Multiple sequence alignment - TraesCS6B01G132800

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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 TraesCS6B01G132800 chr6B 100.000 1794 0 0 651 2444 129700708 129702501 0.000000e+00 3314.0
1 TraesCS6B01G132800 chr6B 100.000 274 0 0 1 274 129700058 129700331 7.800000e-140 507.0
2 TraesCS6B01G132800 chr6B 98.540 274 3 1 1 274 318977236 318977508 1.310000e-132 483.0
3 TraesCS6B01G132800 chr6B 98.175 274 4 1 1 274 432044242 432043970 6.110000e-131 477.0
4 TraesCS6B01G132800 chr3B 96.278 1800 61 6 651 2444 367032868 367031069 0.000000e+00 2948.0
5 TraesCS6B01G132800 chr3B 95.439 1798 75 7 651 2444 379653337 379655131 0.000000e+00 2859.0
6 TraesCS6B01G132800 chr3B 98.175 274 4 1 1 274 368301206 368301478 6.110000e-131 477.0
7 TraesCS6B01G132800 chr5B 93.134 1806 87 13 651 2444 328273399 328275179 0.000000e+00 2614.0
8 TraesCS6B01G132800 chr3A 92.758 1795 122 8 654 2444 128659563 128657773 0.000000e+00 2588.0
9 TraesCS6B01G132800 chr3A 92.308 39 3 0 655 693 326197374 326197336 3.390000e-04 56.5
10 TraesCS6B01G132800 chr4A 92.269 1798 131 8 651 2444 566589995 566588202 0.000000e+00 2543.0
11 TraesCS6B01G132800 chr4A 92.068 1765 132 8 651 2411 566610697 566608937 0.000000e+00 2477.0
12 TraesCS6B01G132800 chr2A 92.205 1796 120 6 651 2444 276858498 276860275 0.000000e+00 2523.0
13 TraesCS6B01G132800 chr2A 91.720 157 12 1 2279 2435 596774651 596774496 1.470000e-52 217.0
14 TraesCS6B01G132800 chr2A 90.506 158 12 3 2279 2435 131912320 131912165 3.190000e-49 206.0
15 TraesCS6B01G132800 chr2A 87.952 83 10 0 653 735 374137302 374137384 5.560000e-17 99.0
16 TraesCS6B01G132800 chr2A 88.060 67 8 0 651 717 520052783 520052849 2.010000e-11 80.5
17 TraesCS6B01G132800 chr5A 90.721 1789 136 19 659 2444 136568028 136569789 0.000000e+00 2357.0
18 TraesCS6B01G132800 chr6D 92.569 1561 86 8 888 2444 17043132 17041598 0.000000e+00 2213.0
19 TraesCS6B01G132800 chr4B 98.540 274 3 1 1 274 99003013 99003285 1.310000e-132 483.0
20 TraesCS6B01G132800 chr4B 97.810 274 5 1 1 274 218609085 218608813 2.840000e-129 472.0
21 TraesCS6B01G132800 chr4B 97.810 274 5 1 1 274 447478860 447479132 2.840000e-129 472.0
22 TraesCS6B01G132800 chr7B 98.175 274 4 1 1 274 413011503 413011231 6.110000e-131 477.0
23 TraesCS6B01G132800 chr7B 98.175 274 4 1 1 274 458408943 458409215 6.110000e-131 477.0
24 TraesCS6B01G132800 chr2B 98.175 274 4 1 1 274 362067943 362067671 6.110000e-131 477.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G132800 chr6B 129700058 129702501 2443 False 1910.5 3314 100.000 1 2444 2 chr6B.!!$F2 2443
1 TraesCS6B01G132800 chr3B 367031069 367032868 1799 True 2948.0 2948 96.278 651 2444 1 chr3B.!!$R1 1793
2 TraesCS6B01G132800 chr3B 379653337 379655131 1794 False 2859.0 2859 95.439 651 2444 1 chr3B.!!$F2 1793
3 TraesCS6B01G132800 chr5B 328273399 328275179 1780 False 2614.0 2614 93.134 651 2444 1 chr5B.!!$F1 1793
4 TraesCS6B01G132800 chr3A 128657773 128659563 1790 True 2588.0 2588 92.758 654 2444 1 chr3A.!!$R1 1790
5 TraesCS6B01G132800 chr4A 566588202 566589995 1793 True 2543.0 2543 92.269 651 2444 1 chr4A.!!$R1 1793
6 TraesCS6B01G132800 chr4A 566608937 566610697 1760 True 2477.0 2477 92.068 651 2411 1 chr4A.!!$R2 1760
7 TraesCS6B01G132800 chr2A 276858498 276860275 1777 False 2523.0 2523 92.205 651 2444 1 chr2A.!!$F1 1793
8 TraesCS6B01G132800 chr5A 136568028 136569789 1761 False 2357.0 2357 90.721 659 2444 1 chr5A.!!$F1 1785
9 TraesCS6B01G132800 chr6D 17041598 17043132 1534 True 2213.0 2213 92.569 888 2444 1 chr6D.!!$R1 1556

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
98 99 0.039035 GGTCCACATACAAGGGGCAA 59.961 55.0 0.0 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1895 1924 2.02813 CTACAACAAACAAGCACCCCA 58.972 47.619 0.0 0.0 0.0 4.96 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
27 28 8.883731 TGACTTATTAGTGCAGAGAAAATAAGC 58.116 33.333 17.49 13.46 40.97 3.09
28 29 9.103861 GACTTATTAGTGCAGAGAAAATAAGCT 57.896 33.333 17.49 10.36 40.97 3.74
29 30 9.454859 ACTTATTAGTGCAGAGAAAATAAGCTT 57.545 29.630 3.48 3.48 40.97 3.74
32 33 7.510549 TTAGTGCAGAGAAAATAAGCTTTGT 57.489 32.000 3.20 0.00 0.00 2.83
33 34 8.615878 TTAGTGCAGAGAAAATAAGCTTTGTA 57.384 30.769 3.20 0.00 0.00 2.41
