Multiple sequence alignment - TraesCS3A01G526300

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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 TraesCS3A01G526300 chr3A 100.000 3442 0 0 1 3442 739991477 739994918 0.000000e+00 6357
1 TraesCS3A01G526300 chr3A 86.378 624 47 17 278 876 708951741 708952351 0.000000e+00 647
2 TraesCS3A01G526300 chr3A 99.468 188 1 0 277 464 740005698 740005885 3.290000e-90 342
3 TraesCS3A01G526300 chr4A 99.147 3166 25 2 278 3442 715997608 715994444 0.000000e+00 5696
4 TraesCS3A01G526300 chr4A 98.642 3166 39 2 278 3442 628611878 628615040 0.000000e+00 5605
5 TraesCS3A01G526300 chr4A 96.293 3075 100 7 369 3442 45412360 45415421 0.000000e+00 5035
6 TraesCS3A01G526300 chr4A 87.723 2688 293 25 776 3435 58508188 58510866 0.000000e+00 3101
7 TraesCS3A01G526300 chr4A 99.468 188 1 0 277 464 628617029 628617216 3.290000e-90 342
8 TraesCS3A01G526300 chr4A 99.468 188 1 0 277 464 715992456 715992269 3.290000e-90 342
9 TraesCS3A01G526300 chr5A 98.835 3176 33 4 270 3442 673547663 673544489 0.000000e+00 5657
10 TraesCS3A01G526300 chr2D 88.460 2695 274 20 776 3437 46693253 46690563 0.000000e+00 3219
11 TraesCS3A01G526300 chr7D 88.344 2694 276 16 776 3437 615778994 615781681 0.000000e+00 3201
12 TraesCS3A01G526300 chr7D 97.872 188 4 0 277 464 94112834 94113021 3.310000e-85 326
13 TraesCS3A01G526300 chr6B 88.089 2695 280 24 776 3435 712152415 712155103 0.000000e+00 3160
14 TraesCS3A01G526300 chr6A 87.528 2678 290 23 789 3439 563383972 563386632 0.000000e+00 3055
15 TraesCS3A01G526300 chr3B 87.231 2694 289 34 776 3437 465858358 465861028 0.000000e+00 3018
16 TraesCS3A01G526300 chr5D 87.932 2403 252 18 776 3146 41777148 41779544 0.000000e+00 2796
17 TraesCS3A01G526300 chr6D 86.975 1881 209 17 776 2624 429474334 429476210 0.000000e+00 2084
18 TraesCS3A01G526300 chr3D 88.889 99 9 2 1 98 607667385 607667482 1.680000e-23 121


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 TraesCS3A01G526300 chr3A 739991477 739994918 3441 False 6357.0 6357 100.0000 1 3442 1 chr3A.!!$F2 3441
1 TraesCS3A01G526300 chr3A 708951741 708952351 610 False 647.0 647 86.3780 278 876 1 chr3A.!!$F1 598
2 TraesCS3A01G526300 chr4A 45412360 45415421 3061 False 5035.0 5035 96.2930 369 3442 1 chr4A.!!$F1 3073
3 TraesCS3A01G526300 chr4A 58508188 58510866 2678 False 3101.0 3101 87.7230 776 3435 1 chr4A.!!$F2 2659
4 TraesCS3A01G526300 chr4A 715992269 715997608 5339 True 3019.0 5696 99.3075 277 3442 2 chr4A.!!$R1 3165
5 TraesCS3A01G526300 chr4A 628611878 628617216 5338 False 2973.5 5605 99.0550 277 3442 2 chr4A.!!$F3 3165
6 TraesCS3A01G526300 chr5A 673544489 673547663 3174 True 5657.0 5657 98.8350 270 3442 1 chr5A.!!$R1 3172
7 TraesCS3A01G526300 chr2D 46690563 46693253 2690 True 3219.0 3219 88.4600 776 3437 1 chr2D.!!$R1 2661
8 TraesCS3A01G526300 chr7D 615778994 615781681 2687 False 3201.0 3201 88.3440 776 3437 1 chr7D.!!$F2 2661
9 TraesCS3A01G526300 chr6B 712152415 712155103 2688 False 3160.0 3160 88.0890 776 3435 1 chr6B.!!$F1 2659
10 TraesCS3A01G526300 chr6A 563383972 563386632 2660 False 3055.0 3055 87.5280 789 3439 1 chr6A.!!$F1 2650
11 TraesCS3A01G526300 chr3B 465858358 465861028 2670 False 3018.0 3018 87.2310 776 3437 1 chr3B.!!$F1 2661
12 TraesCS3A01G526300 chr5D 41777148 41779544 2396 False 2796.0 2796 87.9320 776 3146 1 chr5D.!!$F1 2370
13 TraesCS3A01G526300 chr6D 429474334 429476210 1876 False 2084.0 2084 86.9750 776 2624 1 chr6D.!!$F1 1848

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
206 207 0.034896 ACTGCCTGGTTCGTTCGATT 59.965 50.0 0.00 0.0 0.00 3.34 F
560 564 0.104120 CGGCTATCGGTGGTGATTGA 59.896 55.0 0.00 0.0 34.75 2.57 F
1897 1972 0.476771 AAAAGGGAAGTCTCGGCCAA 59.523 50.0 2.24 0.0 0.00 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1897 1972 1.151810 TTGCTCCCTGAACTCCCCT 60.152 57.895 0.0 0.0 0.00 4.79 R
2167 2242 7.931948 AGGTGTATAGGAAGTGAATAAATTCGG 59.068 37.037 0.0 0.0 39.62 4.30 R
2983 3062 1.408702 ACGCTCTGCAACACCATTTTT 59.591 42.857 0.0 0.0 0.00 1.94 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
