Multiple sequence alignment - TraesCS6A01G384500

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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 TraesCS6A01G384500 chr6A 100.000 2213 0 0 1 2213 602833350 602835562 0.000000e+00 4087.0
1 TraesCS6A01G384500 chr6A 95.909 1271 52 0 359 1629 74542598 74543868 0.000000e+00 2060.0
2 TraesCS6A01G384500 chr4D 96.617 1271 43 0 359 1629 451883070 451881800 0.000000e+00 2109.0
3 TraesCS6A01G384500 chr2B 95.755 1272 54 0 359 1630 638287071 638288342 0.000000e+00 2050.0
4 TraesCS6A01G384500 chr7B 95.046 1292 61 3 359 1648 459587864 459586574 0.000000e+00 2028.0
5 TraesCS6A01G384500 chr7B 90.310 258 25 0 102 359 356550142 356550399 2.720000e-89 339.0
6 TraesCS6A01G384500 chr2D 95.227 1278 50 5 359 1631 344568077 344569348 0.000000e+00 2012.0
7 TraesCS6A01G384500 chr2D 92.014 288 21 1 3 288 25860646 25860933 9.520000e-109 403.0
8 TraesCS6A01G384500 chr2D 81.013 395 57 9 1629 2019 619257825 619258205 4.620000e-77 298.0
9 TraesCS6A01G384500 chr3B 95.201 1271 61 0 359 1629 629799674 629800944 0.000000e+00 2010.0
10 TraesCS6A01G384500 chr5B 95.201 1271 60 1 359 1629 547905279 547906548 0.000000e+00 2008.0
11 TraesCS6A01G384500 chr5B 92.630 597 27 6 1629 2213 601882430 601883021 0.000000e+00 843.0
12 TraesCS6A01G384500 chr5B 88.122 362 38 2 3 359 700064486 700064125 2.030000e-115 425.0
13 TraesCS6A01G384500 chr5B 83.065 248 35 4 1647 1892 439062130 439062372 3.700000e-53 219.0
14 TraesCS6A01G384500 chr5B 83.459 133 15 4 2087 2213 661126463 661126332 1.390000e-22 117.0
15 TraesCS6A01G384500 chr5B 81.046 153 19 5 2067 2213 439062438 439062586 1.800000e-21 113.0
16 TraesCS6A01G384500 chr1B 94.654 1272 68 0 359 1630 109348498 109347227 0.000000e+00 1973.0
17 TraesCS6A01G384500 chr3D 87.549 1277 146 9 359 1629 549726266 549724997 0.000000e+00 1465.0
18 TraesCS6A01G384500 chr6D 91.414 594 20 5 1629 2213 293395370 293395941 0.000000e+00 785.0
19 TraesCS6A01G384500 chr6B 92.157 357 28 0 3 359 345161557 345161913 2.540000e-139 505.0
20 TraesCS6A01G384500 chr6B 91.914 371 11 4 1859 2213 670990264 670990631 3.280000e-138 501.0
21 TraesCS6A01G384500 chr6B 94.318 176 9 1 1629 1803 670990087 670990262 3.620000e-68 268.0
22 TraesCS6A01G384500 chr4B 91.379 348 29 1 13 359 172480853 172481200 1.990000e-130 475.0
23 TraesCS6A01G384500 chr7D 89.911 337 28 4 6 338 611164108 611163774 1.570000e-116 429.0
24 TraesCS6A01G384500 chr7A 82.051 390 64 6 1632 2018 682864756 682864370 5.890000e-86 327.0
25 TraesCS6A01G384500 chr7A 91.743 109 9 0 3 111 632036907 632036799 3.810000e-33 152.0
26 TraesCS6A01G384500 chr5D 90.283 247 22 1 115 359 553282095 553282341 2.740000e-84 322.0
27 TraesCS6A01G384500 chr1D 83.333 246 40 1 1647 1892 491167977 491167733 2.210000e-55 226.0
28 TraesCS6A01G384500 chr1D 84.962 133 13 4 2087 2213 491167650 491167519 6.410000e-26 128.0
29 TraesCS6A01G384500 chr4A 85.714 217 26 5 1632 1844 715595755 715595970 7.950000e-55 224.0
30 TraesCS6A01G384500 chr4A 84.332 217 29 5 1632 1844 715934912 715934697 8.010000e-50 207.0
31 TraesCS6A01G384500 chr1A 85.496 131 10 5 2088 2209 177518848 177518718 6.410000e-26 128.0
32 TraesCS6A01G384500 chr5A 86.905 84 8 1 2070 2153 529174568 529174488 8.410000e-15 91.6


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 TraesCS6A01G384500 chr6A 602833350 602835562 2212 False 4087.0 4087 100.000 1 2213 1 chr6A.!!$F2 2212
1 TraesCS6A01G384500 chr6A 74542598 74543868 1270 False 2060.0 2060 95.909 359 1629 1 chr6A.!!$F1 1270
2 TraesCS6A01G384500 chr4D 451881800 451883070 1270 True 2109.0 2109 96.617 359 1629 1 chr4D.!!$R1 1270
3 TraesCS6A01G384500 chr2B 638287071 638288342 1271 False 2050.0 2050 95.755 359 1630 1 chr2B.!!$F1 1271
4 TraesCS6A01G384500 chr7B 459586574 459587864 1290 True 2028.0 2028 95.046 359 1648 1 chr7B.!!$R1 1289
5 TraesCS6A01G384500 chr2D 344568077 344569348 1271 False 2012.0 2012 95.227 359 1631 1 chr2D.!!$F2 1272
6 TraesCS6A01G384500 chr3B 629799674 629800944 1270 False 2010.0 2010 95.201 359 1629 1 chr3B.!!$F1 1270
7 TraesCS6A01G384500 chr5B 547905279 547906548 1269 False 2008.0 2008 95.201 359 1629 1 chr5B.!!$F1 1270
8 TraesCS6A01G384500 chr5B 601882430 601883021 591 False 843.0 843 92.630 1629 2213 1 chr5B.!!$F2 584
9 TraesCS6A01G384500 chr1B 109347227 109348498 1271 True 1973.0 1973 94.654 359 1630 1 chr1B.!!$R1 1271
10 TraesCS6A01G384500 chr3D 549724997 549726266 1269 True 1465.0 1465 87.549 359 1629 1 chr3D.!!$R1 1270
11 TraesCS6A01G384500 chr6D 293395370 293395941 571 False 785.0 785 91.414 1629 2213 1 chr6D.!!$F1 584
12 TraesCS6A01G384500 chr6B 670990087 670990631 544 False 384.5 501 93.116 1629 2213 2 chr6B.!!$F2 584

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
198 199 0.03101 GTGTCCTGGTAGGGAGGGAT 60.031 60.0 0.0 0.0 35.59 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1307 1313 0.106708 GCACAACACTGTCTCAGGGA 59.893 55.0 6.0 0.0 36.97 4.2 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.695231 CTGCTGCTGTTGCGTGGC 62.695 66.667 0.00 0.00 43.34 5.01