34 35 7.693969 AGTGCAGAGAAAATAAGCTTTGTAT 57.306 32.000 3.20 0.00 0.00 2.29
35 36 7.533426 AGTGCAGAGAAAATAAGCTTTGTATG 58.467 34.615 3.20 0.00 0.00 2.39
36 37 7.391554 AGTGCAGAGAAAATAAGCTTTGTATGA 59.608 33.333 3.20 0.00 0.00 2.15
37 38 8.023128 GTGCAGAGAAAATAAGCTTTGTATGAA 58.977 33.333 3.20 0.00 0.00 2.57
38 39 8.023128 TGCAGAGAAAATAAGCTTTGTATGAAC 58.977 33.333 3.20 0.00 0.00 3.18
39 40 8.239998 GCAGAGAAAATAAGCTTTGTATGAACT 58.760 33.333 3.20 0.00 0.00 3.01
42 43 9.899226 GAGAAAATAAGCTTTGTATGAACTTGT 57.101 29.630 3.20 0.00 0.00 3.16
45 46 9.816354 AAAATAAGCTTTGTATGAACTTGTTGT 57.184 25.926 3.20 0.00 0.00 3.32
46 47 8.801715 AATAAGCTTTGTATGAACTTGTTGTG 57.198 30.769 3.20 0.00 0.00 3.33
47 48 5.186996 AGCTTTGTATGAACTTGTTGTGG 57.813 39.130 0.00 0.00 0.00 4.17
48 49 4.644685 AGCTTTGTATGAACTTGTTGTGGT 59.355 37.500 0.00 0.00 0.00 4.16
49 50 5.825679 AGCTTTGTATGAACTTGTTGTGGTA 59.174 36.000 0.00 0.00 0.00 3.25
50 51 6.017109 AGCTTTGTATGAACTTGTTGTGGTAG 60.017 38.462 0.00 0.00 0.00 3.18
51 52 6.238648 GCTTTGTATGAACTTGTTGTGGTAGT 60.239 38.462 0.00 0.00 0.00 2.73
52 53 7.041644 GCTTTGTATGAACTTGTTGTGGTAGTA 60.042 37.037 0.00 0.00 0.00 1.82
53 54 8.734218 TTTGTATGAACTTGTTGTGGTAGTAA 57.266 30.769 0.00 0.00 0.00 2.24
54 55 8.911918 TTGTATGAACTTGTTGTGGTAGTAAT 57.088 30.769 0.00 0.00 0.00 1.89
55 56 9.999660 TTGTATGAACTTGTTGTGGTAGTAATA 57.000 29.630 0.00 0.00 0.00 0.98
56 57 9.999660 TGTATGAACTTGTTGTGGTAGTAATAA 57.000 29.630 0.00 0.00 0.00 1.40
60 61 8.347035 TGAACTTGTTGTGGTAGTAATAAAAGC 58.653 33.333 0.00 0.00 0.00 3.51
61 62 6.894828 ACTTGTTGTGGTAGTAATAAAAGCG 58.105 36.000 0.00 0.00 0.00 4.68
62 63 6.707161 ACTTGTTGTGGTAGTAATAAAAGCGA 59.293 34.615 0.00 0.00 0.00 4.93
63 64 6.470557 TGTTGTGGTAGTAATAAAAGCGAC 57.529 37.500 0.00 0.00 0.00 5.19
64 65 5.118971 TGTTGTGGTAGTAATAAAAGCGACG 59.881 40.000 0.00 0.00 0.00 5.12
65 66 4.175516 TGTGGTAGTAATAAAAGCGACGG 58.824 43.478 0.00 0.00 0.00 4.79
66 67 4.082300 TGTGGTAGTAATAAAAGCGACGGA 60.082 41.667 0.00 0.00 0.00 4.69
67 68 4.266265 GTGGTAGTAATAAAAGCGACGGAC 59.734 45.833 0.00 0.00 0.00 4.79
68 69 4.158394 TGGTAGTAATAAAAGCGACGGACT 59.842 41.667 0.00 0.00 0.00 3.85
69 70 4.501921 GGTAGTAATAAAAGCGACGGACTG 59.498 45.833 0.00 0.00 0.00 3.51
70 71 2.928116 AGTAATAAAAGCGACGGACTGC 59.072 45.455 0.00 0.00 0.00 4.40
71 72 1.803334 AATAAAAGCGACGGACTGCA 58.197 45.000 0.00 0.00 0.00 4.41
72 73 2.024176 ATAAAAGCGACGGACTGCAT 57.976 45.000 0.00 0.00 0.00 3.96
73 74 2.658373 TAAAAGCGACGGACTGCATA 57.342 45.000 0.00 0.00 0.00 3.14
74 75 1.803334 AAAAGCGACGGACTGCATAA 58.197 45.000 0.00 0.00 0.00 1.90
75 76 2.024176 AAAGCGACGGACTGCATAAT 57.976 45.000 0.00 0.00 0.00 1.28
76 77 2.882927 AAGCGACGGACTGCATAATA 57.117 45.000 0.00 0.00 0.00 0.98
77 78 2.882927 AGCGACGGACTGCATAATAA 57.117 45.000 0.00 0.00 0.00 1.40
78 79 3.173668 AGCGACGGACTGCATAATAAA 57.826 42.857 0.00 0.00 0.00 1.40
79 80 3.123804 AGCGACGGACTGCATAATAAAG 58.876 45.455 0.00 0.00 0.00 1.85
80 81 2.221055 GCGACGGACTGCATAATAAAGG 59.779 50.000 0.00 0.00 0.00 3.11
81 82 3.454375 CGACGGACTGCATAATAAAGGT 58.546 45.455 0.00 0.00 0.00 3.50
82 83 3.489785 CGACGGACTGCATAATAAAGGTC 59.510 47.826 0.00 0.00 0.00 3.85
83 84 3.805207 ACGGACTGCATAATAAAGGTCC 58.195 45.455 7.29 7.29 39.60 4.46
84 85 3.199071 ACGGACTGCATAATAAAGGTCCA 59.801 43.478 15.34 0.00 42.10 4.02
85 86 3.560068 CGGACTGCATAATAAAGGTCCAC 59.440 47.826 15.34 0.00 42.10 4.02
86 87 4.523083 GGACTGCATAATAAAGGTCCACA 58.477 43.478 11.47 0.00 41.75 4.17
87 88 5.133221 GGACTGCATAATAAAGGTCCACAT 58.867 41.667 11.47 0.00 41.75 3.21
88 89 6.296026 GGACTGCATAATAAAGGTCCACATA 58.704 40.000 11.47 0.00 41.75 2.29
89 90 6.204882 GGACTGCATAATAAAGGTCCACATAC 59.795 42.308 11.47 0.00 41.75 2.39
90 91 6.658849 ACTGCATAATAAAGGTCCACATACA 58.341 36.000 0.00 0.00 0.00 2.29
91 92 7.116075 ACTGCATAATAAAGGTCCACATACAA 58.884 34.615 0.00 0.00 0.00 2.41
92 93 7.283127 ACTGCATAATAAAGGTCCACATACAAG 59.717 37.037 0.00 0.00 0.00 3.16
93 94 6.545666 TGCATAATAAAGGTCCACATACAAGG 59.454 38.462 0.00 0.00 0.00 3.61
94 95 6.016276 GCATAATAAAGGTCCACATACAAGGG 60.016 42.308 0.00 0.00 0.00 3.95
95 96 2.899303 AAAGGTCCACATACAAGGGG 57.101 50.000 0.00 0.00 0.00 4.79
96 97 0.331616 AAGGTCCACATACAAGGGGC 59.668 55.000 0.00 0.00 0.00 5.80
97 98 0.844661 AGGTCCACATACAAGGGGCA 60.845 55.000 0.00 0.00 0.00 5.36