18 19 1.731700 TAGTACGAGCCACCATCGC 59.268 57.895 0.00 0.00 43.91 4.58
19 20 0.750546 TAGTACGAGCCACCATCGCT 60.751 55.000 0.00 0.00 43.91 4.93
20 21 1.878522 GTACGAGCCACCATCGCTG 60.879 63.158 0.00 0.00 43.91 5.18
21 22 3.716539 TACGAGCCACCATCGCTGC 62.717 63.158 0.00 0.00 43.91 5.25
23 24 4.783621 GAGCCACCATCGCTGCCA 62.784 66.667 0.00 0.00 36.48 4.92
24 25 4.119363 AGCCACCATCGCTGCCAT 62.119 61.111 0.00 0.00 34.56 4.40
25 26 2.203195 GCCACCATCGCTGCCATA 60.203 61.111 0.00 0.00 0.00 2.74
26 27 2.256591 GCCACCATCGCTGCCATAG 61.257 63.158 0.00 0.00 0.00 2.23
27 28 1.598962 CCACCATCGCTGCCATAGG 60.599 63.158 0.00 0.00 0.00 2.57
45 46 3.690745 CCTTGGCAGGCTTCTTGG 58.309 61.111 0.00 0.00 31.53 3.61
46 47 1.980772 CCTTGGCAGGCTTCTTGGG 60.981 63.158 0.00 0.00 31.53 4.12
47 48 2.601367 TTGGCAGGCTTCTTGGGC 60.601 61.111 0.00 0.00 0.00 5.36
49 50 4.722700 GGCAGGCTTCTTGGGCGA 62.723 66.667 0.00 0.00 36.85 5.54
50 51 3.435186 GCAGGCTTCTTGGGCGAC 61.435 66.667 0.00 0.00 36.85 5.19
51 52 2.032528 CAGGCTTCTTGGGCGACA 59.967 61.111 0.00 0.00 36.85 4.35
52 53 2.037136 CAGGCTTCTTGGGCGACAG 61.037 63.158 0.00 0.00 36.85 3.51
53 54 2.747855 GGCTTCTTGGGCGACAGG 60.748 66.667 0.00 0.00 0.00 4.00
54 55 2.032681 GCTTCTTGGGCGACAGGT 59.967 61.111 0.00 0.00 0.00 4.00
55 56 2.035442 GCTTCTTGGGCGACAGGTC 61.035 63.158 0.00 0.00 0.00 3.85
56 57 1.376037 CTTCTTGGGCGACAGGTCC 60.376 63.158 0.00 0.00 42.42 4.46
61 62 4.408821 GGGCGACAGGTCCATGCA 62.409 66.667 0.00 0.00 41.38 3.96
62 63 3.127533 GGCGACAGGTCCATGCAC 61.128 66.667 0.00 0.00 0.00 4.57
63 64 2.358615 GCGACAGGTCCATGCACA 60.359 61.111 0.00 0.00 0.00 4.57
64 65 1.746615 GCGACAGGTCCATGCACAT 60.747 57.895 0.00 0.00 0.00 3.21
65 66 1.985447 GCGACAGGTCCATGCACATG 61.985 60.000 0.00 0.00 38.51 3.21
66 67 0.391528 CGACAGGTCCATGCACATGA 60.392 55.000 8.70 0.00 41.20 3.07
67 68 1.089920 GACAGGTCCATGCACATGAC 58.910 55.000 8.70 0.00 41.20 3.06
68 69 0.694771 ACAGGTCCATGCACATGACT 59.305 50.000 8.70 4.72 41.20 3.41
69 70 1.074405 ACAGGTCCATGCACATGACTT 59.926 47.619 8.70 0.00 41.20 3.01
70 71 1.741706 CAGGTCCATGCACATGACTTC 59.258 52.381 12.18 0.00 41.20 3.01
71 72 0.729116 GGTCCATGCACATGACTTCG 59.271 55.000 12.18 0.00 41.20 3.79
72 73 0.729116 GTCCATGCACATGACTTCGG 59.271 55.000 12.18 0.00 41.20 4.30
73 74 1.026182 TCCATGCACATGACTTCGGC 61.026 55.000 12.18 0.00 41.20 5.54
74 75 1.061411 CATGCACATGACTTCGGCG 59.939 57.895 0.00 0.00 41.20 6.46
75 76 2.108514 ATGCACATGACTTCGGCGG 61.109 57.895 7.21 0.00 0.00 6.13
76 77 2.742372 GCACATGACTTCGGCGGT 60.742 61.111 7.21 0.00 0.00 5.68
77 78 3.027170 GCACATGACTTCGGCGGTG 62.027 63.158 7.21 6.44 0.00 4.94
78 79 2.047274 ACATGACTTCGGCGGTGG 60.047 61.111 7.21 0.00 0.00 4.61
79 80 2.047274 CATGACTTCGGCGGTGGT 60.047 61.111 7.21 3.30 0.00 4.16
80 81 1.216977 CATGACTTCGGCGGTGGTA 59.783 57.895 7.21 0.00 0.00 3.25
81 82 0.806102 CATGACTTCGGCGGTGGTAG 60.806 60.000 7.21 0.00 0.00 3.18
82 83 1.255667 ATGACTTCGGCGGTGGTAGT 61.256 55.000 7.21 3.13 0.00 2.73
83 84 1.445582 GACTTCGGCGGTGGTAGTG 60.446 63.158 7.21 0.00 0.00 2.74
84 85 2.813908 CTTCGGCGGTGGTAGTGC 60.814 66.667 7.21 0.00 0.00 4.40
85 86 4.728102 TTCGGCGGTGGTAGTGCG 62.728 66.667 7.21 0.00 0.00 5.34
99 100 2.594013 TGCGCTGCACCATTGTGA 60.594 55.556 9.73 0.00 45.76 3.58
100 101 1.972752 TGCGCTGCACCATTGTGAT 60.973 52.632 9.73 0.00 45.76 3.06
101 102 1.226491 GCGCTGCACCATTGTGATC 60.226 57.895 0.00 0.00 45.76 2.92
102 103 1.925415 GCGCTGCACCATTGTGATCA 61.925 55.000 0.00 0.00 45.76 2.92
103 104 0.098200 CGCTGCACCATTGTGATCAG 59.902 55.000 0.14 1.02 45.76 2.90
104 105 0.454600 GCTGCACCATTGTGATCAGG 59.545 55.000 0.14 0.00 45.76 3.86
105 106 1.951895 GCTGCACCATTGTGATCAGGA 60.952 52.381 5.76 0.00 45.76 3.86
106 107 2.651455 CTGCACCATTGTGATCAGGAT 58.349 47.619 5.76 0.00 45.76 3.24
107 108 2.357952 CTGCACCATTGTGATCAGGATG 59.642 50.000 5.76 8.18 45.76 3.51
108 109 2.026075 TGCACCATTGTGATCAGGATGA 60.026 45.455 16.18 0.00 46.64 2.92
109 110 2.617308 GCACCATTGTGATCAGGATGAG 59.383 50.000 16.18 10.83 46.11 2.90