19 20 4.695231 GCTGCTGTTGCGTGGCTG 62.695 66.667 0.00 0.00 43.34 4.85
20 21 4.034258 CTGCTGTTGCGTGGCTGG 62.034 66.667 0.00 0.00 43.34 4.85
23 24 4.332637 CTGTTGCGTGGCTGGCAC 62.333 66.667 22.95 22.95 40.71 5.01
29 30 4.935495 CGTGGCTGGCACCAGTGT 62.935 66.667 25.97 0.00 45.24 3.55
30 31 3.289834 GTGGCTGGCACCAGTGTG 61.290 66.667 22.40 0.00 45.24 3.82
31 32 3.807839 TGGCTGGCACCAGTGTGT 61.808 61.111 17.72 0.00 45.24 3.72
32 33 3.289834 GGCTGGCACCAGTGTGTG 61.290 66.667 17.72 7.22 45.24 3.82
40 41 3.972227 CCAGTGTGTGGCAGCTAC 58.028 61.111 0.99 0.99 40.39 3.58
41 42 1.372683 CCAGTGTGTGGCAGCTACT 59.627 57.895 10.64 0.00 40.39 2.57
42 43 0.952497 CCAGTGTGTGGCAGCTACTG 60.952 60.000 10.64 14.56 40.39 2.74
43 44 0.033920 CAGTGTGTGGCAGCTACTGA 59.966 55.000 15.83 0.00 40.80 3.41
44 45 0.319728 AGTGTGTGGCAGCTACTGAG 59.680 55.000 10.64 0.00 32.44 3.35
45 46 0.318441 GTGTGTGGCAGCTACTGAGA 59.682 55.000 10.64 0.00 32.44 3.27
46 47 1.066573 GTGTGTGGCAGCTACTGAGAT 60.067 52.381 10.64 0.00 32.44 2.75
47 48 1.066645 TGTGTGGCAGCTACTGAGATG 60.067 52.381 10.64 0.00 42.26 2.90
48 49 0.538584 TGTGGCAGCTACTGAGATGG 59.461 55.000 10.64 0.00 39.60 3.51
49 50 0.179062 GTGGCAGCTACTGAGATGGG 60.179 60.000 0.70 0.00 39.60 4.00
50 51 1.227793 GGCAGCTACTGAGATGGGC 60.228 63.158 0.00 0.00 39.60 5.36
51 52 1.593750 GCAGCTACTGAGATGGGCG 60.594 63.158 0.00 0.00 39.60 6.13
52 53 1.593750 CAGCTACTGAGATGGGCGC 60.594 63.158 0.00 0.00 35.34 6.53
53 54 2.060383 AGCTACTGAGATGGGCGCA 61.060 57.895 10.83 5.70 0.00 6.09
57 58 4.308526 CTGAGATGGGCGCAGTTT 57.691 55.556 10.83 0.00 39.29 2.66
58 59 3.458872 CTGAGATGGGCGCAGTTTA 57.541 52.632 10.83 0.00 39.29 2.01
59 60 1.009829 CTGAGATGGGCGCAGTTTAC 58.990 55.000 10.83 0.00 39.29 2.01
60 61 0.613260 TGAGATGGGCGCAGTTTACT 59.387 50.000 10.83 0.00 0.00 2.24
61 62 1.291132 GAGATGGGCGCAGTTTACTC 58.709 55.000 10.83 6.28 0.00 2.59
62 63 0.905357 AGATGGGCGCAGTTTACTCT 59.095 50.000 10.83 2.90 0.00 3.24
63 64 1.009829 GATGGGCGCAGTTTACTCTG 58.990 55.000 10.83 0.00 38.35 3.35
64 65 0.324943 ATGGGCGCAGTTTACTCTGT 59.675 50.000 10.83 0.00 37.70 3.41
65 66 0.602638 TGGGCGCAGTTTACTCTGTG 60.603 55.000 10.83 3.35 45.32 3.66
66 67 0.602905 GGGCGCAGTTTACTCTGTGT 60.603 55.000 10.83 0.00 44.65 3.72
67 68 1.226746 GGCGCAGTTTACTCTGTGTT 58.773 50.000 10.83 0.00 44.65 3.32
68 69 1.194772 GGCGCAGTTTACTCTGTGTTC 59.805 52.381 10.83 0.14 44.65 3.18
69 70 1.136611 GCGCAGTTTACTCTGTGTTCG 60.137 52.381 0.30 0.00 44.65 3.95
70 71 1.455786 CGCAGTTTACTCTGTGTTCGG 59.544 52.381 0.00 0.00 39.97 4.30
71 72 2.480845 GCAGTTTACTCTGTGTTCGGT 58.519 47.619 0.00 0.00 37.70 4.69
72 73 2.221055 GCAGTTTACTCTGTGTTCGGTG 59.779 50.000 0.00 0.00 37.70 4.94
73 74 3.713288 CAGTTTACTCTGTGTTCGGTGA 58.287 45.455 0.00 0.00 0.00 4.02
74 75 4.307432 CAGTTTACTCTGTGTTCGGTGAT 58.693 43.478 0.00 0.00 0.00 3.06
75 76 4.150627 CAGTTTACTCTGTGTTCGGTGATG 59.849 45.833 0.00 0.00 0.00 3.07
76 77 3.313012 TTACTCTGTGTTCGGTGATGG 57.687 47.619 0.00 0.00 0.00 3.51
77 78 1.048601 ACTCTGTGTTCGGTGATGGT 58.951 50.000 0.00 0.00 0.00 3.55
78 79 1.270305 ACTCTGTGTTCGGTGATGGTG 60.270 52.381 0.00 0.00 0.00 4.17
79 80 0.756294 TCTGTGTTCGGTGATGGTGT 59.244 50.000 0.00 0.00 0.00 4.16
80 81 1.140052 TCTGTGTTCGGTGATGGTGTT 59.860 47.619 0.00 0.00 0.00 3.32
81 82 1.264020 CTGTGTTCGGTGATGGTGTTG 59.736 52.381 0.00 0.00 0.00 3.33
82 83 1.134371 TGTGTTCGGTGATGGTGTTGA 60.134 47.619 0.00 0.00 0.00 3.18
83 84 1.944024 GTGTTCGGTGATGGTGTTGAA 59.056 47.619 0.00 0.00 0.00 2.69
84 85 2.356382 GTGTTCGGTGATGGTGTTGAAA 59.644 45.455 0.00 0.00 0.00 2.69
85 86 3.017442 TGTTCGGTGATGGTGTTGAAAA 58.983 40.909 0.00 0.00 0.00 2.29
86 87 3.066064 TGTTCGGTGATGGTGTTGAAAAG 59.934 43.478 0.00 0.00 0.00 2.27
87 88 1.606668 TCGGTGATGGTGTTGAAAAGC 59.393 47.619 0.00 0.00 0.00 3.51
88 89 1.336440 CGGTGATGGTGTTGAAAAGCA 59.664 47.619 0.00 0.00 0.00 3.91
89 90 2.742774 GGTGATGGTGTTGAAAAGCAC 58.257 47.619 0.00 0.00 35.07 4.40
96 97 2.809446 GTGTTGAAAAGCACCTTGACC 58.191 47.619 0.00 0.00 0.00 4.02
97 98 1.403679 TGTTGAAAAGCACCTTGACCG 59.596 47.619 0.00 0.00 0.00 4.79
98 99 1.673920 GTTGAAAAGCACCTTGACCGA 59.326 47.619 0.00 0.00 0.00 4.69
99 100 1.593196 TGAAAAGCACCTTGACCGAG 58.407 50.000 0.00 0.00 0.00 4.63
100 101 0.238553 GAAAAGCACCTTGACCGAGC 59.761 55.000 0.00 0.00 0.00 5.03
101 102 1.172812 AAAAGCACCTTGACCGAGCC 61.173 55.000 0.00 0.00 0.00 4.70
102 103 2.337879 AAAGCACCTTGACCGAGCCA 62.338 55.000 0.00 0.00 0.00 4.75
103 104 2.281484 GCACCTTGACCGAGCCAA 60.281 61.111 0.00 0.00 0.00 4.52
104 105 2.328099 GCACCTTGACCGAGCCAAG 61.328 63.158 0.00 0.00 40.37 3.61
108 109 3.558674 CTTGACCGAGCCAAGGAAT 57.441 52.632 0.00 0.00 37.83 3.01
109 110 1.826385 CTTGACCGAGCCAAGGAATT 58.174 50.000 0.00 0.00 37.83 2.17
110 111 2.162681 CTTGACCGAGCCAAGGAATTT 58.837 47.619 0.00 0.00 37.83 1.82
111 112 3.343617 CTTGACCGAGCCAAGGAATTTA 58.656 45.455 0.00 0.00 37.83 1.40
112 113 2.985896 TGACCGAGCCAAGGAATTTAG 58.014 47.619 0.00 0.00 0.00 1.85
113 114 2.304761 TGACCGAGCCAAGGAATTTAGT 59.695 45.455 0.00 0.00 0.00 2.24