98 99 0.039035 GGTCCACATACAAGGGGCAA 59.961 55.000 0.00 0.00 0.00 4.52
99 100 1.341976 GGTCCACATACAAGGGGCAAT 60.342 52.381 0.00 0.00 0.00 3.56
100 101 2.092103 GGTCCACATACAAGGGGCAATA 60.092 50.000 0.00 0.00 0.00 1.90
101 102 3.436470 GGTCCACATACAAGGGGCAATAT 60.436 47.826 0.00 0.00 0.00 1.28
102 103 4.202524 GGTCCACATACAAGGGGCAATATA 60.203 45.833 0.00 0.00 0.00 0.86
103 104 5.381757 GTCCACATACAAGGGGCAATATAA 58.618 41.667 0.00 0.00 0.00 0.98
104 105 5.830991 GTCCACATACAAGGGGCAATATAAA 59.169 40.000 0.00 0.00 0.00 1.40
105 106 6.016276 GTCCACATACAAGGGGCAATATAAAG 60.016 42.308 0.00 0.00 0.00 1.85
106 107 5.833131 CCACATACAAGGGGCAATATAAAGT 59.167 40.000 0.00 0.00 0.00 2.66
107 108 6.239008 CCACATACAAGGGGCAATATAAAGTG 60.239 42.308 0.00 0.00 0.00 3.16
108 109 6.545666 CACATACAAGGGGCAATATAAAGTGA 59.454 38.462 0.00 0.00 0.00 3.41
109 110 6.546034 ACATACAAGGGGCAATATAAAGTGAC 59.454 38.462 0.00 0.00 0.00 3.67
110 111 3.945285 ACAAGGGGCAATATAAAGTGACG 59.055 43.478 0.00 0.00 25.87 4.35
111 112 3.926058 AGGGGCAATATAAAGTGACGT 57.074 42.857 0.00 0.00 25.87 4.34
112 113 4.230745 AGGGGCAATATAAAGTGACGTT 57.769 40.909 0.00 0.00 25.87 3.99
113 114 4.196971 AGGGGCAATATAAAGTGACGTTC 58.803 43.478 0.00 0.00 25.87 3.95
114 115 4.080526 AGGGGCAATATAAAGTGACGTTCT 60.081 41.667 0.00 0.00 25.87 3.01
115 116 4.638865 GGGGCAATATAAAGTGACGTTCTT 59.361 41.667 0.00 0.00 25.87 2.52
116 117 5.124936 GGGGCAATATAAAGTGACGTTCTTT 59.875 40.000 18.52 18.52 38.45 2.52
117 118 6.349860 GGGGCAATATAAAGTGACGTTCTTTT 60.350 38.462 19.30 9.96 36.65 2.27
118 119 6.526674 GGGCAATATAAAGTGACGTTCTTTTG 59.473 38.462 19.30 14.18 36.65 2.44
119 120 6.033513 GGCAATATAAAGTGACGTTCTTTTGC 59.966 38.462 19.30 19.97 35.75 3.68
120 121 6.580791 GCAATATAAAGTGACGTTCTTTTGCA 59.419 34.615 22.02 10.80 36.15 4.08
121 122 7.273381 GCAATATAAAGTGACGTTCTTTTGCAT 59.727 33.333 22.02 14.75 36.15 3.96
122 123 9.128107 CAATATAAAGTGACGTTCTTTTGCATT 57.872 29.630 19.30 14.33 36.65 3.56
125 126 8.728088 ATAAAGTGACGTTCTTTTGCATTAAG 57.272 30.769 19.30 0.00 36.65 1.85
126 127 6.371809 AAGTGACGTTCTTTTGCATTAAGA 57.628 33.333 7.49 7.49 0.00 2.10
127 128 6.560253 AGTGACGTTCTTTTGCATTAAGAT 57.440 33.333 11.30 0.00 32.09 2.40
128 129 6.970484 AGTGACGTTCTTTTGCATTAAGATT 58.030 32.000 11.30 1.99 32.09 2.40
129 130 7.425606 AGTGACGTTCTTTTGCATTAAGATTT 58.574 30.769 11.30 1.71 32.09 2.17
130 131 7.920682 AGTGACGTTCTTTTGCATTAAGATTTT 59.079 29.630 11.30 1.43 32.09 1.82
131 132 7.998212 GTGACGTTCTTTTGCATTAAGATTTTG 59.002 33.333 11.30 6.02 32.09 2.44
132 133 7.704472 TGACGTTCTTTTGCATTAAGATTTTGT 59.296 29.630 11.30 8.32 32.09 2.83
133 134 7.840489 ACGTTCTTTTGCATTAAGATTTTGTG 58.160 30.769 11.30 3.48 32.09 3.33
134 135 6.787043 CGTTCTTTTGCATTAAGATTTTGTGC 59.213 34.615 11.30 2.47 32.09 4.57
135 136 7.516470 CGTTCTTTTGCATTAAGATTTTGTGCA 60.516 33.333 11.30 6.74 43.33 4.57
136 137 7.966246 TCTTTTGCATTAAGATTTTGTGCAT 57.034 28.000 10.31 0.00 44.27 3.96
137 138 8.020861 TCTTTTGCATTAAGATTTTGTGCATC 57.979 30.769 10.31 0.00 44.27 3.91
138 139 7.656542 TCTTTTGCATTAAGATTTTGTGCATCA 59.343 29.630 10.31 0.00 44.27 3.07
139 140 7.725818 TTTGCATTAAGATTTTGTGCATCAA 57.274 28.000 10.31 0.00 44.27 2.57
140 141 6.709145 TGCATTAAGATTTTGTGCATCAAC 57.291 33.333 6.74 0.00 40.51 3.18
141 142 5.638657 TGCATTAAGATTTTGTGCATCAACC 59.361 36.000 6.74 0.00 40.51 3.77
142 143 5.063817 GCATTAAGATTTTGTGCATCAACCC 59.936 40.000 0.00 0.00 35.61 4.11
143 144 6.400568 CATTAAGATTTTGTGCATCAACCCT 58.599 36.000 0.00 0.00 35.61 4.34
144 145 7.546358 CATTAAGATTTTGTGCATCAACCCTA 58.454 34.615 0.00 0.00 35.61 3.53
145 146 7.531857 TTAAGATTTTGTGCATCAACCCTAA 57.468 32.000 0.00 0.00 35.61 2.69
146 147 6.418057 AAGATTTTGTGCATCAACCCTAAA 57.582 33.333 0.00 0.00 35.61 1.85
147 148 5.783111 AGATTTTGTGCATCAACCCTAAAC 58.217 37.500 0.00 0.00 35.61 2.01
148 149 3.634568 TTTGTGCATCAACCCTAAACG 57.365 42.857 0.00 0.00 35.61 3.60
149 150 0.878416 TGTGCATCAACCCTAAACGC 59.122 50.000 0.00 0.00 0.00 4.84
150 151 0.179200 GTGCATCAACCCTAAACGCG 60.179 55.000 3.53 3.53 0.00 6.01
151 152 1.226295 GCATCAACCCTAAACGCGC 60.226 57.895 5.73 0.00 0.00 6.86
152 153 1.917782 GCATCAACCCTAAACGCGCA 61.918 55.000 5.73 0.00 0.00 6.09
153 154 0.732571 CATCAACCCTAAACGCGCAT 59.267 50.000 5.73 0.00 0.00 4.73
154 155 0.732571 ATCAACCCTAAACGCGCATG 59.267 50.000 5.73 0.00 0.00 4.06