110 111 3.683564 GCACCATTGTGATCAGGATGAGA 60.684 47.826 16.18 0.00 46.11 3.27
111 112 4.520179 CACCATTGTGATCAGGATGAGAA 58.480 43.478 16.18 0.00 42.67 2.87
112 113 4.945543 CACCATTGTGATCAGGATGAGAAA 59.054 41.667 16.18 0.00 42.67 2.52
113 114 5.416639 CACCATTGTGATCAGGATGAGAAAA 59.583 40.000 16.18 0.00 42.67 2.29
114 115 6.071784 CACCATTGTGATCAGGATGAGAAAAA 60.072 38.462 16.18 0.00 42.67 1.94
115 116 8.051583 CACCATTGTGATCAGGATGAGAAAAAC 61.052 40.741 16.18 0.00 42.67 2.43
122 123 5.673337 TCAGGATGAGAAAAACGTTCTTG 57.327 39.130 0.00 0.00 42.56 3.02
123 124 4.515191 TCAGGATGAGAAAAACGTTCTTGG 59.485 41.667 0.00 0.00 42.56 3.61
124 125 3.253432 AGGATGAGAAAAACGTTCTTGGC 59.747 43.478 0.00 0.00 0.00 4.52
125 126 2.748461 TGAGAAAAACGTTCTTGGCG 57.252 45.000 0.00 0.00 0.00 5.69
126 127 2.011222 TGAGAAAAACGTTCTTGGCGT 58.989 42.857 0.00 0.00 45.07 5.68
127 128 2.223157 TGAGAAAAACGTTCTTGGCGTG 60.223 45.455 0.00 0.00 42.10 5.34
128 129 1.064952 AGAAAAACGTTCTTGGCGTGG 59.935 47.619 0.00 0.00 42.10 4.94
129 130 0.101579 AAAAACGTTCTTGGCGTGGG 59.898 50.000 0.00 0.00 42.10 4.61
130 131 0.748729 AAAACGTTCTTGGCGTGGGA 60.749 50.000 0.00 0.00 42.10 4.37
131 132 1.164041 AAACGTTCTTGGCGTGGGAG 61.164 55.000 0.00 0.00 42.10 4.30
132 133 2.035237 AACGTTCTTGGCGTGGGAGA 62.035 55.000 0.00 0.00 42.10 3.71
133 134 1.738099 CGTTCTTGGCGTGGGAGAG 60.738 63.158 0.00 0.00 0.00 3.20
134 135 1.376037 GTTCTTGGCGTGGGAGAGG 60.376 63.158 0.00 0.00 0.00 3.69
135 136 1.535444 TTCTTGGCGTGGGAGAGGA 60.535 57.895 0.00 0.00 0.00 3.71
136 137 1.544825 TTCTTGGCGTGGGAGAGGAG 61.545 60.000 0.00 0.00 0.00 3.69
137 138 3.003173 TTGGCGTGGGAGAGGAGG 61.003 66.667 0.00 0.00 0.00 4.30
138 139 3.539593 TTGGCGTGGGAGAGGAGGA 62.540 63.158 0.00 0.00 0.00 3.71
139 140 2.683933 GGCGTGGGAGAGGAGGAA 60.684 66.667 0.00 0.00 0.00 3.36
140 141 2.291043 GGCGTGGGAGAGGAGGAAA 61.291 63.158 0.00 0.00 0.00 3.13
141 142 1.677552 GCGTGGGAGAGGAGGAAAA 59.322 57.895 0.00 0.00 0.00 2.29
142 143 0.391793 GCGTGGGAGAGGAGGAAAAG 60.392 60.000 0.00 0.00 0.00 2.27
143 144 0.250513 CGTGGGAGAGGAGGAAAAGG 59.749 60.000 0.00 0.00 0.00 3.11
144 145 1.363246 GTGGGAGAGGAGGAAAAGGT 58.637 55.000 0.00 0.00 0.00 3.50
145 146 1.003696 GTGGGAGAGGAGGAAAAGGTG 59.996 57.143 0.00 0.00 0.00 4.00
146 147 0.621082 GGGAGAGGAGGAAAAGGTGG 59.379 60.000 0.00 0.00 0.00 4.61
147 148 0.034960 GGAGAGGAGGAAAAGGTGGC 60.035 60.000 0.00 0.00 0.00 5.01
148 149 0.391793 GAGAGGAGGAAAAGGTGGCG 60.392 60.000 0.00 0.00 0.00 5.69
149 150 1.377333 GAGGAGGAAAAGGTGGCGG 60.377 63.158 0.00 0.00 0.00 6.13
150 151 3.062466 GGAGGAAAAGGTGGCGGC 61.062 66.667 0.00 0.00 0.00 6.53
151 152 3.062466 GAGGAAAAGGTGGCGGCC 61.062 66.667 13.32 13.32 0.00 6.13
154 155 2.981350 GAAAAGGTGGCGGCCGAA 60.981 61.111 33.48 14.13 0.00 4.30
155 156 2.978018 GAAAAGGTGGCGGCCGAAG 61.978 63.158 33.48 0.00 0.00 3.79
171 172 3.160777 CGAAGGGTGCGTATTTCTAGT 57.839 47.619 0.00 0.00 0.00 2.57
172 173 3.518590 CGAAGGGTGCGTATTTCTAGTT 58.481 45.455 0.00 0.00 0.00 2.24
173 174 3.306166 CGAAGGGTGCGTATTTCTAGTTG 59.694 47.826 0.00 0.00 0.00 3.16
174 175 4.501071 GAAGGGTGCGTATTTCTAGTTGA 58.499 43.478 0.00 0.00 0.00 3.18
175 176 4.755266 AGGGTGCGTATTTCTAGTTGAT 57.245 40.909 0.00 0.00 0.00 2.57
176 177 4.442706 AGGGTGCGTATTTCTAGTTGATG 58.557 43.478 0.00 0.00 0.00 3.07
177 178 3.002348 GGGTGCGTATTTCTAGTTGATGC 59.998 47.826 0.00 0.00 0.00 3.91
178 179 3.871594 GGTGCGTATTTCTAGTTGATGCT 59.128 43.478 0.00 0.00 0.00 3.79
179 180 4.260375 GGTGCGTATTTCTAGTTGATGCTG 60.260 45.833 0.00 0.00 0.00 4.41
180 181 3.871006 TGCGTATTTCTAGTTGATGCTGG 59.129 43.478 0.00 0.00 0.00 4.85
181 182 3.871594 GCGTATTTCTAGTTGATGCTGGT 59.128 43.478 0.00 0.00 0.00 4.00
182 183 4.260375 GCGTATTTCTAGTTGATGCTGGTG 60.260 45.833 0.00 0.00 0.00 4.17
183 184 4.260375 CGTATTTCTAGTTGATGCTGGTGC 60.260 45.833 0.00 0.00 40.20 5.01
184 185 2.113860 TTCTAGTTGATGCTGGTGCC 57.886 50.000 0.00 0.00 38.71 5.01
185 186 1.279496 TCTAGTTGATGCTGGTGCCT 58.721 50.000 0.00 0.00 38.71 4.75
186 187 1.065926 TCTAGTTGATGCTGGTGCCTG 60.066 52.381 0.00 0.00 38.71 4.85