114 115 3.516300 TGACCGAGCCAAGGAATTTAGTA 59.484 43.478 0.00 0.00 0.00 1.82
115 116 4.120589 GACCGAGCCAAGGAATTTAGTAG 58.879 47.826 0.00 0.00 0.00 2.57
116 117 2.872858 CCGAGCCAAGGAATTTAGTAGC 59.127 50.000 0.00 0.00 0.00 3.58
117 118 3.531538 CGAGCCAAGGAATTTAGTAGCA 58.468 45.455 0.00 0.00 0.00 3.49
118 119 4.130118 CGAGCCAAGGAATTTAGTAGCAT 58.870 43.478 0.00 0.00 0.00 3.79
119 120 5.297547 CGAGCCAAGGAATTTAGTAGCATA 58.702 41.667 0.00 0.00 0.00 3.14
120 121 5.406780 CGAGCCAAGGAATTTAGTAGCATAG 59.593 44.000 0.00 0.00 0.00 2.23
121 122 6.253946 AGCCAAGGAATTTAGTAGCATAGT 57.746 37.500 0.00 0.00 0.00 2.12
122 123 6.058183 AGCCAAGGAATTTAGTAGCATAGTG 58.942 40.000 0.00 0.00 0.00 2.74
123 124 5.239525 GCCAAGGAATTTAGTAGCATAGTGG 59.760 44.000 0.00 0.00 0.00 4.00
124 125 5.765182 CCAAGGAATTTAGTAGCATAGTGGG 59.235 44.000 0.00 0.00 0.00 4.61
125 126 6.409234 CCAAGGAATTTAGTAGCATAGTGGGA 60.409 42.308 0.00 0.00 0.00 4.37
126 127 7.227156 CAAGGAATTTAGTAGCATAGTGGGAT 58.773 38.462 0.00 0.00 0.00 3.85
127 128 6.773638 AGGAATTTAGTAGCATAGTGGGATG 58.226 40.000 0.00 0.00 0.00 3.51
128 129 6.558775 AGGAATTTAGTAGCATAGTGGGATGA 59.441 38.462 0.00 0.00 0.00 2.92
129 130 7.238514 AGGAATTTAGTAGCATAGTGGGATGAT 59.761 37.037 0.00 0.00 0.00 2.45
130 131 7.885399 GGAATTTAGTAGCATAGTGGGATGATT 59.115 37.037 0.00 0.00 0.00 2.57
131 132 9.944376 GAATTTAGTAGCATAGTGGGATGATTA 57.056 33.333 0.00 0.00 0.00 1.75
133 134 9.726438 ATTTAGTAGCATAGTGGGATGATTAAC 57.274 33.333 0.00 0.00 0.00 2.01
134 135 6.115448 AGTAGCATAGTGGGATGATTAACC 57.885 41.667 0.00 0.00 0.00 2.85
135 136 5.606749 AGTAGCATAGTGGGATGATTAACCA 59.393 40.000 0.00 0.00 0.00 3.67
136 137 5.387113 AGCATAGTGGGATGATTAACCAA 57.613 39.130 0.00 0.00 35.77 3.67
137 138 5.957132 AGCATAGTGGGATGATTAACCAAT 58.043 37.500 0.00 0.00 35.77 3.16
138 139 6.376248 AGCATAGTGGGATGATTAACCAATT 58.624 36.000 0.00 0.00 35.77 2.32
139 140 6.840705 AGCATAGTGGGATGATTAACCAATTT 59.159 34.615 0.00 0.00 35.77 1.82
140 141 7.345392 AGCATAGTGGGATGATTAACCAATTTT 59.655 33.333 0.00 0.00 35.77 1.82
141 142 7.986889 GCATAGTGGGATGATTAACCAATTTTT 59.013 33.333 0.00 0.00 35.77 1.94
164 165 9.804758 TTTTTCTCTTTCCTATACGATCTTCTC 57.195 33.333 0.00 0.00 0.00 2.87
165 166 8.521170 TTTCTCTTTCCTATACGATCTTCTCA 57.479 34.615 0.00 0.00 0.00 3.27
166 167 8.698973 TTCTCTTTCCTATACGATCTTCTCAT 57.301 34.615 0.00 0.00 0.00 2.90
167 168 9.794719 TTCTCTTTCCTATACGATCTTCTCATA 57.205 33.333 0.00 0.00 0.00 2.15
168 169 9.967451 TCTCTTTCCTATACGATCTTCTCATAT 57.033 33.333 0.00 0.00 0.00 1.78
170 171 9.740710 TCTTTCCTATACGATCTTCTCATATGA 57.259 33.333 5.07 5.07 0.00 2.15
180 181 9.784531 ACGATCTTCTCATATGATAATTTTGGT 57.215 29.630 5.72 0.00 0.00 3.67
184 185 9.342308 TCTTCTCATATGATAATTTTGGTGTCC 57.658 33.333 5.72 0.00 0.00 4.02
185 186 9.347240 CTTCTCATATGATAATTTTGGTGTCCT 57.653 33.333 5.72 0.00 0.00 3.85
186 187 8.681486 TCTCATATGATAATTTTGGTGTCCTG 57.319 34.615 5.72 0.00 0.00 3.86
187 188 7.720957 TCTCATATGATAATTTTGGTGTCCTGG 59.279 37.037 5.72 0.00 0.00 4.45
188 189 7.353525 TCATATGATAATTTTGGTGTCCTGGT 58.646 34.615 0.00 0.00 0.00 4.00
189 190 8.498575 TCATATGATAATTTTGGTGTCCTGGTA 58.501 33.333 0.00 0.00 0.00 3.25
190 191 8.786898 CATATGATAATTTTGGTGTCCTGGTAG 58.213 37.037 0.00 0.00 0.00 3.18
191 192 5.505780 TGATAATTTTGGTGTCCTGGTAGG 58.494 41.667 0.00 0.00 36.46 3.18
192 193 2.899303 ATTTTGGTGTCCTGGTAGGG 57.101 50.000 0.00 0.00 35.59 3.53
193 194 1.822425 TTTTGGTGTCCTGGTAGGGA 58.178 50.000 0.00 0.00 35.59 4.20
194 195 1.358152 TTTGGTGTCCTGGTAGGGAG 58.642 55.000 0.00 0.00 35.59 4.30
195 196 0.546747 TTGGTGTCCTGGTAGGGAGG 60.547 60.000 0.00 0.00 35.59 4.30
196 197 1.689582 GGTGTCCTGGTAGGGAGGG 60.690 68.421 0.00 0.00 35.59 4.30
197 198 1.390926 GTGTCCTGGTAGGGAGGGA 59.609 63.158 0.00 0.00 35.59 4.20
198 199 0.031010 GTGTCCTGGTAGGGAGGGAT 60.031 60.000 0.00 0.00 35.59 3.85
199 200 0.264955 TGTCCTGGTAGGGAGGGATC 59.735 60.000 0.00 0.00 35.59 3.36
200 201 0.828343 GTCCTGGTAGGGAGGGATCG 60.828 65.000 0.00 0.00 35.59 3.69
201 202 1.534235 CCTGGTAGGGAGGGATCGG 60.534 68.421 0.00 0.00 0.00 4.18
202 203 2.122989 TGGTAGGGAGGGATCGGC 60.123 66.667 0.00 0.00 0.00 5.54
203 204 2.201771 GGTAGGGAGGGATCGGCT 59.798 66.667 0.00 0.00 0.00 5.52
204 205 1.459730 GGTAGGGAGGGATCGGCTT 60.460 63.158 0.00 0.00 0.00 4.35
205 206 1.054978 GGTAGGGAGGGATCGGCTTT 61.055 60.000 0.00 0.00 0.00 3.51
206 207 0.106894 GTAGGGAGGGATCGGCTTTG 59.893 60.000 0.00 0.00 0.00 2.77
207 208 1.054406 TAGGGAGGGATCGGCTTTGG 61.054 60.000 0.00 0.00 0.00 3.28
208 209 2.680370 GGGAGGGATCGGCTTTGGT 61.680 63.158 0.00 0.00 0.00 3.67
209 210 1.342672 GGGAGGGATCGGCTTTGGTA 61.343 60.000 0.00 0.00 0.00 3.25
210 211 0.106894 GGAGGGATCGGCTTTGGTAG 59.893 60.000 0.00 0.00 0.00 3.18
228 229 3.908081 CATCCAATGCTGGCGGGC 61.908 66.667 0.00 0.00 43.17 6.13
241 242 4.770874 CGGGCCACGGGGTTGTAG 62.771 72.222 5.12 0.00 39.42 2.74
243 244 4.338710 GGCCACGGGGTTGTAGCA 62.339 66.667 5.12 0.00 36.17 3.49
244 245 2.746277 GCCACGGGGTTGTAGCAG 60.746 66.667 5.12 0.00 36.17 4.24
245 246 3.065306 CCACGGGGTTGTAGCAGA 58.935 61.111 0.00 0.00 0.00 4.26