155 156 0.320858 TCAACCCTAAACGCGCATGA 60.321 50.000 5.73 0.00 0.00 3.07
156 157 0.179200 CAACCCTAAACGCGCATGAC 60.179 55.000 5.73 0.00 0.00 3.06
157 158 0.604243 AACCCTAAACGCGCATGACA 60.604 50.000 5.73 0.00 0.00 3.58
158 159 0.604243 ACCCTAAACGCGCATGACAA 60.604 50.000 5.73 0.00 0.00 3.18
159 160 0.179200 CCCTAAACGCGCATGACAAC 60.179 55.000 5.73 0.00 0.00 3.32
160 161 0.179200 CCTAAACGCGCATGACAACC 60.179 55.000 5.73 0.00 0.00 3.77
161 162 0.796312 CTAAACGCGCATGACAACCT 59.204 50.000 5.73 0.00 0.00 3.50
162 163 0.793861 TAAACGCGCATGACAACCTC 59.206 50.000 5.73 0.00 0.00 3.85
163 164 0.884704 AAACGCGCATGACAACCTCT 60.885 50.000 5.73 0.00 0.00 3.69
164 165 1.568612 AACGCGCATGACAACCTCTG 61.569 55.000 5.73 0.00 0.00 3.35
165 166 2.482374 GCGCATGACAACCTCTGC 59.518 61.111 0.30 0.00 0.00 4.26
166 167 2.037136 GCGCATGACAACCTCTGCT 61.037 57.895 0.30 0.00 32.48 4.24
167 168 1.580845 GCGCATGACAACCTCTGCTT 61.581 55.000 0.30 0.00 32.48 3.91
168 169 0.445436 CGCATGACAACCTCTGCTTC 59.555 55.000 0.00 0.00 32.48 3.86
169 170 0.807496 GCATGACAACCTCTGCTTCC 59.193 55.000 0.00 0.00 0.00 3.46
170 171 1.457346 CATGACAACCTCTGCTTCCC 58.543 55.000 0.00 0.00 0.00 3.97
171 172 1.004044 CATGACAACCTCTGCTTCCCT 59.996 52.381 0.00 0.00 0.00 4.20
172 173 0.687354 TGACAACCTCTGCTTCCCTC 59.313 55.000 0.00 0.00 0.00 4.30
173 174 0.980423 GACAACCTCTGCTTCCCTCT 59.020 55.000 0.00 0.00 0.00 3.69
174 175 0.689623 ACAACCTCTGCTTCCCTCTG 59.310 55.000 0.00 0.00 0.00 3.35
175 176 0.676151 CAACCTCTGCTTCCCTCTGC 60.676 60.000 0.00 0.00 0.00 4.26
176 177 2.177594 AACCTCTGCTTCCCTCTGCG 62.178 60.000 0.00 0.00 0.00 5.18
177 178 2.354401 CCTCTGCTTCCCTCTGCGA 61.354 63.158 0.00 0.00 0.00 5.10
178 179 1.593787 CTCTGCTTCCCTCTGCGAA 59.406 57.895 0.00 0.00 0.00 4.70
179 180 0.459934 CTCTGCTTCCCTCTGCGAAG 60.460 60.000 0.00 0.00 39.82 3.79
180 181 1.449246 CTGCTTCCCTCTGCGAAGG 60.449 63.158 0.00 0.00 37.74 3.46
186 187 3.555967 CCTCTGCGAAGGGCCTAT 58.444 61.111 6.41 0.00 42.61 2.57
187 188 1.369321 CCTCTGCGAAGGGCCTATC 59.631 63.158 6.41 6.05 42.61 2.08
188 189 1.118356 CCTCTGCGAAGGGCCTATCT 61.118 60.000 6.41 0.00 42.61 1.98
189 190 0.755686 CTCTGCGAAGGGCCTATCTT 59.244 55.000 6.41 0.00 42.61 2.40
190 191 1.139853 CTCTGCGAAGGGCCTATCTTT 59.860 52.381 6.41 0.00 42.61 2.52
191 192 1.559682 TCTGCGAAGGGCCTATCTTTT 59.440 47.619 6.41 0.00 42.61 2.27
192 193 2.769663 TCTGCGAAGGGCCTATCTTTTA 59.230 45.455 6.41 0.00 42.61 1.52
193 194 3.391296 TCTGCGAAGGGCCTATCTTTTAT 59.609 43.478 6.41 0.00 42.61 1.40
194 195 4.137543 CTGCGAAGGGCCTATCTTTTATT 58.862 43.478 6.41 0.00 42.61 1.40
195 196 5.071250 TCTGCGAAGGGCCTATCTTTTATTA 59.929 40.000 6.41 0.00 42.61 0.98
196 197 5.876357 TGCGAAGGGCCTATCTTTTATTAT 58.124 37.500 6.41 0.00 42.61 1.28
197 198 6.303839 TGCGAAGGGCCTATCTTTTATTATT 58.696 36.000 6.41 0.00 42.61 1.40
198 199 7.455058 TGCGAAGGGCCTATCTTTTATTATTA 58.545 34.615 6.41 0.00 42.61 0.98
199 200 8.107095 TGCGAAGGGCCTATCTTTTATTATTAT 58.893 33.333 6.41 0.00 42.61 1.28
200 201 8.613482 GCGAAGGGCCTATCTTTTATTATTATC 58.387 37.037 6.41 0.00 34.80 1.75
201 202 9.110502 CGAAGGGCCTATCTTTTATTATTATCC 57.889 37.037 6.41 0.00 0.00 2.59
220 221 8.910351 ATTATCCTTTACCTTATGCAAGAGTC 57.090 34.615 0.00 0.00 33.20 3.36
221 222 5.755409 TCCTTTACCTTATGCAAGAGTCA 57.245 39.130 0.00 0.00 33.20 3.41
222 223 5.488341 TCCTTTACCTTATGCAAGAGTCAC 58.512 41.667 0.00 0.00 33.20 3.67
223 224 4.330074 CCTTTACCTTATGCAAGAGTCACG 59.670 45.833 0.00 0.00 33.20 4.35
224 225 2.386661 ACCTTATGCAAGAGTCACGG 57.613 50.000 0.00 0.00 33.20 4.94
225 226 1.623811 ACCTTATGCAAGAGTCACGGT 59.376 47.619 0.00 0.00 33.20 4.83
226 227 2.002586 CCTTATGCAAGAGTCACGGTG 58.997 52.381 0.56 0.56 33.20 4.94
227 228 2.353704 CCTTATGCAAGAGTCACGGTGA 60.354 50.000 6.76 6.76 33.20 4.02
228 229 3.525537 CTTATGCAAGAGTCACGGTGAT 58.474 45.455 14.78 3.53 33.20 3.06
229 230 2.015736 ATGCAAGAGTCACGGTGATC 57.984 50.000 14.78 12.22 0.00 2.92
230 231 0.969149 TGCAAGAGTCACGGTGATCT 59.031 50.000 14.78 14.11 0.00 2.75
231 232 1.344438 TGCAAGAGTCACGGTGATCTT 59.656 47.619 14.78 18.42 30.18 2.40
232 233 1.996191 GCAAGAGTCACGGTGATCTTC 59.004 52.381 21.97 16.67 28.76 2.87
233 234 2.610479 GCAAGAGTCACGGTGATCTTCA 60.610 50.000 21.97 0.00 28.76 3.02
234 235 2.989840 CAAGAGTCACGGTGATCTTCAC 59.010 50.000 21.97 9.14 46.23 3.18
