Multiple sequence alignment - TraesCS7B01G176800

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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 TraesCS7B01G176800 chr7B 100.000 2693 0 0 1 2693 251147252 251144560 0.000000e+00 4974
1 TraesCS7B01G176800 chr1D 96.427 2211 64 9 492 2693 59121617 59119413 0.000000e+00 3631
2 TraesCS7B01G176800 chr1D 96.417 2177 65 7 529 2693 89557407 89555232 0.000000e+00 3576
3 TraesCS7B01G176800 chr1D 92.063 126 10 0 302 427 155712245 155712370 7.660000e-41 178
4 TraesCS7B01G176800 chr1D 94.937 79 4 0 159 237 80296962 80297040 1.010000e-24 124
5 TraesCS7B01G176800 chr5D 96.333 2209 66 6 497 2693 12216614 12218819 0.000000e+00 3616
6 TraesCS7B01G176800 chr5D 93.671 79 5 0 159 237 527195592 527195514 4.710000e-23 119
7 TraesCS7B01G176800 chr7D 96.369 2176 70 5 527 2693 484418657 484420832 0.000000e+00 3572
8 TraesCS7B01G176800 chr6D 95.890 2214 77 7 492 2693 4940234 4942445 0.000000e+00 3572
9 TraesCS7B01G176800 chr3D 96.373 2178 63 11 527 2693 239582396 239580224 0.000000e+00 3570
10 TraesCS7B01G176800 chrUn 95.922 2207 77 6 496 2693 45245378 45243176 0.000000e+00 3565
11 TraesCS7B01G176800 chr6B 96.730 2141 61 6 562 2693 387088321 387086181 0.000000e+00 3557
12 TraesCS7B01G176800 chr6B 82.182 275 30 13 159 422 4527256 4527522 4.510000e-53 219
13 TraesCS7B01G176800 chr6B 94.937 79 4 0 159 237 637399726 637399804 1.010000e-24 124
14 TraesCS7B01G176800 chr6B 94.937 79 4 0 159 237 637404733 637404811 1.010000e-24 124
15 TraesCS7B01G176800 chr4B 95.917 2204 73 13 503 2693 396692497 396694696 0.000000e+00 3555
16 TraesCS7B01G176800 chr4B 96.203 79 3 0 159 237 322646225 322646303 2.180000e-26 130
17 TraesCS7B01G176800 chr1B 91.793 1584 85 12 414 1957 570600647 570599069 0.000000e+00 2163
18 TraesCS7B01G176800 chr1B 92.174 115 9 0 159 273 570600934 570600820 2.150000e-36 163
19 TraesCS7B01G176800 chr2B 94.760 229 10 2 299 526 411524937 411525164 3.300000e-94 355
20 TraesCS7B01G176800 chr2B 97.110 173 5 0 159 331 411524739 411524911 2.620000e-75 292
21 TraesCS7B01G176800 chr2D 94.040 151 8 1 11 161 405966533 405966682 7.500000e-56 228
22 TraesCS7B01G176800 chr2D 82.609 161 26 1 1 161 407669358 407669200 1.010000e-29 141
23 TraesCS7B01G176800 chr4D 91.250 160 10 3 3 161 448928243 448928399 5.840000e-52 215
24 TraesCS7B01G176800 chr4D 96.203 79 3 0 159 237 339059788 339059710 2.180000e-26 130
25 TraesCS7B01G176800 chr7A 91.391 151 12 1 11 161 296784828 296784977 3.510000e-49 206
26 TraesCS7B01G176800 chr3B 82.166 157 24 4 11 164 219003205 219003050 6.050000e-27 132
27 TraesCS7B01G176800 chr3B 85.366 123 16 2 44 164 220324925 220324803 2.810000e-25 126