187 188 0.983467 TAGTTGATGCTGGTGCCTGA 59.017 50.000 0.00 0.00 38.71 3.86
188 189 0.607489 AGTTGATGCTGGTGCCTGAC 60.607 55.000 0.00 0.00 38.71 3.51
189 190 0.607489 GTTGATGCTGGTGCCTGACT 60.607 55.000 0.00 0.00 38.71 3.41
190 191 0.607217 TTGATGCTGGTGCCTGACTG 60.607 55.000 0.00 0.00 38.71 3.51
191 192 2.360852 ATGCTGGTGCCTGACTGC 60.361 61.111 0.00 0.00 38.71 4.40
192 193 3.933048 ATGCTGGTGCCTGACTGCC 62.933 63.158 0.00 0.00 38.71 4.85
193 194 4.341783 GCTGGTGCCTGACTGCCT 62.342 66.667 0.00 0.00 0.00 4.75
194 195 2.359602 CTGGTGCCTGACTGCCTG 60.360 66.667 0.00 0.00 0.00 4.85
195 196 3.914579 CTGGTGCCTGACTGCCTGG 62.915 68.421 0.00 0.00 36.99 4.45
196 197 3.958860 GGTGCCTGACTGCCTGGT 61.959 66.667 0.00 0.00 36.37 4.00
197 198 2.113986 GTGCCTGACTGCCTGGTT 59.886 61.111 0.00 0.00 36.37 3.67
198 199 1.968540 GTGCCTGACTGCCTGGTTC 60.969 63.158 0.00 0.00 36.37 3.62
199 200 2.743928 GCCTGACTGCCTGGTTCG 60.744 66.667 0.00 0.00 36.37 3.95
200 201 2.743718 CCTGACTGCCTGGTTCGT 59.256 61.111 0.00 0.00 0.00 3.85
201 202 1.071471 CCTGACTGCCTGGTTCGTT 59.929 57.895 0.00 0.00 0.00 3.85
202 203 0.951040 CCTGACTGCCTGGTTCGTTC 60.951 60.000 0.00 0.00 0.00 3.95
203 204 1.284982 CTGACTGCCTGGTTCGTTCG 61.285 60.000 0.00 0.00 0.00 3.95
204 205 1.006571 GACTGCCTGGTTCGTTCGA 60.007 57.895 0.00 0.00 0.00 3.71
205 206 0.389948 GACTGCCTGGTTCGTTCGAT 60.390 55.000 0.00 0.00 0.00 3.59
206 207 0.034896 ACTGCCTGGTTCGTTCGATT 59.965 50.000 0.00 0.00 0.00 3.34
207 208 1.274167 ACTGCCTGGTTCGTTCGATTA 59.726 47.619 0.00 0.00 0.00 1.75
208 209 1.927174 CTGCCTGGTTCGTTCGATTAG 59.073 52.381 0.00 0.00 0.00 1.73
209 210 1.287425 GCCTGGTTCGTTCGATTAGG 58.713 55.000 12.26 12.26 0.00 2.69
210 211 1.134907 GCCTGGTTCGTTCGATTAGGA 60.135 52.381 17.44 0.00 0.00 2.94
211 212 2.483188 GCCTGGTTCGTTCGATTAGGAT 60.483 50.000 17.44 0.00 0.00 3.24
212 213 3.243636 GCCTGGTTCGTTCGATTAGGATA 60.244 47.826 17.44 0.00 0.00 2.59
213 214 4.738541 GCCTGGTTCGTTCGATTAGGATAA 60.739 45.833 17.44 0.00 0.00 1.75
214 215 4.982916 CCTGGTTCGTTCGATTAGGATAAG 59.017 45.833 11.59 0.00 0.00 1.73
215 216 4.940463 TGGTTCGTTCGATTAGGATAAGG 58.060 43.478 0.00 0.00 0.00 2.69
216 217 4.646040 TGGTTCGTTCGATTAGGATAAGGA 59.354 41.667 0.00 0.00 0.00 3.36
217 218 5.303589 TGGTTCGTTCGATTAGGATAAGGAT 59.696 40.000 0.00 0.00 0.00 3.24
218 219 6.183360 TGGTTCGTTCGATTAGGATAAGGATT 60.183 38.462 0.00 0.00 0.00 3.01
219 220 6.145696 GGTTCGTTCGATTAGGATAAGGATTG 59.854 42.308 0.00 0.00 0.00 2.67
220 221 6.401047 TCGTTCGATTAGGATAAGGATTGT 57.599 37.500 0.00 0.00 0.00 2.71
221 222 6.812998 TCGTTCGATTAGGATAAGGATTGTT 58.187 36.000 0.00 0.00 0.00 2.83
222 223 7.270047 TCGTTCGATTAGGATAAGGATTGTTT 58.730 34.615 0.00 0.00 0.00 2.83
223 224 7.223971 TCGTTCGATTAGGATAAGGATTGTTTG 59.776 37.037 0.00 0.00 0.00 2.93
224 225 7.011109 CGTTCGATTAGGATAAGGATTGTTTGT 59.989 37.037 0.00 0.00 0.00 2.83
225 226 8.674607 GTTCGATTAGGATAAGGATTGTTTGTT 58.325 33.333 0.00 0.00 0.00 2.83
226 227 8.433421 TCGATTAGGATAAGGATTGTTTGTTC 57.567 34.615 0.00 0.00 0.00 3.18
227 228 8.265055 TCGATTAGGATAAGGATTGTTTGTTCT 58.735 33.333 0.00 0.00 0.00 3.01
228 229 9.542462 CGATTAGGATAAGGATTGTTTGTTCTA 57.458 33.333 0.00 0.00 0.00 2.10
251 252 9.485206 TCTAACTAATTATCCCATTTTACTCGC 57.515 33.333 0.00 0.00 0.00 5.03
252 253 9.490379 CTAACTAATTATCCCATTTTACTCGCT 57.510 33.333 0.00 0.00 0.00 4.93
253 254 7.964604 ACTAATTATCCCATTTTACTCGCTC 57.035 36.000 0.00 0.00 0.00 5.03
254 255 5.924475 AATTATCCCATTTTACTCGCTCG 57.076 39.130 0.00 0.00 0.00 5.03
255 256 1.583054 ATCCCATTTTACTCGCTCGC 58.417 50.000 0.00 0.00 0.00 5.03
256 257 0.535335 TCCCATTTTACTCGCTCGCT 59.465 50.000 0.00 0.00 0.00 4.93
257 258 0.931005 CCCATTTTACTCGCTCGCTC 59.069 55.000 0.00 0.00 0.00 5.03
258 259 0.572590 CCATTTTACTCGCTCGCTCG 59.427 55.000 0.00 0.00 0.00 5.03
259 260 1.545759 CATTTTACTCGCTCGCTCGA 58.454 50.000 0.00 0.00 36.94 4.04
265 266 3.814991 TCGCTCGCTCGAGAGATT 58.185 55.556 19.49 0.00 44.00 2.40
266 267 2.987752 TCGCTCGCTCGAGAGATTA 58.012 52.632 19.49 5.33 44.00 1.75
267 268 0.862490 TCGCTCGCTCGAGAGATTAG 59.138 55.000 19.49 13.10 44.00 1.73