266 267 6.799926 TTTTCATTTTATCCTTTGGCAAGC 57.200 33.333 0.00 0.00 0.00 4.01
267 268 5.743636 TTCATTTTATCCTTTGGCAAGCT 57.256 34.783 0.00 0.00 0.00 3.74
268 269 5.329035 TCATTTTATCCTTTGGCAAGCTC 57.671 39.130 0.00 0.00 0.00 4.09
269 270 4.771577 TCATTTTATCCTTTGGCAAGCTCA 59.228 37.500 0.00 0.00 0.00 4.26
270 271 4.789012 TTTTATCCTTTGGCAAGCTCAG 57.211 40.909 0.00 0.00 0.00 3.35
271 272 1.755179 TATCCTTTGGCAAGCTCAGC 58.245 50.000 0.00 2.65 0.00 4.26
272 273 0.251474 ATCCTTTGGCAAGCTCAGCA 60.251 50.000 12.48 0.00 0.00 4.41
273 274 0.251474 TCCTTTGGCAAGCTCAGCAT 60.251 50.000 12.48 0.00 0.00 3.79
690 691 8.849543 ATTATTCTGTTACCCTACTTGGACTA 57.150 34.615 0.00 0.00 38.35 2.59
794 818 2.574399 GCGAGAAGCGGAAGGAGT 59.426 61.111 0.00 0.00 41.29 3.85
932 956 4.666253 GCAGCAGGGGACTTGGCA 62.666 66.667 0.00 0.00 40.21 4.92
933 957 2.357836 CAGCAGGGGACTTGGCAT 59.642 61.111 0.00 0.00 40.21 4.40
1257 1283 2.988684 GTGAACCCCGCCATGCAA 60.989 61.111 0.00 0.00 0.00 4.08
1285 1311 2.962827 GACGACGACGAGCTCACCA 61.963 63.158 15.32 0.00 42.66 4.17
1425 1451 1.883084 GCCCATACTCAAGGACGCG 60.883 63.158 3.53 3.53 0.00 6.01
1579 1605 5.411831 TGAGATCATGTGAGTTACTGCTT 57.588 39.130 0.00 0.00 0.00 3.91
1780 1809 7.559590 AGCACTGTATAAATCATGTTCCTTC 57.440 36.000 0.00 0.00 0.00 3.46
1794 1823 2.609427 TCCTTCCATCTTGCTCATCG 57.391 50.000 0.00 0.00 0.00 3.84
1870 1899 3.376859 TGATGTTATCACGAAATGGCACC 59.623 43.478 0.00 0.00 33.59 5.01
1913 1942 1.412343 GATGGGGTGCTTGTTTGTTGT 59.588 47.619 0.00 0.00 0.00 3.32
2057 2089 6.531503 TTCATAGACTGGACTTTACTCTGG 57.468 41.667 0.00 0.00 0.00 3.86
2062 2095 6.002653 AGACTGGACTTTACTCTGGTTTTT 57.997 37.500 0.00 0.00 0.00 1.94
2258 2292 6.770303 ACATATGGGGTTTTCTTTTTGTTTGG 59.230 34.615 7.80 0.00 0.00 3.28
2377 2428 8.874156 TGATGATAGGAATTCTTGTACTAGCAT 58.126 33.333 15.04 15.04 41.70 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 8.883731 GCTTATTTTCTCTGCACTAATAAGTCA 58.116 33.333 0.00 0.00 39.35 3.41
2 3 9.103861 AGCTTATTTTCTCTGCACTAATAAGTC 57.896 33.333 0.00 0.00 39.35 3.01
3 4 9.454859 AAGCTTATTTTCTCTGCACTAATAAGT 57.545 29.630 0.00 0.00 39.35 2.24
6 7 9.231297 ACAAAGCTTATTTTCTCTGCACTAATA 57.769 29.630 0.00 0.00 0.00 0.98
7 8 8.115490 ACAAAGCTTATTTTCTCTGCACTAAT 57.885 30.769 0.00 0.00 0.00 1.73
8 9 7.510549 ACAAAGCTTATTTTCTCTGCACTAA 57.489 32.000 0.00 0.00 0.00 2.24
9 10 8.668353 CATACAAAGCTTATTTTCTCTGCACTA 58.332 33.333 0.00 0.00 0.00 2.74
10 11 7.391554 TCATACAAAGCTTATTTTCTCTGCACT 59.608 33.333 0.00 0.00 0.00 4.40
11 12 7.530010 TCATACAAAGCTTATTTTCTCTGCAC 58.470 34.615 0.00 0.00 0.00 4.57
12 13 7.686438 TCATACAAAGCTTATTTTCTCTGCA 57.314 32.000 0.00 0.00 0.00 4.41
13 14 8.239998 AGTTCATACAAAGCTTATTTTCTCTGC 58.760 33.333 0.00 0.00 0.00 4.26
16 17 9.899226 ACAAGTTCATACAAAGCTTATTTTCTC 57.101 29.630 0.00 0.00 0.00 2.87
19 20 9.816354 ACAACAAGTTCATACAAAGCTTATTTT 57.184 25.926 0.00 0.00 0.00 1.82
20 21 9.248291 CACAACAAGTTCATACAAAGCTTATTT 57.752 29.630 0.00 0.00 0.00 1.40
21 22 7.867403 CCACAACAAGTTCATACAAAGCTTATT 59.133 33.333 0.00 0.00 0.00 1.40
22 23 7.014230 ACCACAACAAGTTCATACAAAGCTTAT 59.986 33.333 0.00 0.00 0.00 1.73
23 24 6.320164 ACCACAACAAGTTCATACAAAGCTTA 59.680 34.615 0.00 0.00 0.00 3.09
24 25 5.127031 ACCACAACAAGTTCATACAAAGCTT 59.873 36.000 0.00 0.00 0.00 3.74
25 26 4.644685 ACCACAACAAGTTCATACAAAGCT 59.355 37.500 0.00 0.00 0.00 3.74
26 27 4.932146 ACCACAACAAGTTCATACAAAGC 58.068 39.130 0.00 0.00 0.00 3.51
27 28 7.259290 ACTACCACAACAAGTTCATACAAAG 57.741 36.000 0.00 0.00 0.00 2.77
28 29 8.734218 TTACTACCACAACAAGTTCATACAAA 57.266 30.769 0.00 0.00 0.00 2.83
29 30 8.911918 ATTACTACCACAACAAGTTCATACAA 57.088 30.769 0.00 0.00 0.00 2.41
30 31 9.999660 TTATTACTACCACAACAAGTTCATACA 57.000 29.630 0.00 0.00 0.00 2.29
34 35 8.347035 GCTTTTATTACTACCACAACAAGTTCA 58.653 33.333 0.00 0.00 0.00 3.18
35 36 7.532884 CGCTTTTATTACTACCACAACAAGTTC 59.467 37.037 0.00 0.00 0.00 3.01
36 37 7.227116 TCGCTTTTATTACTACCACAACAAGTT 59.773 33.333 0.00 0.00 0.00 2.66
37 38 6.707161 TCGCTTTTATTACTACCACAACAAGT 59.293 34.615 0.00 0.00 0.00 3.16
38 39 7.013529 GTCGCTTTTATTACTACCACAACAAG 58.986 38.462 0.00 0.00 0.00 3.16
39 40 6.346758 CGTCGCTTTTATTACTACCACAACAA 60.347 38.462 0.00 0.00 0.00 2.83
40 41 5.118971 CGTCGCTTTTATTACTACCACAACA 59.881 40.000 0.00 0.00 0.00 3.33