246 247 1.079127 CCACGGGGTTGTAGCAGAG 60.079 63.158 0.00 0.00 0.00 3.35
247 248 1.079127 CACGGGGTTGTAGCAGAGG 60.079 63.158 0.00 0.00 0.00 3.69
248 249 1.229082 ACGGGGTTGTAGCAGAGGA 60.229 57.895 0.00 0.00 0.00 3.71
249 250 0.834687 ACGGGGTTGTAGCAGAGGAA 60.835 55.000 0.00 0.00 0.00 3.36
250 251 0.108138 CGGGGTTGTAGCAGAGGAAG 60.108 60.000 0.00 0.00 0.00 3.46
251 252 0.393132 GGGGTTGTAGCAGAGGAAGC 60.393 60.000 0.00 0.00 0.00 3.86
252 253 0.615850 GGGTTGTAGCAGAGGAAGCT 59.384 55.000 0.00 0.00 45.77 3.74
253 254 1.677217 GGGTTGTAGCAGAGGAAGCTG 60.677 57.143 0.00 0.00 43.33 4.24
254 255 1.276421 GGTTGTAGCAGAGGAAGCTGA 59.724 52.381 0.00 0.00 43.33 4.26
255 256 2.342179 GTTGTAGCAGAGGAAGCTGAC 58.658 52.381 0.00 0.00 43.33 3.51
256 257 1.632589 TGTAGCAGAGGAAGCTGACA 58.367 50.000 0.00 0.00 43.33 3.58
257 258 2.182827 TGTAGCAGAGGAAGCTGACAT 58.817 47.619 0.00 0.00 43.33 3.06
258 259 2.093816 TGTAGCAGAGGAAGCTGACATG 60.094 50.000 0.00 0.00 43.33 3.21
259 260 0.252479 AGCAGAGGAAGCTGACATGG 59.748 55.000 0.00 0.00 41.61 3.66
260 261 0.035630 GCAGAGGAAGCTGACATGGT 60.036 55.000 0.00 0.00 38.14 3.55
261 262 1.735386 CAGAGGAAGCTGACATGGTG 58.265 55.000 0.00 0.00 38.14 4.17
262 263 1.002888 CAGAGGAAGCTGACATGGTGT 59.997 52.381 0.00 0.00 38.14 4.16
263 264 1.701847 AGAGGAAGCTGACATGGTGTT 59.298 47.619 0.00 0.00 0.00 3.32
264 265 2.107204 AGAGGAAGCTGACATGGTGTTT 59.893 45.455 0.00 0.00 0.00 2.83
265 266 2.227388 GAGGAAGCTGACATGGTGTTTG 59.773 50.000 0.00 0.00 0.00 2.93
266 267 2.158623 AGGAAGCTGACATGGTGTTTGA 60.159 45.455 0.00 0.00 0.00 2.69
267 268 2.622942 GGAAGCTGACATGGTGTTTGAA 59.377 45.455 0.00 0.00 0.00 2.69
268 269 3.068024 GGAAGCTGACATGGTGTTTGAAA 59.932 43.478 0.00 0.00 0.00 2.69
269 270 4.262164 GGAAGCTGACATGGTGTTTGAAAT 60.262 41.667 0.00 0.00 0.00 2.17
270 271 4.942761 AGCTGACATGGTGTTTGAAATT 57.057 36.364 0.00 0.00 0.00 1.82
271 272 4.874970 AGCTGACATGGTGTTTGAAATTC 58.125 39.130 0.00 0.00 0.00 2.17
272 273 4.341806 AGCTGACATGGTGTTTGAAATTCA 59.658 37.500 0.00 0.00 0.00 2.57
273 274 5.011329 AGCTGACATGGTGTTTGAAATTCAT 59.989 36.000 0.00 0.00 0.00 2.57
274 275 6.209192 AGCTGACATGGTGTTTGAAATTCATA 59.791 34.615 0.00 0.00 0.00 2.15
275 276 7.037438 GCTGACATGGTGTTTGAAATTCATAT 58.963 34.615 0.00 0.00 0.00 1.78
276 277 7.009815 GCTGACATGGTGTTTGAAATTCATATG 59.990 37.037 0.00 0.00 0.00 1.78
277 278 7.321908 TGACATGGTGTTTGAAATTCATATGG 58.678 34.615 2.13 0.00 0.00 2.74
278 279 7.039152 TGACATGGTGTTTGAAATTCATATGGT 60.039 33.333 2.13 0.00 0.00 3.55
279 280 7.322664 ACATGGTGTTTGAAATTCATATGGTC 58.677 34.615 2.13 0.00 0.00 4.02
280 281 6.907853 TGGTGTTTGAAATTCATATGGTCA 57.092 33.333 2.13 0.00 0.00 4.02
281 282 7.479352 TGGTGTTTGAAATTCATATGGTCAT 57.521 32.000 2.13 0.00 0.00 3.06
282 283 7.905265 TGGTGTTTGAAATTCATATGGTCATT 58.095 30.769 2.13 0.00 0.00 2.57
283 284 7.818446 TGGTGTTTGAAATTCATATGGTCATTG 59.182 33.333 2.13 0.00 0.00 2.82
284 285 7.818930 GGTGTTTGAAATTCATATGGTCATTGT 59.181 33.333 2.13 0.00 0.00 2.71
285 286 8.649841 GTGTTTGAAATTCATATGGTCATTGTG 58.350 33.333 2.13 0.00 0.00 3.33
286 287 8.583296 TGTTTGAAATTCATATGGTCATTGTGA 58.417 29.630 2.13 0.00 0.00 3.58
287 288 9.590451 GTTTGAAATTCATATGGTCATTGTGAT 57.410 29.630 2.13 0.00 0.00 3.06
288 289 9.806203 TTTGAAATTCATATGGTCATTGTGATC 57.194 29.630 2.13 0.00 0.00 2.92
289 290 7.641760 TGAAATTCATATGGTCATTGTGATCG 58.358 34.615 2.13 0.00 27.66 3.69
290 291 7.498570 TGAAATTCATATGGTCATTGTGATCGA 59.501 33.333 2.13 0.00 27.66 3.59
291 292 6.791887 ATTCATATGGTCATTGTGATCGAC 57.208 37.500 2.13 0.00 27.66 4.20
295 296 2.672961 GGTCATTGTGATCGACCAGA 57.327 50.000 10.77 0.00 46.98 3.86
296 297 3.185246 GGTCATTGTGATCGACCAGAT 57.815 47.619 10.77 0.00 46.98 2.90
297 298 2.868583 GGTCATTGTGATCGACCAGATG 59.131 50.000 10.77 0.00 46.98 2.90
298 299 2.286294 GTCATTGTGATCGACCAGATGC 59.714 50.000 0.00 0.00 40.26 3.91
299 300 2.169144 TCATTGTGATCGACCAGATGCT 59.831 45.455 0.00 0.00 40.26 3.79
300 301 2.014335 TTGTGATCGACCAGATGCTG 57.986 50.000 0.00 0.00 40.26 4.41
301 302 0.460811 TGTGATCGACCAGATGCTGC 60.461 55.000 0.00 0.00 40.26 5.25
302 303 1.227060 TGATCGACCAGATGCTGCG 60.227 57.895 0.00 0.00 40.26 5.18
303 304 2.587194 ATCGACCAGATGCTGCGC 60.587 61.111 0.00 0.00 38.36 6.09
304 305 4.819761 TCGACCAGATGCTGCGCC 62.820 66.667 4.18 0.00 0.00 6.53
306 307 4.783621 GACCAGATGCTGCGCCCA 62.784 66.667 4.18 1.81 0.00 5.36
307 308 4.349503 ACCAGATGCTGCGCCCAA 62.350 61.111 4.18 0.00 0.00 4.12
308 309 2.831742 CCAGATGCTGCGCCCAAT 60.832 61.111 4.18 0.00 0.00 3.16
309 310 2.411701 CAGATGCTGCGCCCAATG 59.588 61.111 4.18 2.29 0.00 2.82
310 311 2.044650 AGATGCTGCGCCCAATGT 60.045 55.556 4.18 0.00 0.00 2.71
311 312 2.117156 AGATGCTGCGCCCAATGTC 61.117 57.895 4.18 0.00 0.00 3.06
312 313 2.361483 ATGCTGCGCCCAATGTCA 60.361 55.556 4.18 0.00 0.00 3.58
313 314 2.603135 GATGCTGCGCCCAATGTCAC 62.603 60.000 4.18 0.00 0.00 3.67
314 315 4.120331 GCTGCGCCCAATGTCACC 62.120 66.667 4.18 0.00 0.00 4.02
315 316 3.443045 CTGCGCCCAATGTCACCC 61.443 66.667 4.18 0.00 0.00 4.61
316 317 4.277009 TGCGCCCAATGTCACCCA 62.277 61.111 4.18 0.00 0.00 4.51
