT 57.671 52.632 0.00 0.00 42.88 2.29
131 132 4.876701 GCATCCCTGCCGAATGTA 57.123 55.556 0.00 0.00 42.88 2.29
133 134 2.679751 CTTCTGCATCCCTGCCGAATG 61.680 57.143 5.17 0.00 46.27 2.67
134 135 0.465097 CTTCTGCATCCCTGCCGAAT 60.465 55.000 5.17 0.00 46.27 3.34
140 141 0.907486 TGTCTCCTTCTGCATCCCTG 59.093 55.000 0.00 0.00 0.00 4.45
141 142 1.202330 CTGTCTCCTTCTGCATCCCT 58.798 55.000 0.00 0.00 0.00 4.20
142 143 1.134551 GTCTGTCTCCTTCTGCATCCC 60.135 57.143 0.00 0.00 0.00 3.85
143 144 1.470632 CGTCTGTCTCCTTCTGCATCC 60.471 57.143 0.00 0.00 0.00 3.51
144 145 1.474478 TCGTCTGTCTCCTTCTGCATC 59.526 52.381 0.00 0.00 0.00 3.91
145 146 1.476085 CTCGTCTGTCTCCTTCTGCAT 59.524 52.381 0.00 0.00 0.00 3.96
146 147 0.884514 CTCGTCTGTCTCCTTCTGCA 59.115 55.000 0.00 0.00 0.00 4.41
147 148 0.172352 CCTCGTCTGTCTCCTTCTGC 59.828 60.000 0.00 0.00 0.00 4.26
148 149 1.742831 CTCCTCGTCTGTCTCCTTCTG 59.257 57.143 0.00 0.00 0.00 3.02
149 150 1.953311 GCTCCTCGTCTGTCTCCTTCT 60.953 57.143 0.00 0.00 0.00 2.85
150 151 0.454196 GCTCCTCGTCTGTCTCCTTC 59.546 60.000 0.00 0.00 0.00 3.46
151 152 0.039035 AGCTCCTCGTCTGTCTCCTT 59.961 55.000 0.00 0.00 0.00 3.36
152 153 0.039035 AAGCTCCTCGTCTGTCTCCT 59.961 55.000 0.00 0.00 0.00 3.69
153 154 0.454196 GAAGCTCCTCGTCTGTCTCC 59.546 60.000 0.00 0.00 0.00 3.71
154 155 1.132262 CAGAAGCTCCTCGTCTGTCTC 59.868 57.143 4.48 0.00 43.41 3.36
155 156 1.173043 CAGAAGCTCCTCGTCTGTCT 58.827 55.000 4.48 0.00 43.41 3.41
156 157 0.172352 CCAGAAGCTCCTCGTCTGTC 59.828 60.000 10.65 0.00 45.81 3.51
157 158 0.540830 ACCAGAAGCTCCTCGTCTGT 60.541 55.000 10.65 0.00 45.81 3.41
158 159 0.108898 CACCAGAAGCTCCTCGTCTG 60.109 60.000 5.52 5.52 46.49 3.51
159 160 1.882989 GCACCAGAAGCTCCTCGTCT 61.883 60.000 0.00 0.00 33.73 4.18
160 161 1.446966 GCACCAGAAGCTCCTCGTC 60.447 63.158 0.00 0.00 0.00 4.20
161 162 2.659610 GCACCAGAAGCTCCTCGT 59.340 61.111 0.00 0.00 0.00 4.18
162 163 2.125350 GGCACCAGAAGCTCCTCG 60.125 66.667 0.00 0.00 0.00 4.63
163 164 1.078567 CAGGCACCAGAAGCTCCTC 60.079 63.158 0.00 0.00 0.00 3.71
164 165 2.600729 CCAGGCACCAGAAGCTCCT 61.601 63.158 0.00 0.00 0.00 3.69
165 166 1.553690 TACCAGGCACCAGAAGCTCC 61.554 60.000 0.00 0.00 0.00 4.70
166 167 0.391793 GTACCAGGCACCAGAAGCTC 60.392 60.000 0.00 0.00 0.00 4.09
167 168 1.127567 TGTACCAGGCACCAGAAGCT 61.128 55.000 0.00 0.00 0.00 3.74
168 169 0.250727 TTGTACCAGGCACCAGAAGC 60.251 55.000 0.00 0.00 0.00 3.86
169 170 1.523758 GTTGTACCAGGCACCAGAAG 58.476 55.000 0.00 0.00 0.00 2.85
170 171 0.250124 CGTTGTACCAGGCACCAGAA 60.250 55.000 0.00 0.00 0.00 3.02
171 172 1.116536 TCGTTGTACCAGGCACCAGA 61.117 55.000 0.00 0.00 0.00 3.86
172 173 0.949105 GTCGTTGTACCAGGCACCAG 60.949 60.000 0.00 0.00 0.00 4.00