41 42 5.445010 CCGTCGCTTTTATTACTACCACAAC 60.445 44.000 0.00 0.00 0.00 3.32
42 43 4.626604 CCGTCGCTTTTATTACTACCACAA 59.373 41.667 0.00 0.00 0.00 3.33
43 44 4.082300 TCCGTCGCTTTTATTACTACCACA 60.082 41.667 0.00 0.00 0.00 4.17
44 45 4.266265 GTCCGTCGCTTTTATTACTACCAC 59.734 45.833 0.00 0.00 0.00 4.16
45 46 4.158394 AGTCCGTCGCTTTTATTACTACCA 59.842 41.667 0.00 0.00 0.00 3.25
46 47 4.501921 CAGTCCGTCGCTTTTATTACTACC 59.498 45.833 0.00 0.00 0.00 3.18
47 48 4.027050 GCAGTCCGTCGCTTTTATTACTAC 60.027 45.833 0.00 0.00 0.00 2.73
48 49 4.107622 GCAGTCCGTCGCTTTTATTACTA 58.892 43.478 0.00 0.00 0.00 1.82
49 50 2.928116 GCAGTCCGTCGCTTTTATTACT 59.072 45.455 0.00 0.00 0.00 2.24
50 51 2.669434 TGCAGTCCGTCGCTTTTATTAC 59.331 45.455 0.00 0.00 0.00 1.89
51 52 2.962125 TGCAGTCCGTCGCTTTTATTA 58.038 42.857 0.00 0.00 0.00 0.98
52 53 1.803334 TGCAGTCCGTCGCTTTTATT 58.197 45.000 0.00 0.00 0.00 1.40
53 54 2.024176 ATGCAGTCCGTCGCTTTTAT 57.976 45.000 0.00 0.00 0.00 1.40
54 55 2.658373 TATGCAGTCCGTCGCTTTTA 57.342 45.000 0.00 0.00 0.00 1.52
55 56 1.803334 TTATGCAGTCCGTCGCTTTT 58.197 45.000 0.00 0.00 0.00 2.27
56 57 2.024176 ATTATGCAGTCCGTCGCTTT 57.976 45.000 0.00 0.00 0.00 3.51
57 58 2.882927 TATTATGCAGTCCGTCGCTT 57.117 45.000 0.00 0.00 0.00 4.68
58 59 2.882927 TTATTATGCAGTCCGTCGCT 57.117 45.000 0.00 0.00 0.00 4.93
59 60 2.221055 CCTTTATTATGCAGTCCGTCGC 59.779 50.000 0.00 0.00 0.00 5.19
60 61 3.454375 ACCTTTATTATGCAGTCCGTCG 58.546 45.455 0.00 0.00 0.00 5.12
61 62 3.808174 GGACCTTTATTATGCAGTCCGTC 59.192 47.826 2.18 0.00 34.92 4.79
62 63 3.199071 TGGACCTTTATTATGCAGTCCGT 59.801 43.478 11.52 0.00 45.44 4.69
63 64 3.560068 GTGGACCTTTATTATGCAGTCCG 59.440 47.826 11.52 0.00 45.44 4.79
64 65 4.523083 TGTGGACCTTTATTATGCAGTCC 58.477 43.478 9.85 9.85 43.31 3.85
65 66 6.765989 TGTATGTGGACCTTTATTATGCAGTC 59.234 38.462 0.00 0.00 0.00 3.51
66 67 6.658849 TGTATGTGGACCTTTATTATGCAGT 58.341 36.000 0.00 0.00 0.00 4.40
67 68 7.255242 CCTTGTATGTGGACCTTTATTATGCAG 60.255 40.741 0.00 0.00 0.00 4.41
68 69 6.545666 CCTTGTATGTGGACCTTTATTATGCA 59.454 38.462 0.00 0.00 0.00 3.96
69 70 6.016276 CCCTTGTATGTGGACCTTTATTATGC 60.016 42.308 0.00 0.00 0.00 3.14
70 71 6.490040 CCCCTTGTATGTGGACCTTTATTATG 59.510 42.308 0.00 0.00 0.00 1.90
71 72 6.610830 CCCCTTGTATGTGGACCTTTATTAT 58.389 40.000 0.00 0.00 0.00 1.28
72 73 5.632902 GCCCCTTGTATGTGGACCTTTATTA 60.633 44.000 0.00 0.00 0.00 0.98
73 74 4.867086 CCCCTTGTATGTGGACCTTTATT 58.133 43.478 0.00 0.00 0.00 1.40
74 75 3.372675 GCCCCTTGTATGTGGACCTTTAT 60.373 47.826 0.00 0.00 0.00 1.40
75 76 2.025699 GCCCCTTGTATGTGGACCTTTA 60.026 50.000 0.00 0.00 0.00 1.85
76 77 1.272480 GCCCCTTGTATGTGGACCTTT 60.272 52.381 0.00 0.00 0.00 3.11
77 78 0.331616 GCCCCTTGTATGTGGACCTT 59.668 55.000 0.00 0.00 0.00 3.50
78 79 0.844661 TGCCCCTTGTATGTGGACCT 60.845 55.000 0.00 0.00 0.00 3.85
79 80 0.039035 TTGCCCCTTGTATGTGGACC 59.961 55.000 0.00 0.00 0.00 4.46
80 81 2.143876 ATTGCCCCTTGTATGTGGAC 57.856 50.000 0.00 0.00 0.00 4.02
81 82 5.654901 TTATATTGCCCCTTGTATGTGGA 57.345 39.130 0.00 0.00 0.00 4.02
82 83 5.833131 ACTTTATATTGCCCCTTGTATGTGG 59.167 40.000 0.00 0.00 0.00 4.17
83 84 6.545666 TCACTTTATATTGCCCCTTGTATGTG 59.454 38.462 0.00 0.00 0.00 3.21
84 85 6.546034 GTCACTTTATATTGCCCCTTGTATGT 59.454 38.462 0.00 0.00 0.00 2.29
85 86 6.293407 CGTCACTTTATATTGCCCCTTGTATG 60.293 42.308 0.00 0.00 0.00 2.39
86 87 5.763204 CGTCACTTTATATTGCCCCTTGTAT 59.237 40.000 0.00 0.00 0.00 2.29
87 88 5.120399 CGTCACTTTATATTGCCCCTTGTA 58.880 41.667 0.00 0.00 0.00 2.41
88 89 3.945285 CGTCACTTTATATTGCCCCTTGT 59.055 43.478 0.00 0.00 0.00 3.16
89 90 3.945285 ACGTCACTTTATATTGCCCCTTG 59.055 43.478 0.00 0.00 0.00 3.61
90 91 4.230745 ACGTCACTTTATATTGCCCCTT 57.769 40.909 0.00 0.00 0.00 3.95
91 92 3.926058 ACGTCACTTTATATTGCCCCT 57.074 42.857 0.00 0.00 0.00 4.79
92 93 4.196971 AGAACGTCACTTTATATTGCCCC 58.803 43.478 0.00 0.00 0.00 5.80
93 94 5.813080 AAGAACGTCACTTTATATTGCCC 57.187 39.130 0.00 0.00 0.00 5.36
94 95 6.033513 GCAAAAGAACGTCACTTTATATTGCC 59.966 38.462 19.88 10.42 36.71 4.52
95 96 6.580791 TGCAAAAGAACGTCACTTTATATTGC 59.419 34.615 21.75 21.75 37.62 3.56
96 97 8.673626 ATGCAAAAGAACGTCACTTTATATTG 57.326 30.769 16.92 13.40 36.71 1.90
99 100 9.820229 CTTAATGCAAAAGAACGTCACTTTATA 57.180 29.630 16.92 9.62 36.71 0.98