268 269 0.724453 CGCTCGCTCGAGAGATTAGC 60.724 60.000 19.49 17.33 43.22 3.09
269 270 0.591170 GCTCGCTCGAGAGATTAGCT 59.409 55.000 19.49 0.00 44.53 3.32
270 271 1.001815 GCTCGCTCGAGAGATTAGCTT 60.002 52.381 19.49 0.00 44.53 3.74
271 272 2.224549 GCTCGCTCGAGAGATTAGCTTA 59.775 50.000 19.49 0.00 44.53 3.09
272 273 3.805823 CTCGCTCGAGAGATTAGCTTAC 58.194 50.000 19.49 0.00 44.53 2.34
273 274 2.221286 TCGCTCGAGAGATTAGCTTACG 59.779 50.000 18.75 5.45 40.84 3.18
274 275 2.221286 CGCTCGAGAGATTAGCTTACGA 59.779 50.000 18.75 0.00 40.84 3.43
275 276 3.120477 CGCTCGAGAGATTAGCTTACGAT 60.120 47.826 18.75 0.00 40.84 3.73
324 325 6.111669 AGGTGACTTCTTAGGGACTAAAAC 57.888 41.667 0.00 0.00 45.60 2.43
560 564 0.104120 CGGCTATCGGTGGTGATTGA 59.896 55.000 0.00 0.00 34.75 2.57
706 712 2.416431 GGTATTTGCCGTACTCTGACGT 60.416 50.000 0.00 0.00 41.31 4.34
1374 1449 3.905784 AGCTTTGGAGAAGCAATTTTCG 58.094 40.909 12.66 0.00 45.30 3.46
1481 1556 5.181009 TGCTGGTGAGATAAAGAGATTGTG 58.819 41.667 0.00 0.00 0.00 3.33
1542 1617 5.587443 TGACAAGAATGACATGGCTATTCAG 59.413 40.000 19.44 15.07 34.18 3.02
1897 1972 0.476771 AAAAGGGAAGTCTCGGCCAA 59.523 50.000 2.24 0.00 0.00 4.52
2167 2242 2.567615 ACTAACCACATGACAGGAGTCC 59.432 50.000 0.00 0.00 44.33 3.85
2983 3062 3.305720 ACCTGTGTTAACACTCCAGAGA 58.694 45.455 32.58 14.60 46.55 3.10
3122 3201 4.746535 TGATAAACCGTATGCCTCTTCA 57.253 40.909 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.052690 AGCGATGGTGGCTCGTACT 61.053 57.895 0.00 0.00 35.37 2.73
2 3 1.878522 CAGCGATGGTGGCTCGTAC 60.879 63.158 0.00 0.00 39.08 3.67
9 10 1.598962 CCTATGGCAGCGATGGTGG 60.599 63.158 1.46 0.00 0.00 4.61
10 11 4.054085 CCTATGGCAGCGATGGTG 57.946 61.111 1.46 0.00 0.00 4.17
29 30 2.643232 GCCCAAGAAGCCTGCCAAG 61.643 63.158 0.00 0.00 0.00 3.61
30 31 2.601367 GCCCAAGAAGCCTGCCAA 60.601 61.111 0.00 0.00 0.00 4.52
32 33 4.722700 TCGCCCAAGAAGCCTGCC 62.723 66.667 0.00 0.00 0.00 4.85
33 34 3.435186 GTCGCCCAAGAAGCCTGC 61.435 66.667 0.00 0.00 0.00 4.85
34 35 2.032528 TGTCGCCCAAGAAGCCTG 59.967 61.111 0.00 0.00 0.00 4.85
35 36 2.348998 CTGTCGCCCAAGAAGCCT 59.651 61.111 0.00 0.00 0.00 4.58
36 37 2.747855 CCTGTCGCCCAAGAAGCC 60.748 66.667 0.00 0.00 0.00 4.35
37 38 2.032681 ACCTGTCGCCCAAGAAGC 59.967 61.111 0.00 0.00 0.00 3.86
38 39 1.376037 GGACCTGTCGCCCAAGAAG 60.376 63.158 0.00 0.00 0.00 2.85
39 40 1.488705 ATGGACCTGTCGCCCAAGAA 61.489 55.000 0.00 0.00 33.15 2.52
40 41 1.918293 ATGGACCTGTCGCCCAAGA 60.918 57.895 0.00 0.00 33.15 3.02
41 42 1.746615 CATGGACCTGTCGCCCAAG 60.747 63.158 0.00 0.00 33.15 3.61
42 43 2.350895 CATGGACCTGTCGCCCAA 59.649 61.111 0.00 0.00 33.15 4.12
43 44 4.408821 GCATGGACCTGTCGCCCA 62.409 66.667 0.00 0.00 0.00 5.36
44 45 4.408821 TGCATGGACCTGTCGCCC 62.409 66.667 0.00 0.00 0.00 6.13
45 46 3.127533 GTGCATGGACCTGTCGCC 61.128 66.667 5.98 0.00 0.00 5.54
46 47 1.746615 ATGTGCATGGACCTGTCGC 60.747 57.895 15.34 0.00 0.00 5.19
47 48 0.391528 TCATGTGCATGGACCTGTCG 60.392 55.000 19.17 3.09 39.24 4.35
48 49 1.089920 GTCATGTGCATGGACCTGTC 58.910 55.000 19.17 12.03 39.24 3.51
49 50 0.694771 AGTCATGTGCATGGACCTGT 59.305 50.000 19.17 1.92 39.24 4.00
50 51 1.741706 GAAGTCATGTGCATGGACCTG 59.258 52.381 15.34 15.15 39.24 4.00
51 52 1.676916 CGAAGTCATGTGCATGGACCT 60.677 52.381 15.34 1.48 39.24 3.85
52 53 0.729116 CGAAGTCATGTGCATGGACC 59.271 55.000 15.34 0.00 39.24 4.46
53 54 0.729116 CCGAAGTCATGTGCATGGAC 59.271 55.000 10.90 10.90 39.24 4.02
54 55 1.026182 GCCGAAGTCATGTGCATGGA 61.026 55.000 11.68 0.00 39.24 3.41
55 56 1.430632 GCCGAAGTCATGTGCATGG 59.569 57.895 11.68 0.00 39.24 3.66
56 57 1.061411 CGCCGAAGTCATGTGCATG 59.939 57.895 5.86 5.86 40.09 4.06
57 58 2.108514 CCGCCGAAGTCATGTGCAT 61.109 57.895 0.00 0.00 0.00 3.96
58 59 2.741985 CCGCCGAAGTCATGTGCA 60.742 61.111 0.00 0.00 0.00 4.57
59 60 2.742372 ACCGCCGAAGTCATGTGC 60.742 61.111 0.00 0.00 0.00 4.57
60 61 2.390599 CCACCGCCGAAGTCATGTG 61.391 63.158 0.00 0.00 0.00 3.21
61 62 1.537814 TACCACCGCCGAAGTCATGT 61.538 55.000 0.00 0.00 0.00 3.21
62 63 0.806102 CTACCACCGCCGAAGTCATG 60.806 60.000 0.00 0.00 0.00 3.07