173 174 1.070105 GTCGTTGTACCAGGCACCA 59.930 57.895 0.00 0.00 0.00 4.17
174 175 2.025418 CGTCGTTGTACCAGGCACC 61.025 63.158 0.00 0.00 0.00 5.01
175 176 2.664436 GCGTCGTTGTACCAGGCAC 61.664 63.158 0.00 0.00 0.00 5.01
176 177 2.356553 GCGTCGTTGTACCAGGCA 60.357 61.111 0.00 0.00 0.00 4.75
177 178 3.116531 GGCGTCGTTGTACCAGGC 61.117 66.667 0.00 0.00 0.00 4.85
178 179 2.025418 GTGGCGTCGTTGTACCAGG 61.025 63.158 0.00 0.00 31.46 4.45
179 180 1.282248 CTGTGGCGTCGTTGTACCAG 61.282 60.000 0.00 0.00 31.46 4.00
180 181 1.300311 CTGTGGCGTCGTTGTACCA 60.300 57.895 0.00 0.00 0.00 3.25
181 182 1.007038 TCTGTGGCGTCGTTGTACC 60.007 57.895 0.00 0.00 0.00 3.34
182 183 0.039798 TCTCTGTGGCGTCGTTGTAC 60.040 55.000 0.00 0.00 0.00 2.90
183 184 0.669619 TTCTCTGTGGCGTCGTTGTA 59.330 50.000 0.00 0.00 0.00 2.41
184 185 0.874607 GTTCTCTGTGGCGTCGTTGT 60.875 55.000 0.00 0.00 0.00 3.32
185 186 1.853319 GTTCTCTGTGGCGTCGTTG 59.147 57.895 0.00 0.00 0.00 4.10
186 187 1.660575 CGTTCTCTGTGGCGTCGTT 60.661 57.895 0.00 0.00 0.00 3.85
187 188 2.050351 CGTTCTCTGTGGCGTCGT 60.050 61.111 0.00 0.00 0.00 4.34
188 189 2.805353 CCGTTCTCTGTGGCGTCG 60.805 66.667 0.00 0.00 0.00 5.12
189 190 3.112709 GCCGTTCTCTGTGGCGTC 61.113 66.667 0.00 0.00 39.30 5.19
199 200 0.885196 GTCACAGAGAGAGCCGTTCT 59.115 55.000 0.00 0.00 39.43 3.01
200 201 0.455295 CGTCACAGAGAGAGCCGTTC 60.455 60.000 0.00 0.00 0.00 3.95
201 202 0.889638 TCGTCACAGAGAGAGCCGTT 60.890 55.000 0.00 0.00 0.00 4.44
202 203 1.302591 TCGTCACAGAGAGAGCCGT 60.303 57.895 0.00 0.00 0.00 5.68
203 204 1.135731 GTCGTCACAGAGAGAGCCG 59.864 63.158 0.00 0.00 0.00 5.52
204 205 0.170116 CAGTCGTCACAGAGAGAGCC 59.830 60.000 0.00 0.00 0.00 4.70
205 206 0.455972 GCAGTCGTCACAGAGAGAGC 60.456 60.000 0.00 0.00 0.00 4.09
206 207 0.179202 CGCAGTCGTCACAGAGAGAG 60.179 60.000 0.00 0.00 0.00 3.20
207 208 1.869690 CGCAGTCGTCACAGAGAGA 59.130 57.895 0.00 0.00 0.00 3.10
208 209 1.799519 GCGCAGTCGTCACAGAGAG 60.800 63.158 0.30 0.00 38.14 3.20
209 210 2.255554 GCGCAGTCGTCACAGAGA 59.744 61.111 0.30 0.00 38.14 3.10
210 211 2.050077 TGCGCAGTCGTCACAGAG 60.050 61.111 5.66 0.00 38.14 3.35
211 212 2.354656 GTGCGCAGTCGTCACAGA 60.355 61.111 12.22 0.00 40.14 3.41
212 213 2.658268 TGTGCGCAGTCGTCACAG 60.658 61.111 12.22 0.00 42.81 3.66
213 214 2.065906 TAGTGTGCGCAGTCGTCACA 62.066 55.000 24.42 10.22 44.19 3.58
214 215 1.337817 CTAGTGTGCGCAGTCGTCAC 61.338 60.000 12.22 15.67 40.50 3.67
215 216 1.081442 CTAGTGTGCGCAGTCGTCA 60.081 57.895 12.22 0.58 38.14 4.35
216 217 0.167470 TACTAGTGTGCGCAGTCGTC 59.833 55.000 12.22 0.00 38.14 4.20
217 218 0.168348 CTACTAGTGTGCGCAGTCGT 59.832 55.000 12.22 13.97 38.14 4.34
218 219 0.446616 TCTACTAGTGTGCGCAGTCG 59.553 55.000 12.22 8.05 39.07 4.18
219 220 2.631418 TTCTACTAGTGTGCGCAGTC 57.369 50.000 12.22 7.04 0.00 3.51