100 101 8.564574 TCTTAATGCAAAAGAACGTCACTTTAT 58.435 29.630 16.92 7.99 36.71 1.40
101 102 7.921787 TCTTAATGCAAAAGAACGTCACTTTA 58.078 30.769 16.92 6.43 36.71 1.85
102 103 6.791303 TCTTAATGCAAAAGAACGTCACTTT 58.209 32.000 11.34 12.71 38.91 2.66
103 104 6.371809 TCTTAATGCAAAAGAACGTCACTT 57.628 33.333 11.34 0.00 30.15 3.16
104 105 6.560253 ATCTTAATGCAAAAGAACGTCACT 57.440 33.333 16.19 0.00 36.60 3.41
105 106 7.623268 AAATCTTAATGCAAAAGAACGTCAC 57.377 32.000 16.19 0.00 36.60 3.67
106 107 7.704472 ACAAAATCTTAATGCAAAAGAACGTCA 59.296 29.630 16.19 0.00 36.60 4.35
107 108 7.998212 CACAAAATCTTAATGCAAAAGAACGTC 59.002 33.333 16.19 0.00 36.60 4.34
108 109 7.516627 GCACAAAATCTTAATGCAAAAGAACGT 60.517 33.333 16.19 9.67 36.60 3.99
109 110 6.787043 GCACAAAATCTTAATGCAAAAGAACG 59.213 34.615 16.19 9.20 36.60 3.95
110 111 7.629130 TGCACAAAATCTTAATGCAAAAGAAC 58.371 30.769 16.19 4.49 43.00 3.01
111 112 7.783090 TGCACAAAATCTTAATGCAAAAGAA 57.217 28.000 16.19 3.81 43.00 2.52
118 119 5.063817 GGGTTGATGCACAAAATCTTAATGC 59.936 40.000 0.00 0.00 40.36 3.56
119 120 6.400568 AGGGTTGATGCACAAAATCTTAATG 58.599 36.000 0.00 0.00 40.36 1.90
120 121 6.610075 AGGGTTGATGCACAAAATCTTAAT 57.390 33.333 0.00 0.00 40.36 1.40
121 122 7.531857 TTAGGGTTGATGCACAAAATCTTAA 57.468 32.000 0.00 0.00 40.36 1.85
122 123 7.375053 GTTTAGGGTTGATGCACAAAATCTTA 58.625 34.615 0.00 0.00 40.36 2.10
123 124 6.223120 GTTTAGGGTTGATGCACAAAATCTT 58.777 36.000 0.00 0.00 40.36 2.40
124 125 5.564651 CGTTTAGGGTTGATGCACAAAATCT 60.565 40.000 0.00 0.00 40.36 2.40
125 126 4.621034 CGTTTAGGGTTGATGCACAAAATC 59.379 41.667 0.00 0.00 40.36 2.17
126 127 4.555262 CGTTTAGGGTTGATGCACAAAAT 58.445 39.130 0.00 0.00 40.36 1.82
127 128 3.797184 GCGTTTAGGGTTGATGCACAAAA 60.797 43.478 0.00 0.00 40.36 2.44
128 129 2.287909 GCGTTTAGGGTTGATGCACAAA 60.288 45.455 0.00 0.00 40.36 2.83
129 130 1.268352 GCGTTTAGGGTTGATGCACAA 59.732 47.619 0.00 0.00 36.02 3.33
130 131 0.878416 GCGTTTAGGGTTGATGCACA 59.122 50.000 0.00 0.00 0.00 4.57
131 132 0.179200 CGCGTTTAGGGTTGATGCAC 60.179 55.000 0.00 0.00 0.00 4.57
132 133 1.917782 GCGCGTTTAGGGTTGATGCA 61.918 55.000 8.43 0.00 34.93 3.96
133 134 1.226295 GCGCGTTTAGGGTTGATGC 60.226 57.895 8.43 0.00 34.93 3.91
134 135 0.732571 ATGCGCGTTTAGGGTTGATG 59.267 50.000 8.43 0.00 34.93 3.07
135 136 0.732571 CATGCGCGTTTAGGGTTGAT 59.267 50.000 8.43 0.00 34.93 2.57
136 137 0.320858 TCATGCGCGTTTAGGGTTGA 60.321 50.000 8.43 0.00 34.93 3.18
137 138 0.179200 GTCATGCGCGTTTAGGGTTG 60.179 55.000 8.43 0.00 34.93 3.77
138 139 0.604243 TGTCATGCGCGTTTAGGGTT 60.604 50.000 8.43 0.00 34.93 4.11
139 140 0.604243 TTGTCATGCGCGTTTAGGGT 60.604 50.000 8.43 0.00 34.93 4.34
140 141 0.179200 GTTGTCATGCGCGTTTAGGG 60.179 55.000 8.43 0.00 0.00 3.53
141 142 0.179200 GGTTGTCATGCGCGTTTAGG 60.179 55.000 8.43 0.00 0.00 2.69
142 143 0.796312 AGGTTGTCATGCGCGTTTAG 59.204 50.000 8.43 0.00 0.00 1.85
143 144 0.793861 GAGGTTGTCATGCGCGTTTA 59.206 50.000 8.43 0.00 0.00 2.01
144 145 0.884704 AGAGGTTGTCATGCGCGTTT 60.885 50.000 8.43 0.00 0.00 3.60
145 146 1.301716 AGAGGTTGTCATGCGCGTT 60.302 52.632 8.43 0.00 0.00 4.84
146 147 2.029288 CAGAGGTTGTCATGCGCGT 61.029 57.895 8.43 0.00 0.00 6.01
147 148 2.780643 CAGAGGTTGTCATGCGCG 59.219 61.111 0.00 0.00 0.00 6.86
148 149 1.580845 AAGCAGAGGTTGTCATGCGC 61.581 55.000 0.00 0.00 43.41 6.09
149 150 0.445436 GAAGCAGAGGTTGTCATGCG 59.555 55.000 0.00 0.00 43.41 4.73
150 151 0.807496 GGAAGCAGAGGTTGTCATGC 59.193 55.000 0.00 0.00 38.97 4.06
151 152 1.004044 AGGGAAGCAGAGGTTGTCATG 59.996 52.381 0.00 0.00 0.00 3.07
152 153 1.280421 GAGGGAAGCAGAGGTTGTCAT 59.720 52.381 0.00 0.00 0.00 3.06
153 154 0.687354 GAGGGAAGCAGAGGTTGTCA 59.313 55.000 0.00 0.00 0.00 3.58
154 155 0.980423 AGAGGGAAGCAGAGGTTGTC 59.020 55.000 0.00 0.00 0.00 3.18
155 156 0.689623 CAGAGGGAAGCAGAGGTTGT 59.310 55.000 0.00 0.00 0.00 3.32
156 157 0.676151 GCAGAGGGAAGCAGAGGTTG 60.676 60.000 0.00 0.00 0.00 3.77
157 158 1.682257 GCAGAGGGAAGCAGAGGTT 59.318 57.895 0.00 0.00 0.00 3.50
158 159 2.654079 CGCAGAGGGAAGCAGAGGT 61.654 63.158 0.00 0.00 0.00 3.85
159 160 1.892819 TTCGCAGAGGGAAGCAGAGG 61.893 60.000 0.00 0.00 38.43 3.69
160 161 0.459934 CTTCGCAGAGGGAAGCAGAG 60.460 60.000 10.26 0.00 43.47 3.35
161 162 1.593787 CTTCGCAGAGGGAAGCAGA 59.406 57.895 10.26 0.00 43.47 4.26
162 163 4.198625 CTTCGCAGAGGGAAGCAG 57.801 61.111 10.26 0.00 43.47 4.24