63 64 1.255667 ACTACCACCGCCGAAGTCAT 61.256 55.000 0.00 0.00 0.00 3.06
64 65 1.904865 ACTACCACCGCCGAAGTCA 60.905 57.895 0.00 0.00 0.00 3.41
65 66 1.445582 CACTACCACCGCCGAAGTC 60.446 63.158 0.00 0.00 0.00 3.01
66 67 2.654877 CACTACCACCGCCGAAGT 59.345 61.111 0.00 0.00 0.00 3.01
67 68 2.813908 GCACTACCACCGCCGAAG 60.814 66.667 0.00 0.00 0.00 3.79
68 69 4.728102 CGCACTACCACCGCCGAA 62.728 66.667 0.00 0.00 0.00 4.30
82 83 1.925415 GATCACAATGGTGCAGCGCA 61.925 55.000 11.47 0.00 44.87 6.09
83 84 1.226491 GATCACAATGGTGCAGCGC 60.226 57.895 11.91 0.00 44.87 5.92
84 85 0.098200 CTGATCACAATGGTGCAGCG 59.902 55.000 11.91 0.00 44.87 5.18
85 86 0.454600 CCTGATCACAATGGTGCAGC 59.545 55.000 9.47 9.47 44.87 5.25
86 87 2.118313 TCCTGATCACAATGGTGCAG 57.882 50.000 0.00 0.00 44.87 4.41
87 88 2.026075 TCATCCTGATCACAATGGTGCA 60.026 45.455 11.01 0.00 44.87 4.57
88 89 2.617308 CTCATCCTGATCACAATGGTGC 59.383 50.000 11.01 0.00 44.87 5.01
89 90 4.146745 TCTCATCCTGATCACAATGGTG 57.853 45.455 11.01 0.00 46.66 4.17
90 91 4.849813 TTCTCATCCTGATCACAATGGT 57.150 40.909 11.01 0.00 0.00 3.55
91 92 6.327934 GTTTTTCTCATCCTGATCACAATGG 58.672 40.000 11.01 3.16 0.00 3.16
92 93 6.025896 CGTTTTTCTCATCCTGATCACAATG 58.974 40.000 0.00 0.00 0.00 2.82
93 94 5.707298 ACGTTTTTCTCATCCTGATCACAAT 59.293 36.000 0.00 0.00 0.00 2.71
94 95 5.063204 ACGTTTTTCTCATCCTGATCACAA 58.937 37.500 0.00 0.00 0.00 3.33
95 96 4.641396 ACGTTTTTCTCATCCTGATCACA 58.359 39.130 0.00 0.00 0.00 3.58
96 97 5.409826 AGAACGTTTTTCTCATCCTGATCAC 59.590 40.000 0.46 0.00 0.00 3.06
97 98 5.551233 AGAACGTTTTTCTCATCCTGATCA 58.449 37.500 0.46 0.00 0.00 2.92
98 99 6.310197 CAAGAACGTTTTTCTCATCCTGATC 58.690 40.000 0.46 0.00 0.00 2.92
99 100 5.182001 CCAAGAACGTTTTTCTCATCCTGAT 59.818 40.000 0.46 0.00 0.00 2.90
100 101 4.515191 CCAAGAACGTTTTTCTCATCCTGA 59.485 41.667 0.46 0.00 0.00 3.86
101 102 4.787598 CCAAGAACGTTTTTCTCATCCTG 58.212 43.478 0.46 0.00 0.00 3.86
102 103 3.253432 GCCAAGAACGTTTTTCTCATCCT 59.747 43.478 0.46 0.00 0.00 3.24
103 104 3.565516 GCCAAGAACGTTTTTCTCATCC 58.434 45.455 0.46 0.00 0.00 3.51
104 105 3.226347 CGCCAAGAACGTTTTTCTCATC 58.774 45.455 0.46 0.00 0.00 2.92
105 106 2.616842 ACGCCAAGAACGTTTTTCTCAT 59.383 40.909 0.46 0.00 41.93 2.90
106 107 2.011222 ACGCCAAGAACGTTTTTCTCA 58.989 42.857 0.46 0.00 41.93 3.27
107 108 2.372350 CACGCCAAGAACGTTTTTCTC 58.628 47.619 0.46 0.00 42.96 2.87
108 109 1.064952 CCACGCCAAGAACGTTTTTCT 59.935 47.619 0.46 0.00 42.96 2.52
109 110 1.472990 CCACGCCAAGAACGTTTTTC 58.527 50.000 0.46 0.00 42.96 2.29
110 111 0.101579 CCCACGCCAAGAACGTTTTT 59.898 50.000 0.46 0.00 42.96 1.94
111 112 0.748729 TCCCACGCCAAGAACGTTTT 60.749 50.000 0.46 0.00 42.96 2.43
112 113 1.153127 TCCCACGCCAAGAACGTTT 60.153 52.632 0.46 0.00 42.96 3.60
113 114 1.597027 CTCCCACGCCAAGAACGTT 60.597 57.895 0.00 0.00 42.96 3.99
114 115 2.030562 CTCCCACGCCAAGAACGT 59.969 61.111 0.00 0.00 46.42 3.99
115 116 1.738099 CTCTCCCACGCCAAGAACG 60.738 63.158 0.00 0.00 0.00 3.95
116 117 1.376037 CCTCTCCCACGCCAAGAAC 60.376 63.158 0.00 0.00 0.00 3.01
117 118 1.535444 TCCTCTCCCACGCCAAGAA 60.535 57.895 0.00 0.00 0.00 2.52
118 119 1.984570 CTCCTCTCCCACGCCAAGA 60.985 63.158 0.00 0.00 0.00 3.02
119 120 2.581354 CTCCTCTCCCACGCCAAG 59.419 66.667 0.00 0.00 0.00 3.61
120 121 3.003173 CCTCCTCTCCCACGCCAA 61.003 66.667 0.00 0.00 0.00 4.52
121 122 3.539593 TTCCTCCTCTCCCACGCCA 62.540 63.158 0.00 0.00 0.00 5.69
122 123 1.838073 TTTTCCTCCTCTCCCACGCC 61.838 60.000 0.00 0.00 0.00 5.68
123 124 0.391793 CTTTTCCTCCTCTCCCACGC 60.392 60.000 0.00 0.00 0.00 5.34
124 125 0.250513 CCTTTTCCTCCTCTCCCACG 59.749 60.000 0.00 0.00 0.00 4.94
125 126 1.003696 CACCTTTTCCTCCTCTCCCAC 59.996 57.143 0.00 0.00 0.00 4.61
126 127 1.362224 CACCTTTTCCTCCTCTCCCA 58.638 55.000 0.00 0.00 0.00 4.37
127 128 0.621082 CCACCTTTTCCTCCTCTCCC 59.379 60.000 0.00 0.00 0.00 4.30
128 129 0.034960 GCCACCTTTTCCTCCTCTCC 60.035 60.000 0.00 0.00 0.00 3.71
129 130 0.391793 CGCCACCTTTTCCTCCTCTC 60.392 60.000 0.00 0.00 0.00 3.20
130 131 1.679898 CGCCACCTTTTCCTCCTCT 59.320 57.895 0.00 0.00 0.00 3.69