317 318 3.443045 GCGCCCAATGTCACCCAG 61.443 66.667 0.00 0.00 0.00 4.45
318 319 2.350895 CGCCCAATGTCACCCAGA 59.649 61.111 0.00 0.00 0.00 3.86
319 320 1.746615 CGCCCAATGTCACCCAGAG 60.747 63.158 0.00 0.00 0.00 3.35
320 321 2.048603 GCCCAATGTCACCCAGAGC 61.049 63.158 0.00 0.00 0.00 4.09
321 322 1.379044 CCCAATGTCACCCAGAGCC 60.379 63.158 0.00 0.00 0.00 4.70
322 323 1.687612 CCAATGTCACCCAGAGCCT 59.312 57.895 0.00 0.00 0.00 4.58
323 324 0.393537 CCAATGTCACCCAGAGCCTC 60.394 60.000 0.00 0.00 0.00 4.70
324 325 0.393537 CAATGTCACCCAGAGCCTCC 60.394 60.000 0.00 0.00 0.00 4.30
325 326 0.842030 AATGTCACCCAGAGCCTCCA 60.842 55.000 0.00 0.00 0.00 3.86
326 327 1.270414 ATGTCACCCAGAGCCTCCAG 61.270 60.000 0.00 0.00 0.00 3.86
327 328 2.284921 TCACCCAGAGCCTCCAGG 60.285 66.667 0.00 0.00 38.53 4.45
328 329 3.406200 CACCCAGAGCCTCCAGGG 61.406 72.222 16.20 16.20 46.96 4.45
389 390 4.462483 GGATACCATTTTCTGCCTTTCACA 59.538 41.667 0.00 0.00 0.00 3.58
429 430 3.421844 AGCCCCTCTGTTTGTTTATGTC 58.578 45.455 0.00 0.00 0.00 3.06
546 547 0.960364 ATTCATCGCCCACGCAAAGT 60.960 50.000 0.00 0.00 39.84 2.66
811 817 0.548510 TCATCCACAACACCACCACA 59.451 50.000 0.00 0.00 0.00 4.17
881 887 6.723977 ACAAGGCAAAAGAATGGTAATCCTTA 59.276 34.615 0.00 0.00 30.98 2.69
1043 1049 1.967779 TCCAATCACAACTGGAGACGA 59.032 47.619 0.00 0.00 36.79 4.20
1195 1201 2.361610 CCAAGGGATTGCGCCTGT 60.362 61.111 4.18 0.00 0.00 4.00
1294 1300 8.772250 AGACATCTATGTTTATCCTCCTTTTCA 58.228 33.333 0.00 0.00 41.95 2.69
1358 1364 9.100554 GCTATCGATTATCTGCTACTTAGACTA 57.899 37.037 1.71 0.00 0.00 2.59
1366 1372 6.051179 TCTGCTACTTAGACTACTCTGTCA 57.949 41.667 0.00 0.00 39.27 3.58
1670 1680 5.559770 TGATTGGAAGACAACTGCAGAATA 58.440 37.500 23.35 0.00 42.94 1.75
1732 1743 9.661187 GATTATTCAGAAATACATTCAGCACAG 57.339 33.333 0.00 0.00 40.72 3.66
1758 1769 9.542462 GACCAGTATTTACAAATAGTAGATGCA 57.458 33.333 0.00 0.00 33.97 3.96
1866 1878 4.058124 GCGATGGACAATACTGCAATCTA 58.942 43.478 0.00 0.00 0.00 1.98
1927 1939 6.887013 AGCATCAGTTATCTCAAGTGAATCT 58.113 36.000 0.00 0.00 33.77 2.40
2004 2016 5.198965 AGCCAATCAGATCAGTAGCAAATT 58.801 37.500 0.00 0.00 0.00 1.82
2131 2151 0.541392 TGCACGGAAGGATATGCACT 59.459 50.000 0.00 0.00 42.92 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.695231 GCCACGCAACAGCAGCAG 62.695 66.667 0.00 0.00 0.00 4.24
2 3 4.695231 CAGCCACGCAACAGCAGC 62.695 66.667 0.00 0.00 0.00 5.25
3 4 4.034258 CCAGCCACGCAACAGCAG 62.034 66.667 0.00 0.00 0.00 4.24
6 7 4.332637 GTGCCAGCCACGCAACAG 62.333 66.667 0.00 0.00 38.13 3.16
22 23 1.071471 GTAGCTGCCACACACTGGT 59.929 57.895 0.00 0.00 42.99 4.00
23 24 0.952497 CAGTAGCTGCCACACACTGG 60.952 60.000 0.00 0.00 44.08 4.00
24 25 0.033920 TCAGTAGCTGCCACACACTG 59.966 55.000 0.00 0.00 38.34 3.66
25 26 0.319728 CTCAGTAGCTGCCACACACT 59.680 55.000 0.00 0.00 0.00 3.55
26 27 0.318441 TCTCAGTAGCTGCCACACAC 59.682 55.000 0.00 0.00 0.00 3.82
27 28 1.066645 CATCTCAGTAGCTGCCACACA 60.067 52.381 0.00 0.00 0.00 3.72
28 29 1.649664 CATCTCAGTAGCTGCCACAC 58.350 55.000 0.00 0.00 0.00 3.82
29 30 0.538584 CCATCTCAGTAGCTGCCACA 59.461 55.000 0.00 0.00 0.00 4.17
30 31 0.179062 CCCATCTCAGTAGCTGCCAC 60.179 60.000 0.00 0.00 0.00 5.01
31 32 1.976132 GCCCATCTCAGTAGCTGCCA 61.976 60.000 0.00 0.00 0.00 4.92
32 33 1.227793 GCCCATCTCAGTAGCTGCC 60.228 63.158 0.00 0.00 0.00 4.85
33 34 1.593750 CGCCCATCTCAGTAGCTGC 60.594 63.158 0.00 0.00 0.00 5.25
34 35 1.593750 GCGCCCATCTCAGTAGCTG 60.594 63.158 0.00 0.00 0.00 4.24
35 36 2.025767 CTGCGCCCATCTCAGTAGCT 62.026 60.000 4.18 0.00 0.00 3.32
36 37 1.593750 CTGCGCCCATCTCAGTAGC 60.594 63.158 4.18 0.00 0.00 3.58
37 38 0.176680 AACTGCGCCCATCTCAGTAG 59.823 55.000 4.18 0.00 39.64 2.57
38 39 0.613260 AAACTGCGCCCATCTCAGTA 59.387 50.000 4.18 0.00 39.64 2.74
39 40 0.613260 TAAACTGCGCCCATCTCAGT 59.387 50.000 4.18 0.00 42.12 3.41
40 41 1.009829 GTAAACTGCGCCCATCTCAG 58.990 55.000 4.18 0.00 33.85 3.35
41 42 0.613260 AGTAAACTGCGCCCATCTCA 59.387 50.000 4.18 0.00 0.00 3.27
42 43 1.134670 AGAGTAAACTGCGCCCATCTC 60.135 52.381 4.18 5.66 0.00 2.75
43 44 0.905357 AGAGTAAACTGCGCCCATCT 59.095 50.000 4.18 0.00 0.00 2.90
44 45 1.009829 CAGAGTAAACTGCGCCCATC 58.990 55.000 4.18 0.00 0.00 3.51
45 46 0.324943 ACAGAGTAAACTGCGCCCAT 59.675 50.000 4.18 0.00 41.06 4.00
46 47 0.602638 CACAGAGTAAACTGCGCCCA 60.603 55.000 4.18 0.00 41.06 5.36
47 48 0.602905 ACACAGAGTAAACTGCGCCC 60.603 55.000 4.18 0.00 41.06 6.13
48 49 1.194772 GAACACAGAGTAAACTGCGCC 59.805 52.381 4.18 0.00 41.06 6.53
49 50 1.136611 CGAACACAGAGTAAACTGCGC 60.137 52.381 0.00 0.00 41.06 6.09
50 51 1.455786 CCGAACACAGAGTAAACTGCG 59.544 52.381 0.00 0.00 41.06 5.18
51 52 2.221055 CACCGAACACAGAGTAAACTGC 59.779 50.000 0.00 0.00 41.06 4.40
52 53 3.713288 TCACCGAACACAGAGTAAACTG 58.287 45.455 0.00 0.00 42.78 3.16
53 54 4.307432 CATCACCGAACACAGAGTAAACT 58.693 43.478 0.00 0.00 0.00 2.66
54 55 3.432252 CCATCACCGAACACAGAGTAAAC 59.568 47.826 0.00 0.00 0.00 2.01
55 56 3.070446 ACCATCACCGAACACAGAGTAAA 59.930 43.478 0.00 0.00 0.00 2.01
56 57 2.631062 ACCATCACCGAACACAGAGTAA 59.369 45.455 0.00 0.00 0.00 2.24