169 170 1.118356 AGATAGGCCCTTCGCAGAGG 61.118 60.000 0.00 0.00 40.31 3.69
170 171 0.755686 AAGATAGGCCCTTCGCAGAG 59.244 55.000 0.00 0.00 40.31 3.35
171 172 1.204146 AAAGATAGGCCCTTCGCAGA 58.796 50.000 0.00 0.00 40.31 4.26
172 173 2.044123 AAAAGATAGGCCCTTCGCAG 57.956 50.000 0.00 0.00 40.31 5.18
173 174 3.857157 ATAAAAGATAGGCCCTTCGCA 57.143 42.857 0.00 0.00 40.31 5.10
174 175 6.819397 AATAATAAAAGATAGGCCCTTCGC 57.181 37.500 0.00 0.00 0.00 4.70
175 176 9.110502 GGATAATAATAAAAGATAGGCCCTTCG 57.889 37.037 0.00 0.00 0.00 3.79
194 195 9.998106 GACTCTTGCATAAGGTAAAGGATAATA 57.002 33.333 0.00 0.00 34.59 0.98
195 196 8.494433 TGACTCTTGCATAAGGTAAAGGATAAT 58.506 33.333 0.00 0.00 34.59 1.28
196 197 7.769044 GTGACTCTTGCATAAGGTAAAGGATAA 59.231 37.037 0.00 0.00 34.59 1.75
197 198 7.272978 GTGACTCTTGCATAAGGTAAAGGATA 58.727 38.462 0.00 0.00 34.59 2.59
198 199 6.116126 GTGACTCTTGCATAAGGTAAAGGAT 58.884 40.000 0.00 0.00 34.59 3.24
199 200 5.488341 GTGACTCTTGCATAAGGTAAAGGA 58.512 41.667 0.00 0.00 34.59 3.36
200 201 4.330074 CGTGACTCTTGCATAAGGTAAAGG 59.670 45.833 0.00 0.00 34.59 3.11
201 202 4.330074 CCGTGACTCTTGCATAAGGTAAAG 59.670 45.833 0.00 0.00 34.59 1.85
202 203 4.250464 CCGTGACTCTTGCATAAGGTAAA 58.750 43.478 0.00 0.00 34.59 2.01
203 204 3.259876 ACCGTGACTCTTGCATAAGGTAA 59.740 43.478 0.00 0.00 34.59 2.85
204 205 2.829720 ACCGTGACTCTTGCATAAGGTA 59.170 45.455 0.00 0.00 34.59 3.08
205 206 1.623811 ACCGTGACTCTTGCATAAGGT 59.376 47.619 0.00 0.00 34.59 3.50
206 207 2.002586 CACCGTGACTCTTGCATAAGG 58.997 52.381 0.00 0.00 34.59 2.69
207 208 2.959516 TCACCGTGACTCTTGCATAAG 58.040 47.619 0.00 0.00 35.16 1.73
208 209 3.195610 AGATCACCGTGACTCTTGCATAA 59.804 43.478 2.57 0.00 0.00 1.90
209 210 2.760650 AGATCACCGTGACTCTTGCATA 59.239 45.455 2.57 0.00 0.00 3.14
210 211 1.552337 AGATCACCGTGACTCTTGCAT 59.448 47.619 2.57 0.00 0.00 3.96
211 212 0.969149 AGATCACCGTGACTCTTGCA 59.031 50.000 2.57 0.00 0.00 4.08
212 213 1.996191 GAAGATCACCGTGACTCTTGC 59.004 52.381 21.16 13.47 30.26 4.01
213 214 2.989840 GTGAAGATCACCGTGACTCTTG 59.010 50.000 21.16 0.00 41.37 3.02
214 215 3.305398 GTGAAGATCACCGTGACTCTT 57.695 47.619 18.37 18.37 41.37 2.85
242 243 6.997476 AGCTTGCCAAAGGATAAAATGAAAAA 59.003 30.769 0.00 0.00 33.68 1.94
243 244 6.532826 AGCTTGCCAAAGGATAAAATGAAAA 58.467 32.000 0.00 0.00 33.68 2.29
244 245 6.112927 AGCTTGCCAAAGGATAAAATGAAA 57.887 33.333 0.00 0.00 33.68 2.69
245 246 5.245751 TGAGCTTGCCAAAGGATAAAATGAA 59.754 36.000 0.00 0.00 33.68 2.57
246 247 4.771577 TGAGCTTGCCAAAGGATAAAATGA 59.228 37.500 0.00 0.00 33.68 2.57
247 248 5.075858 TGAGCTTGCCAAAGGATAAAATG 57.924 39.130 0.00 0.00 33.68 2.32
248 249 4.382362 GCTGAGCTTGCCAAAGGATAAAAT 60.382 41.667 0.00 0.00 33.68 1.82
249 250 3.056607 GCTGAGCTTGCCAAAGGATAAAA 60.057 43.478 0.00 0.00 33.68 1.52
250 251 2.493278 GCTGAGCTTGCCAAAGGATAAA 59.507 45.455 0.00 0.00 33.68 1.40
251 252 2.094675 GCTGAGCTTGCCAAAGGATAA 58.905 47.619 0.00 0.00 33.68 1.75
252 253 1.004628 TGCTGAGCTTGCCAAAGGATA 59.995 47.619 5.83 0.00 33.68 2.59
253 254 0.251474 TGCTGAGCTTGCCAAAGGAT 60.251 50.000 5.83 0.00 33.68 3.24
254 255 0.251474 ATGCTGAGCTTGCCAAAGGA 60.251 50.000 5.83 0.00 33.68 3.36
255 256 2.273908 ATGCTGAGCTTGCCAAAGG 58.726 52.632 5.83 0.00 33.68 3.11
690 691 3.434299 CAGTACAACCGCCTAAAATCGTT 59.566 43.478 0.00 0.00 0.00 3.85
1257 1283 2.031616 TCGTCGTCGGTGACCTCT 59.968 61.111 0.00 0.00 35.40 3.69
1545 1571 7.280428 ACTCACATGATCTCATCAAGAATCAAC 59.720 37.037 0.00 0.00 43.50 3.18
1579 1605 4.837972 TCAAGAGAGACTGAAGATCGAGA 58.162 43.478 0.00 0.00 0.00 4.04
1780 1809 3.012518 AGAAAACCGATGAGCAAGATGG 58.987 45.455 0.00 0.00 0.00 3.51
1794 1823 7.603784 ACAAAATGAATTGGCATCTAGAAAACC 59.396 33.333 0.00 0.00 34.56 3.27
1895 1924 2.028130 CTACAACAAACAAGCACCCCA 58.972 47.619 0.00 0.00 0.00 4.96
1913 1942 5.276440 AGAAGAGAGAGGGAAAATCAGCTA 58.724 41.667 0.00 0.00 0.00 3.32
2057 2089 8.278408 AGTTACGAGGAAAATCTTACGAAAAAC 58.722 33.333 0.00 0.00 0.00 2.43
2062 2095 6.587608 GGAAAGTTACGAGGAAAATCTTACGA 59.412 38.462 0.00 0.00 0.00 3.43
2233 2266 6.770303 CCAAACAAAAAGAAAACCCCATATGT 59.230 34.615 1.24 0.00 0.00 2.29
2377 2428 0.518636 GTGTGTGCTCTACCGTCGTA 59.481 55.000 0.00 0.00 0.00 3.43


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

AutoCloner maintained by Alex Coulton.