131 132 1.377333 CCGCCACCTTTTCCTCCTC 60.377 63.158 0.00 0.00 0.00 3.71
132 133 2.757077 CCGCCACCTTTTCCTCCT 59.243 61.111 0.00 0.00 0.00 3.69
133 134 3.062466 GCCGCCACCTTTTCCTCC 61.062 66.667 0.00 0.00 0.00 4.30
134 135 3.062466 GGCCGCCACCTTTTCCTC 61.062 66.667 3.91 0.00 0.00 3.71
137 138 2.978018 CTTCGGCCGCCACCTTTTC 61.978 63.158 23.51 0.00 0.00 2.29
138 139 2.983592 CTTCGGCCGCCACCTTTT 60.984 61.111 23.51 0.00 0.00 2.27
147 148 4.524318 ATACGCACCCTTCGGCCG 62.524 66.667 22.12 22.12 34.37 6.13
148 149 1.712018 GAAATACGCACCCTTCGGCC 61.712 60.000 0.00 0.00 0.00 6.13
149 150 0.743345 AGAAATACGCACCCTTCGGC 60.743 55.000 0.00 0.00 0.00 5.54
150 151 2.159142 ACTAGAAATACGCACCCTTCGG 60.159 50.000 0.00 0.00 0.00 4.30
151 152 3.160777 ACTAGAAATACGCACCCTTCG 57.839 47.619 0.00 0.00 0.00 3.79
152 153 4.501071 TCAACTAGAAATACGCACCCTTC 58.499 43.478 0.00 0.00 0.00 3.46
153 154 4.546829 TCAACTAGAAATACGCACCCTT 57.453 40.909 0.00 0.00 0.00 3.95
154 155 4.442706 CATCAACTAGAAATACGCACCCT 58.557 43.478 0.00 0.00 0.00 4.34
155 156 3.002348 GCATCAACTAGAAATACGCACCC 59.998 47.826 0.00 0.00 0.00 4.61
156 157 3.871594 AGCATCAACTAGAAATACGCACC 59.128 43.478 0.00 0.00 0.00 5.01
157 158 4.260375 CCAGCATCAACTAGAAATACGCAC 60.260 45.833 0.00 0.00 0.00 5.34
158 159 3.871006 CCAGCATCAACTAGAAATACGCA 59.129 43.478 0.00 0.00 0.00 5.24
159 160 3.871594 ACCAGCATCAACTAGAAATACGC 59.128 43.478 0.00 0.00 0.00 4.42
160 161 4.260375 GCACCAGCATCAACTAGAAATACG 60.260 45.833 0.00 0.00 41.58 3.06
161 162 4.035675 GGCACCAGCATCAACTAGAAATAC 59.964 45.833 0.00 0.00 44.61 1.89
162 163 4.080356 AGGCACCAGCATCAACTAGAAATA 60.080 41.667 0.00 0.00 44.61 1.40
163 164 3.019564 GGCACCAGCATCAACTAGAAAT 58.980 45.455 0.00 0.00 44.61 2.17
164 165 2.040278 AGGCACCAGCATCAACTAGAAA 59.960 45.455 0.00 0.00 44.61 2.52
165 166 1.630369 AGGCACCAGCATCAACTAGAA 59.370 47.619 0.00 0.00 44.61 2.10
166 167 1.065926 CAGGCACCAGCATCAACTAGA 60.066 52.381 0.00 0.00 44.61 2.43
167 168 1.065926 TCAGGCACCAGCATCAACTAG 60.066 52.381 0.00 0.00 44.61 2.57
168 169 0.983467 TCAGGCACCAGCATCAACTA 59.017 50.000 0.00 0.00 44.61 2.24
169 170 0.607489 GTCAGGCACCAGCATCAACT 60.607 55.000 0.00 0.00 44.61 3.16
170 171 0.607489 AGTCAGGCACCAGCATCAAC 60.607 55.000 0.00 0.00 44.61 3.18
171 172 0.607217 CAGTCAGGCACCAGCATCAA 60.607 55.000 0.00 0.00 44.61 2.57
172 173 1.002990 CAGTCAGGCACCAGCATCA 60.003 57.895 0.00 0.00 44.61 3.07
173 174 2.404995 GCAGTCAGGCACCAGCATC 61.405 63.158 0.00 0.00 44.61 3.91
174 175 2.360852 GCAGTCAGGCACCAGCAT 60.361 61.111 0.00 0.00 44.61 3.79
175 176 4.648626 GGCAGTCAGGCACCAGCA 62.649 66.667 0.00 0.00 44.61 4.41
182 183 2.743928 CGAACCAGGCAGTCAGGC 60.744 66.667 0.00 0.00 44.61 4.85
183 184 0.951040 GAACGAACCAGGCAGTCAGG 60.951 60.000 0.00 0.00 0.00 3.86
184 185 1.284982 CGAACGAACCAGGCAGTCAG 61.285 60.000 0.00 0.00 0.00 3.51
185 186 1.300620 CGAACGAACCAGGCAGTCA 60.301 57.895 0.00 0.00 0.00 3.41
186 187 0.389948 ATCGAACGAACCAGGCAGTC 60.390 55.000 0.12 0.00 0.00 3.51
187 188 0.034896 AATCGAACGAACCAGGCAGT 59.965 50.000 0.12 0.00 0.00 4.40
188 189 1.927174 CTAATCGAACGAACCAGGCAG 59.073 52.381 0.12 0.00 0.00 4.85
189 190 1.404986 CCTAATCGAACGAACCAGGCA 60.405 52.381 0.12 0.00 0.00 4.75
190 191 1.134907 TCCTAATCGAACGAACCAGGC 60.135 52.381 13.42 0.00 0.00 4.85
191 192 2.953466 TCCTAATCGAACGAACCAGG 57.047 50.000 0.12 8.09 0.00 4.45
192 193 4.982916 CCTTATCCTAATCGAACGAACCAG 59.017 45.833 0.12 0.00 0.00 4.00
193 194 4.646040 TCCTTATCCTAATCGAACGAACCA 59.354 41.667 0.12 0.00 0.00 3.67
194 195 5.192327 TCCTTATCCTAATCGAACGAACC 57.808 43.478 0.12 0.00 0.00 3.62
195 196 6.700520 ACAATCCTTATCCTAATCGAACGAAC 59.299 38.462 0.12 0.00 0.00 3.95
196 197 6.812998 ACAATCCTTATCCTAATCGAACGAA 58.187 36.000 0.12 0.00 0.00 3.85
197 198 6.401047 ACAATCCTTATCCTAATCGAACGA 57.599 37.500 0.00 0.00 0.00 3.85
198 199 7.011109 ACAAACAATCCTTATCCTAATCGAACG 59.989 37.037 0.00 0.00 0.00 3.95
199 200 8.209917 ACAAACAATCCTTATCCTAATCGAAC 57.790 34.615 0.00 0.00 0.00 3.95
200 201 8.801882 AACAAACAATCCTTATCCTAATCGAA 57.198 30.769 0.00 0.00 0.00 3.71