57 58 2.029380 CACCATCACCGAACACAGAGTA 60.029 50.000 0.00 0.00 0.00 2.59
58 59 1.048601 ACCATCACCGAACACAGAGT 58.951 50.000 0.00 0.00 0.00 3.24
59 60 1.270305 ACACCATCACCGAACACAGAG 60.270 52.381 0.00 0.00 0.00 3.35
60 61 0.756294 ACACCATCACCGAACACAGA 59.244 50.000 0.00 0.00 0.00 3.41
61 62 1.264020 CAACACCATCACCGAACACAG 59.736 52.381 0.00 0.00 0.00 3.66
62 63 1.134371 TCAACACCATCACCGAACACA 60.134 47.619 0.00 0.00 0.00 3.72
63 64 1.588674 TCAACACCATCACCGAACAC 58.411 50.000 0.00 0.00 0.00 3.32
64 65 2.333688 TTCAACACCATCACCGAACA 57.666 45.000 0.00 0.00 0.00 3.18
65 66 3.628017 CTTTTCAACACCATCACCGAAC 58.372 45.455 0.00 0.00 0.00 3.95
66 67 2.034053 GCTTTTCAACACCATCACCGAA 59.966 45.455 0.00 0.00 0.00 4.30
67 68 1.606668 GCTTTTCAACACCATCACCGA 59.393 47.619 0.00 0.00 0.00 4.69
68 69 1.336440 TGCTTTTCAACACCATCACCG 59.664 47.619 0.00 0.00 0.00 4.94
69 70 2.742774 GTGCTTTTCAACACCATCACC 58.257 47.619 0.00 0.00 0.00 4.02
76 77 2.794631 CGGTCAAGGTGCTTTTCAACAC 60.795 50.000 0.00 0.00 33.90 3.32
77 78 1.403679 CGGTCAAGGTGCTTTTCAACA 59.596 47.619 0.00 0.00 33.90 3.33
78 79 1.673920 TCGGTCAAGGTGCTTTTCAAC 59.326 47.619 0.00 0.00 0.00 3.18
79 80 1.946768 CTCGGTCAAGGTGCTTTTCAA 59.053 47.619 0.00 0.00 0.00 2.69
80 81 1.593196 CTCGGTCAAGGTGCTTTTCA 58.407 50.000 0.00 0.00 0.00 2.69
81 82 0.238553 GCTCGGTCAAGGTGCTTTTC 59.761 55.000 0.00 0.00 0.00 2.29
82 83 1.172812 GGCTCGGTCAAGGTGCTTTT 61.173 55.000 0.00 0.00 0.00 2.27
83 84 1.600916 GGCTCGGTCAAGGTGCTTT 60.601 57.895 0.00 0.00 0.00 3.51
84 85 2.032681 GGCTCGGTCAAGGTGCTT 59.967 61.111 0.00 0.00 0.00 3.91
85 86 2.738213 CTTGGCTCGGTCAAGGTGCT 62.738 60.000 9.55 0.00 41.02 4.40
86 87 2.281484 TTGGCTCGGTCAAGGTGC 60.281 61.111 0.00 0.00 0.00 5.01
87 88 3.972227 CTTGGCTCGGTCAAGGTG 58.028 61.111 9.55 0.00 41.02 4.00
90 91 1.826385 AATTCCTTGGCTCGGTCAAG 58.174 50.000 10.24 10.24 43.90 3.02
91 92 2.286365 AAATTCCTTGGCTCGGTCAA 57.714 45.000 0.00 0.00 0.00 3.18
92 93 2.304761 ACTAAATTCCTTGGCTCGGTCA 59.695 45.455 0.00 0.00 0.00 4.02
93 94 2.987232 ACTAAATTCCTTGGCTCGGTC 58.013 47.619 0.00 0.00 0.00 4.79
94 95 3.681874 GCTACTAAATTCCTTGGCTCGGT 60.682 47.826 0.00 0.00 0.00 4.69
95 96 2.872858 GCTACTAAATTCCTTGGCTCGG 59.127 50.000 0.00 0.00 0.00 4.63
96 97 3.531538 TGCTACTAAATTCCTTGGCTCG 58.468 45.455 0.00 0.00 0.00 5.03
97 98 6.203723 CACTATGCTACTAAATTCCTTGGCTC 59.796 42.308 0.00 0.00 0.00 4.70
98 99 6.058183 CACTATGCTACTAAATTCCTTGGCT 58.942 40.000 0.00 0.00 0.00 4.75
99 100 5.239525 CCACTATGCTACTAAATTCCTTGGC 59.760 44.000 0.00 0.00 0.00 4.52
100 101 5.765182 CCCACTATGCTACTAAATTCCTTGG 59.235 44.000 0.00 0.00 0.00 3.61
101 102 6.591935 TCCCACTATGCTACTAAATTCCTTG 58.408 40.000 0.00 0.00 0.00 3.61
102 103 6.824958 TCCCACTATGCTACTAAATTCCTT 57.175 37.500 0.00 0.00 0.00 3.36
103 104 6.558775 TCATCCCACTATGCTACTAAATTCCT 59.441 38.462 0.00 0.00 0.00 3.36
104 105 6.769512 TCATCCCACTATGCTACTAAATTCC 58.230 40.000 0.00 0.00 0.00 3.01
105 106 8.854614 AATCATCCCACTATGCTACTAAATTC 57.145 34.615 0.00 0.00 0.00 2.17
107 108 9.726438 GTTAATCATCCCACTATGCTACTAAAT 57.274 33.333 0.00 0.00 0.00 1.40
108 109 8.154856 GGTTAATCATCCCACTATGCTACTAAA 58.845 37.037 0.00 0.00 0.00 1.85
109 110 7.291416 TGGTTAATCATCCCACTATGCTACTAA 59.709 37.037 0.00 0.00 0.00 2.24
110 111 6.785466 TGGTTAATCATCCCACTATGCTACTA 59.215 38.462 0.00 0.00 0.00 1.82
111 112 5.606749 TGGTTAATCATCCCACTATGCTACT 59.393 40.000 0.00 0.00 0.00 2.57
112 113 5.865085 TGGTTAATCATCCCACTATGCTAC 58.135 41.667 0.00 0.00 0.00 3.58
113 114 6.508030 TTGGTTAATCATCCCACTATGCTA 57.492 37.500 0.00 0.00 0.00 3.49
114 115 5.387113 TTGGTTAATCATCCCACTATGCT 57.613 39.130 0.00 0.00 0.00 3.79
115 116 6.655078 AATTGGTTAATCATCCCACTATGC 57.345 37.500 0.00 0.00 0.00 3.14
138 139 9.804758 GAGAAGATCGTATAGGAAAGAGAAAAA 57.195 33.333 0.00 0.00 0.00 1.94
139 140 8.967918 TGAGAAGATCGTATAGGAAAGAGAAAA 58.032 33.333 0.00 0.00 0.00 2.29
140 141 8.521170 TGAGAAGATCGTATAGGAAAGAGAAA 57.479 34.615 0.00 0.00 0.00 2.52
141 142 8.698973 ATGAGAAGATCGTATAGGAAAGAGAA 57.301 34.615 0.00 0.00 0.00 2.87
142 143 9.967451 ATATGAGAAGATCGTATAGGAAAGAGA 57.033 33.333 0.00 0.00 38.18 3.10
144 145 9.740710 TCATATGAGAAGATCGTATAGGAAAGA 57.259 33.333 0.00 0.00 37.93 2.52
154 155 9.784531 ACCAAAATTATCATATGAGAAGATCGT 57.215 29.630 17.13 7.57 0.00 3.73
158 159 9.342308 GGACACCAAAATTATCATATGAGAAGA 57.658 33.333 17.13 0.00 0.00 2.87
159 160 9.347240 AGGACACCAAAATTATCATATGAGAAG 57.653 33.333 17.13 6.79 0.00 2.85
160 161 9.123902 CAGGACACCAAAATTATCATATGAGAA 57.876 33.333 14.75 14.75 0.00 2.87
161 162 7.720957 CCAGGACACCAAAATTATCATATGAGA 59.279 37.037 11.78 3.36 0.00 3.27
162 163 7.503566 ACCAGGACACCAAAATTATCATATGAG 59.496 37.037 11.78 0.00 0.00 2.90
163 164 7.353525 ACCAGGACACCAAAATTATCATATGA 58.646 34.615 8.10 8.10 0.00 2.15
164 165 7.587037 ACCAGGACACCAAAATTATCATATG 57.413 36.000 0.00 0.00 0.00 1.78
165 166 7.944554 CCTACCAGGACACCAAAATTATCATAT 59.055 37.037 0.00 0.00 37.67 1.78
166 167 7.287061 CCTACCAGGACACCAAAATTATCATA 58.713 38.462 0.00 0.00 37.67 2.15