220 221 3.380479 TTTTCTACTAGTGTGCGCAGT 57.620 42.857 12.22 13.04 0.00 4.40
221 222 3.123621 CCTTTTTCTACTAGTGTGCGCAG 59.876 47.826 12.22 0.00 0.00 5.18
222 223 3.064207 CCTTTTTCTACTAGTGTGCGCA 58.936 45.455 5.66 5.66 0.00 6.09
356 357 0.107268 AACCTTTAGCACCGGTTCGT 59.893 50.000 2.97 0.00 36.32 3.85
357 358 1.997606 CTAACCTTTAGCACCGGTTCG 59.002 52.381 2.97 0.00 41.09 3.95
358 359 1.736126 GCTAACCTTTAGCACCGGTTC 59.264 52.381 2.97 0.00 41.09 3.62
359 360 1.612462 GGCTAACCTTTAGCACCGGTT 60.612 52.381 2.97 0.00 43.10 4.44
360 361 0.035725 GGCTAACCTTTAGCACCGGT 60.036 55.000 17.42 0.00 42.06 5.28
361 362 0.035820 TGGCTAACCTTTAGCACCGG 60.036 55.000 17.42 0.00 42.06 5.28
362 363 1.084289 GTGGCTAACCTTTAGCACCG 58.916 55.000 17.42 0.00 42.06 4.94
363 364 1.084289 CGTGGCTAACCTTTAGCACC 58.916 55.000 17.42 7.76 42.06 5.01
364 365 2.088950 TCGTGGCTAACCTTTAGCAC 57.911 50.000 17.42 12.64 42.06 4.40
365 366 2.419667 GTTCGTGGCTAACCTTTAGCA 58.580 47.619 17.42 3.86 42.06 3.49
366 367 1.736126 GGTTCGTGGCTAACCTTTAGC 59.264 52.381 9.08 9.08 42.63 3.09
367 368 1.997606 CGGTTCGTGGCTAACCTTTAG 59.002 52.381 12.80 0.00 43.55 1.85
368 369 1.338011 CCGGTTCGTGGCTAACCTTTA 60.338 52.381 12.80 0.00 43.55 1.85
369 370 0.604511 CCGGTTCGTGGCTAACCTTT 60.605 55.000 12.80 0.00 43.55 3.11
370 371 1.004200 CCGGTTCGTGGCTAACCTT 60.004 57.895 12.80 0.00 43.55 3.50
371 372 0.899717 TACCGGTTCGTGGCTAACCT 60.900 55.000 15.04 0.00 43.55 3.50
372 373 0.737367 GTACCGGTTCGTGGCTAACC 60.737 60.000 15.04 6.84 42.52 2.85
373 374 0.244721 AGTACCGGTTCGTGGCTAAC 59.755 55.000 15.04 0.15 0.00 2.34
374 375 1.832883 TAGTACCGGTTCGTGGCTAA 58.167 50.000 15.04 0.00 0.00 3.09
375 376 1.832883 TTAGTACCGGTTCGTGGCTA 58.167 50.000 15.04 3.58 0.00 3.93
376 377 1.134907 CATTAGTACCGGTTCGTGGCT 60.135 52.381 15.04 4.60 0.00 4.75
846 854 2.026157 GGACGATGCGAGCGATCA 59.974 61.111 0.00 0.00 0.00 2.92
981 989 6.942532 ACCATGGCACTATGTATAACAAAG 57.057 37.500 13.04 0.00 0.00 2.77
1133 1141 2.361438 CCGGTTCACATACCTCCTAGAC 59.639 54.545 0.00 0.00 35.97 2.59
1542 1550 5.819379 GCATCGGTCATCATATATCCATTGT 59.181 40.000 0.00 0.00 0.00 2.71
1551 1559 2.499289 GGGAGAGCATCGGTCATCATAT 59.501 50.000 0.00 0.00 42.67 1.78
1554 1562 1.402896 GGGGAGAGCATCGGTCATCA 61.403 60.000 0.00 0.00 42.67 3.07
1658 1666 4.876107 AGTAATTGCGACCATTCTTACAGG 59.124 41.667 0.00 0.00 0.00 4.00
1757 1765 5.492524 TCTTCCATCATAACCCCTCTTTCTT 59.507 40.000 0.00 0.00 0.00 2.52
2069 2079 0.105760 AATTCCAGTGTGGTGCCCAA 60.106 50.000 0.00 0.00 39.03 4.12
2098 2108 4.225942 TCAGATACACCATTCTCTGCCTTT 59.774 41.667 0.00 0.00 36.04 3.11


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

AutoCloner maintained by Alex Coulton.