201 202 8.265055 AGAACAAACAATCCTTATCCTAATCGA 58.735 33.333 0.00 0.00 0.00 3.59
202 203 8.438676 AGAACAAACAATCCTTATCCTAATCG 57.561 34.615 0.00 0.00 0.00 3.34
225 226 9.485206 GCGAGTAAAATGGGATAATTAGTTAGA 57.515 33.333 0.00 0.00 0.00 2.10
226 227 9.490379 AGCGAGTAAAATGGGATAATTAGTTAG 57.510 33.333 0.00 0.00 0.00 2.34
227 228 9.485206 GAGCGAGTAAAATGGGATAATTAGTTA 57.515 33.333 0.00 0.00 0.00 2.24
228 229 7.170998 CGAGCGAGTAAAATGGGATAATTAGTT 59.829 37.037 0.00 0.00 0.00 2.24
229 230 6.645415 CGAGCGAGTAAAATGGGATAATTAGT 59.355 38.462 0.00 0.00 0.00 2.24
230 231 6.401153 GCGAGCGAGTAAAATGGGATAATTAG 60.401 42.308 0.00 0.00 0.00 1.73
231 232 5.407387 GCGAGCGAGTAAAATGGGATAATTA 59.593 40.000 0.00 0.00 0.00 1.40
232 233 4.213482 GCGAGCGAGTAAAATGGGATAATT 59.787 41.667 0.00 0.00 0.00 1.40
233 234 3.746492 GCGAGCGAGTAAAATGGGATAAT 59.254 43.478 0.00 0.00 0.00 1.28
234 235 3.128349 GCGAGCGAGTAAAATGGGATAA 58.872 45.455 0.00 0.00 0.00 1.75
235 236 2.364324 AGCGAGCGAGTAAAATGGGATA 59.636 45.455 0.00 0.00 0.00 2.59
236 237 1.139058 AGCGAGCGAGTAAAATGGGAT 59.861 47.619 0.00 0.00 0.00 3.85
237 238 0.535335 AGCGAGCGAGTAAAATGGGA 59.465 50.000 0.00 0.00 0.00 4.37
238 239 0.931005 GAGCGAGCGAGTAAAATGGG 59.069 55.000 0.00 0.00 0.00 4.00
239 240 0.572590 CGAGCGAGCGAGTAAAATGG 59.427 55.000 0.00 0.00 0.00 3.16
240 241 1.545759 TCGAGCGAGCGAGTAAAATG 58.454 50.000 0.00 0.00 35.01 2.32
248 249 0.862490 CTAATCTCTCGAGCGAGCGA 59.138 55.000 13.95 13.95 41.71 4.93
249 250 0.724453 GCTAATCTCTCGAGCGAGCG 60.724 60.000 14.61 9.16 41.71 5.03
250 251 0.591170 AGCTAATCTCTCGAGCGAGC 59.409 55.000 14.61 8.91 41.71 5.03
251 252 3.663233 CGTAAGCTAATCTCTCGAGCGAG 60.663 52.174 11.28 13.36 41.23 5.03
252 253 2.221286 CGTAAGCTAATCTCTCGAGCGA 59.779 50.000 7.70 7.70 41.23 4.93
253 254 2.221286 TCGTAAGCTAATCTCTCGAGCG 59.779 50.000 7.81 0.48 41.23 5.03
254 255 3.881780 TCGTAAGCTAATCTCTCGAGC 57.118 47.619 7.81 0.00 36.42 5.03
255 256 5.143660 CACATCGTAAGCTAATCTCTCGAG 58.856 45.833 5.93 5.93 34.93 4.04
256 257 4.575236 ACACATCGTAAGCTAATCTCTCGA 59.425 41.667 0.00 0.00 35.53 4.04
257 258 4.849883 ACACATCGTAAGCTAATCTCTCG 58.150 43.478 0.00 0.00 37.18 4.04
258 259 5.460419 CCAACACATCGTAAGCTAATCTCTC 59.540 44.000 0.00 0.00 37.18 3.20
259 260 5.105310 ACCAACACATCGTAAGCTAATCTCT 60.105 40.000 0.00 0.00 37.18 3.10
260 261 5.005779 CACCAACACATCGTAAGCTAATCTC 59.994 44.000 0.00 0.00 37.18 2.75
261 262 4.870426 CACCAACACATCGTAAGCTAATCT 59.130 41.667 0.00 0.00 37.18 2.40
262 263 4.630069 ACACCAACACATCGTAAGCTAATC 59.370 41.667 0.00 0.00 37.18 1.75
263 264 4.575885 ACACCAACACATCGTAAGCTAAT 58.424 39.130 0.00 0.00 37.18 1.73
264 265 3.997762 ACACCAACACATCGTAAGCTAA 58.002 40.909 0.00 0.00 37.18 3.09
265 266 3.671008 ACACCAACACATCGTAAGCTA 57.329 42.857 0.00 0.00 37.18 3.32
266 267 2.543777 ACACCAACACATCGTAAGCT 57.456 45.000 0.00 0.00 37.18 3.74
267 268 3.930229 TCATACACCAACACATCGTAAGC 59.070 43.478 0.00 0.00 37.18 3.09
268 269 6.662414 ATTCATACACCAACACATCGTAAG 57.338 37.500 0.00 0.00 0.00 2.34
269 270 8.608317 CAATATTCATACACCAACACATCGTAA 58.392 33.333 0.00 0.00 0.00 3.18
270 271 7.766738 ACAATATTCATACACCAACACATCGTA 59.233 33.333 0.00 0.00 0.00 3.43
271 272 6.597672 ACAATATTCATACACCAACACATCGT 59.402 34.615 0.00 0.00 0.00 3.73
272 273 7.015226 ACAATATTCATACACCAACACATCG 57.985 36.000 0.00 0.00 0.00 3.84
560 564 4.447989 AGCAGCTCGAGTGCGCAT 62.448 61.111 24.38 1.95 46.06 4.73
706 712 1.733402 CGCACCAAGCAGTTTCCCAA 61.733 55.000 0.00 0.00 46.13 4.12
1374 1449 5.052481 GCCTGCATCTTATTTGATTTTCCC 58.948 41.667 0.00 0.00 0.00 3.97
1481 1556 3.287222 TGGTAATAATGCAACTCCCTGC 58.713 45.455 0.00 0.00 42.95 4.85
1897 1972 1.151810 TTGCTCCCTGAACTCCCCT 60.152 57.895 0.00 0.00 0.00 4.79
2167 2242 7.931948 AGGTGTATAGGAAGTGAATAAATTCGG 59.068 37.037 0.00 0.00 39.62 4.30
2983 3062 1.408702 ACGCTCTGCAACACCATTTTT 59.591 42.857 0.00 0.00 0.00 1.94
3122 3201 4.223923 CAGGAGTCTTATGACCAAGAACCT 59.776 45.833 5.19 6.89 43.91 3.50


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

AutoCloner maintained by Alex Coulton.