167 168 6.129179 CCTACCAGGACACCAAAATTATCAT 58.871 40.000 0.00 0.00 37.67 2.45
168 169 5.505780 CCTACCAGGACACCAAAATTATCA 58.494 41.667 0.00 0.00 37.67 2.15
169 170 4.887655 CCCTACCAGGACACCAAAATTATC 59.112 45.833 0.00 0.00 37.67 1.75
170 171 4.542525 TCCCTACCAGGACACCAAAATTAT 59.457 41.667 0.00 0.00 37.67 1.28
171 172 3.917629 TCCCTACCAGGACACCAAAATTA 59.082 43.478 0.00 0.00 37.67 1.40
172 173 2.719705 TCCCTACCAGGACACCAAAATT 59.280 45.455 0.00 0.00 37.67 1.82
173 174 2.308866 CTCCCTACCAGGACACCAAAAT 59.691 50.000 0.00 0.00 37.67 1.82
174 175 1.702957 CTCCCTACCAGGACACCAAAA 59.297 52.381 0.00 0.00 37.67 2.44
175 176 1.358152 CTCCCTACCAGGACACCAAA 58.642 55.000 0.00 0.00 37.67 3.28
176 177 0.546747 CCTCCCTACCAGGACACCAA 60.547 60.000 0.00 0.00 37.67 3.67
177 178 1.080354 CCTCCCTACCAGGACACCA 59.920 63.158 0.00 0.00 37.67 4.17
178 179 1.689582 CCCTCCCTACCAGGACACC 60.690 68.421 0.00 0.00 37.67 4.16
179 180 0.031010 ATCCCTCCCTACCAGGACAC 60.031 60.000 0.00 0.00 37.67 3.67
180 181 0.264955 GATCCCTCCCTACCAGGACA 59.735 60.000 0.00 0.00 37.67 4.02
181 182 0.828343 CGATCCCTCCCTACCAGGAC 60.828 65.000 0.00 0.00 37.67 3.85
182 183 1.542175 CGATCCCTCCCTACCAGGA 59.458 63.158 0.00 0.00 37.67 3.86
183 184 1.534235 CCGATCCCTCCCTACCAGG 60.534 68.421 0.00 0.00 34.30 4.45
184 185 2.210711 GCCGATCCCTCCCTACCAG 61.211 68.421 0.00 0.00 0.00 4.00
185 186 2.122989 GCCGATCCCTCCCTACCA 60.123 66.667 0.00 0.00 0.00 3.25
186 187 1.054978 AAAGCCGATCCCTCCCTACC 61.055 60.000 0.00 0.00 0.00 3.18
187 188 0.106894 CAAAGCCGATCCCTCCCTAC 59.893 60.000 0.00 0.00 0.00 3.18
188 189 1.054406 CCAAAGCCGATCCCTCCCTA 61.054 60.000 0.00 0.00 0.00 3.53
189 190 2.378634 CCAAAGCCGATCCCTCCCT 61.379 63.158 0.00 0.00 0.00 4.20
190 191 1.342672 TACCAAAGCCGATCCCTCCC 61.343 60.000 0.00 0.00 0.00 4.30
191 192 0.106894 CTACCAAAGCCGATCCCTCC 59.893 60.000 0.00 0.00 0.00 4.30
192 193 0.533085 GCTACCAAAGCCGATCCCTC 60.533 60.000 0.00 0.00 46.25 4.30
193 194 1.527370 GCTACCAAAGCCGATCCCT 59.473 57.895 0.00 0.00 46.25 4.20
194 195 4.142780 GCTACCAAAGCCGATCCC 57.857 61.111 0.00 0.00 46.25 3.85
224 225 4.770874 CTACAACCCCGTGGCCCG 62.771 72.222 0.00 2.96 33.59 6.13
226 227 4.338710 TGCTACAACCCCGTGGCC 62.339 66.667 0.00 0.00 42.26 5.36
227 228 2.746277 CTGCTACAACCCCGTGGC 60.746 66.667 0.00 0.00 43.15 5.01
228 229 1.079127 CTCTGCTACAACCCCGTGG 60.079 63.158 0.00 0.00 37.80 4.94
229 230 1.079127 CCTCTGCTACAACCCCGTG 60.079 63.158 0.00 0.00 0.00 4.94
230 231 0.834687 TTCCTCTGCTACAACCCCGT 60.835 55.000 0.00 0.00 0.00 5.28
231 232 0.108138 CTTCCTCTGCTACAACCCCG 60.108 60.000 0.00 0.00 0.00 5.73
232 233 0.393132 GCTTCCTCTGCTACAACCCC 60.393 60.000 0.00 0.00 0.00 4.95
233 234 0.615850 AGCTTCCTCTGCTACAACCC 59.384 55.000 0.00 0.00 39.21 4.11
234 235 1.276421 TCAGCTTCCTCTGCTACAACC 59.724 52.381 0.00 0.00 38.92 3.77
235 236 2.289072 TGTCAGCTTCCTCTGCTACAAC 60.289 50.000 0.00 0.00 38.92 3.32
236 237 1.970640 TGTCAGCTTCCTCTGCTACAA 59.029 47.619 0.00 0.00 38.92 2.41
237 238 1.632589 TGTCAGCTTCCTCTGCTACA 58.367 50.000 0.00 0.00 38.92 2.74
238 239 2.548875 CATGTCAGCTTCCTCTGCTAC 58.451 52.381 0.00 0.00 38.92 3.58
239 240 1.483827 CCATGTCAGCTTCCTCTGCTA 59.516 52.381 0.00 0.00 38.92 3.49
240 241 0.252479 CCATGTCAGCTTCCTCTGCT 59.748 55.000 0.00 0.00 42.06 4.24
241 242 0.035630 ACCATGTCAGCTTCCTCTGC 60.036 55.000 0.00 0.00 34.19 4.26
242 243 1.002888 ACACCATGTCAGCTTCCTCTG 59.997 52.381 0.00 0.00 35.46 3.35
243 244 1.356124 ACACCATGTCAGCTTCCTCT 58.644 50.000 0.00 0.00 0.00 3.69
244 245 2.191128 AACACCATGTCAGCTTCCTC 57.809 50.000 0.00 0.00 0.00 3.71
245 246 2.158623 TCAAACACCATGTCAGCTTCCT 60.159 45.455 0.00 0.00 0.00 3.36
246 247 2.229792 TCAAACACCATGTCAGCTTCC 58.770 47.619 0.00 0.00 0.00 3.46
247 248 3.988379 TTCAAACACCATGTCAGCTTC 57.012 42.857 0.00 0.00 0.00 3.86
248 249 4.942761 ATTTCAAACACCATGTCAGCTT 57.057 36.364 0.00 0.00 0.00 3.74
249 250 4.341806 TGAATTTCAAACACCATGTCAGCT 59.658 37.500 0.00 0.00 0.00 4.24
250 251 4.619973 TGAATTTCAAACACCATGTCAGC 58.380 39.130 0.00 0.00 0.00 4.26
251 252 7.490079 CCATATGAATTTCAAACACCATGTCAG 59.510 37.037 3.65 0.00 0.00 3.51
252 253 7.039152 ACCATATGAATTTCAAACACCATGTCA 60.039 33.333 3.65 0.00 0.00 3.58
253 254 7.322664 ACCATATGAATTTCAAACACCATGTC 58.677 34.615 3.65 0.00 0.00 3.06
254 255 7.039152 TGACCATATGAATTTCAAACACCATGT 60.039 33.333 3.65 0.00 0.00 3.21
255 256 7.321908 TGACCATATGAATTTCAAACACCATG 58.678 34.615 3.65 1.59 0.00 3.66
256 257 7.479352 TGACCATATGAATTTCAAACACCAT 57.521 32.000 3.65 0.00 0.00 3.55
257 258 6.907853 TGACCATATGAATTTCAAACACCA 57.092 33.333 3.65 0.00 0.00 4.17
258 259 7.818930 ACAATGACCATATGAATTTCAAACACC 59.181 33.333 3.65 0.00 0.00 4.16
259 260 8.649841 CACAATGACCATATGAATTTCAAACAC 58.350 33.333 3.65 0.00 0.00 3.32
260 261 8.583296 TCACAATGACCATATGAATTTCAAACA 58.417 29.630 3.65 0.00 0.00 2.83
261 262 8.984891 TCACAATGACCATATGAATTTCAAAC 57.015 30.769 3.65 0.00 0.00 2.93
262 263 9.806203 GATCACAATGACCATATGAATTTCAAA 57.194 29.630 3.65 0.00 0.00 2.69
263 264 8.130469 CGATCACAATGACCATATGAATTTCAA 58.870 33.333 3.65 0.00 0.00 2.69
264 265 7.498570 TCGATCACAATGACCATATGAATTTCA 59.501 33.333 3.65 0.75 0.00 2.69
265 266 7.800380 GTCGATCACAATGACCATATGAATTTC 59.200 37.037 3.65 0.00 0.00 2.17
266 267 7.642669 GTCGATCACAATGACCATATGAATTT 58.357 34.615 3.65 0.00 0.00 1.82
267 268 7.194607 GTCGATCACAATGACCATATGAATT 57.805 36.000 3.65 0.00 0.00 2.17
268 269 6.791887 GTCGATCACAATGACCATATGAAT 57.208 37.500 3.65 0.00 0.00 2.57
277 278 2.286294 GCATCTGGTCGATCACAATGAC 59.714 50.000 16.75 7.38 0.00 3.06
278 279 2.169144 AGCATCTGGTCGATCACAATGA 59.831 45.455 16.75 4.44 0.00 2.57
279 280 2.287103 CAGCATCTGGTCGATCACAATG 59.713 50.000 10.60 10.60 0.00 2.82
280 281 2.558378 CAGCATCTGGTCGATCACAAT 58.442 47.619 0.00 0.00 0.00 2.71
281 282 2.008543 GCAGCATCTGGTCGATCACAA 61.009 52.381 0.00 0.00 31.21 3.33
282 283 0.460811 GCAGCATCTGGTCGATCACA 60.461 55.000 0.00 0.00 31.21 3.58
283 284 1.485838 CGCAGCATCTGGTCGATCAC 61.486 60.000 0.00 0.00 31.21 3.06
284 285 1.227060 CGCAGCATCTGGTCGATCA 60.227 57.895 0.00 0.00 31.21 2.92
285 286 3.622756 CGCAGCATCTGGTCGATC 58.377 61.111 0.00 0.00 31.21 3.69
298 299 3.443045 GGGTGACATTGGGCGCAG 61.443 66.667 10.83 0.00 0.00 5.18
299 300 4.277009 TGGGTGACATTGGGCGCA 62.277 61.111 10.83 0.00 0.00 6.09
300 301 3.443045 CTGGGTGACATTGGGCGC 61.443 66.667 0.00 0.00 0.00 6.53
301 302 1.746615 CTCTGGGTGACATTGGGCG 60.747 63.158 0.00 0.00 0.00 6.13
302 303 2.048603 GCTCTGGGTGACATTGGGC 61.049 63.158 0.00 0.00 0.00 5.36
303 304 1.379044 GGCTCTGGGTGACATTGGG 60.379 63.158 0.00 0.00 0.00 4.12
304 305 0.393537 GAGGCTCTGGGTGACATTGG 60.394 60.000 7.40 0.00 0.00 3.16
305 306 0.393537 GGAGGCTCTGGGTGACATTG 60.394 60.000 15.23 0.00 0.00 2.82
306 307 0.842030 TGGAGGCTCTGGGTGACATT 60.842 55.000 15.23 0.00 0.00 2.71
307 308 1.229625 TGGAGGCTCTGGGTGACAT 60.230 57.895 15.23 0.00 0.00 3.06
308 309 1.915266 CTGGAGGCTCTGGGTGACA 60.915 63.158 15.23 0.71 0.00 3.58
309 310 2.664081 CCTGGAGGCTCTGGGTGAC 61.664 68.421 15.23 0.00 0.00 3.67
310 311 2.284921 CCTGGAGGCTCTGGGTGA 60.285 66.667 15.23 0.00 0.00 4.02
311 312 3.406200 CCCTGGAGGCTCTGGGTG 61.406 72.222 26.79 14.66 39.98 4.61
320 321 0.257039 ATGCTAACAAGCCCTGGAGG 59.743 55.000 0.00 0.00 39.47 4.30
321 322 1.065199 TGATGCTAACAAGCCCTGGAG 60.065 52.381 0.00 0.00 0.00 3.86
322 323 0.991146 TGATGCTAACAAGCCCTGGA 59.009 50.000 0.00 0.00 0.00 3.86
323 324 2.062971 ATGATGCTAACAAGCCCTGG 57.937 50.000 0.00 0.00 0.00 4.45
324 325 4.641989 ACTTTATGATGCTAACAAGCCCTG 59.358 41.667 0.00 0.00 0.00 4.45
325 326 4.860022 ACTTTATGATGCTAACAAGCCCT 58.140 39.130 0.00 0.00 0.00 5.19
326 327 6.542370 TCTTACTTTATGATGCTAACAAGCCC 59.458 38.462 0.00 0.00 0.00 5.19
327 328 7.553881 TCTTACTTTATGATGCTAACAAGCC 57.446 36.000 0.00 0.00 0.00 4.35
346 347 9.680315 GGTATCCATCGTATAGCATATTCTTAC 57.320 37.037 0.00 0.00 0.00 2.34
347 348 9.416284 TGGTATCCATCGTATAGCATATTCTTA 57.584 33.333 0.00 0.00 33.58 2.10
348 349 8.306313 TGGTATCCATCGTATAGCATATTCTT 57.694 34.615 0.00 0.00 33.58 2.52
349 350 7.898014 TGGTATCCATCGTATAGCATATTCT 57.102 36.000 0.00 0.00 33.58 2.40
350 351 9.547753 AAATGGTATCCATCGTATAGCATATTC 57.452 33.333 7.87 0.00 44.40 1.75
351 352 9.905713 AAAATGGTATCCATCGTATAGCATATT 57.094 29.630 7.87 3.87 44.40 1.28
352 353 9.547753 GAAAATGGTATCCATCGTATAGCATAT 57.452 33.333 7.87 2.25 44.40 1.78
353 354 8.758829 AGAAAATGGTATCCATCGTATAGCATA 58.241 33.333 7.87 0.00 44.40 3.14
354 355 7.550551 CAGAAAATGGTATCCATCGTATAGCAT 59.449 37.037 1.60 0.00 44.40 3.79
355 356 6.873605 CAGAAAATGGTATCCATCGTATAGCA 59.126 38.462 1.60 0.00 44.40 3.49
356 357 6.183360 GCAGAAAATGGTATCCATCGTATAGC 60.183 42.308 1.60 0.43 44.40 2.97
357 358 6.313905 GGCAGAAAATGGTATCCATCGTATAG 59.686 42.308 1.60 0.00 44.40 1.31
429 430 7.798596 AGTTTGCAACAATAGATAGAGGATG 57.201 36.000 0.00 0.00 0.00 3.51
441 442 8.891671 AGATCATTGTAAAAGTTTGCAACAAT 57.108 26.923 9.09 14.09 43.61 2.71
546 547 6.738453 GCCTTTGAACTTTTGGATTGAGCTTA 60.738 38.462 0.00 0.00 0.00 3.09
811 817 6.801718 TGGCACACATAGTAGTTATTAGGT 57.198 37.500 0.00 0.00 0.00 3.08
1043 1049 0.250166 GGCCGTGACAGTGGTAGTTT 60.250 55.000 0.00 0.00 0.00 2.66
1195 1201 7.201644 GCAGCTTGCTTATATTGAGTAGACAAA 60.202 37.037 0.00 0.00 40.96 2.83
1294 1300 7.989741 CACTGTCTCAGGGAATTACATAAGATT 59.010 37.037 1.90 0.00 36.97 2.40
1307 1313 0.106708 GCACAACACTGTCTCAGGGA 59.893 55.000 6.00 0.00 36.97 4.20
1358 1364 4.398988 TGTTTCAAAAGCATGTGACAGAGT 59.601 37.500 0.00 0.00 0.00 3.24
1564 1574 3.146066 GCCAATTGGTGTAAGAGTGTGA 58.854 45.455 25.19 0.00 37.57 3.58
1723 1733 5.222079 TGTAAATACTGGTCTGTGCTGAA 57.778 39.130 0.00 0.00 0.00 3.02
1732 1743 9.542462 TGCATCTACTATTTGTAAATACTGGTC 57.458 33.333 0.00 0.00 0.00 4.02
1772 1784 9.987726 TTTTGATGGTATGATGCCCATAATATA 57.012 29.630 0.00 0.00 41.51 0.86
1813 1825 6.772716 AGAACCTCTGAAGAAATTGCTTTACA 59.227 34.615 0.00 0.00 0.00 2.41
1927 1939 4.100963 TCCTTTTGAGATAGGCGATGCTAA 59.899 41.667 0.00 0.00 0.00 3.09
2131 2151 6.493449 TTGTATCATCAAATCTTTGCGTGA 57.507 33.333 10.73 10.73 38.05 4.35


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

AutoCloner maintained by Alex Coulton.