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 TraesCS7B01G176800 chr7B 251144560 251147252 2692 True 4974 4974 100.0000 1 2693 1 chr7B.!!$R1 2692
1 TraesCS7B01G176800 chr1D 59119413 59121617 2204 True 3631 3631 96.4270 492 2693 1 chr1D.!!$R1 2201
2 TraesCS7B01G176800 chr1D 89555232 89557407 2175 True 3576 3576 96.4170 529 2693 1 chr1D.!!$R2 2164
3 TraesCS7B01G176800 chr5D 12216614 12218819 2205 False 3616 3616 96.3330 497 2693 1 chr5D.!!$F1 2196
4 TraesCS7B01G176800 chr7D 484418657 484420832 2175 False 3572 3572 96.3690 527 2693 1 chr7D.!!$F1 2166
5 TraesCS7B01G176800 chr6D 4940234 4942445 2211 False 3572 3572 95.8900 492 2693 1 chr6D.!!$F1 2201
6 TraesCS7B01G176800 chr3D 239580224 239582396 2172 True 3570 3570 96.3730 527 2693 1 chr3D.!!$R1 2166
7 TraesCS7B01G176800 chrUn 45243176 45245378 2202 True 3565 3565 95.9220 496 2693 1 chrUn.!!$R1 2197
8 TraesCS7B01G176800 chr6B 387086181 387088321 2140 True 3557 3557 96.7300 562 2693 1 chr6B.!!$R1 2131
9 TraesCS7B01G176800 chr4B 396692497 396694696 2199 False 3555 3555 95.9170 503 2693 1 chr4B.!!$F2 2190
10 TraesCS7B01G176800 chr1B 570599069 570600934 1865 True 1163 2163 91.9835 159 1957 2 chr1B.!!$R1 1798

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
340 374 0.039074 CGCAGGTCCCTGATCGATAC 60.039 60.0 17.49 0.0 46.3 2.24 F
1181 1274 0.035739 GGTTGTCGTTCTTGCCCCTA 59.964 55.0 0.00 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1520 1613 0.317160 CCACTTCGTGTAGCACTGGA 59.683 55.000 0.67 0.0 30.63 3.86 R
2057 2163 1.421646 CAGTCCAACTCCCAAAGACCT 59.578 52.381 0.00 0.0 0.00 3.85 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
41 42 7.915293 TTTTCTTTTGTGTAGAGTTCTGTCA 57.085 32.000 0.00 0.00 0.00 3.58
42 43 7.539712 TTTCTTTTGTGTAGAGTTCTGTCAG 57.460 36.000 0.00 0.00 0.00 3.51
43 44 6.465439 TCTTTTGTGTAGAGTTCTGTCAGA 57.535 37.500 0.00 0.00 0.00 3.27
44 45 6.873997 TCTTTTGTGTAGAGTTCTGTCAGAA 58.126 36.000 11.36 11.36 0.00 3.02
54 55 3.452755 TTCTGTCAGAACTTCGAGCAA 57.547 42.857 11.36 0.00 0.00 3.91
55 56 3.018598 TCTGTCAGAACTTCGAGCAAG 57.981 47.619 0.00 0.00 38.21 4.01
56 57 2.623416 TCTGTCAGAACTTCGAGCAAGA 59.377 45.455 0.00 0.00 35.82 3.02
57 58 3.068165 TCTGTCAGAACTTCGAGCAAGAA 59.932 43.478 0.00 0.00 35.82 2.52
58 59 3.792401 TGTCAGAACTTCGAGCAAGAAA 58.208 40.909 0.00 0.00 35.82 2.52
59 60 3.555956 TGTCAGAACTTCGAGCAAGAAAC 59.444 43.478 0.00 0.00 35.82 2.78
60 61 3.555956 GTCAGAACTTCGAGCAAGAAACA 59.444 43.478 0.00 0.00 35.82 2.83
61 62 3.804325 TCAGAACTTCGAGCAAGAAACAG 59.196 43.478 0.00 0.00 35.82 3.16
62 63 3.804325 CAGAACTTCGAGCAAGAAACAGA 59.196 43.478 0.00 0.00 35.82 3.41
63 64 4.271049 CAGAACTTCGAGCAAGAAACAGAA 59.729 41.667 0.00 0.00 35.82 3.02
64 65 4.271291 AGAACTTCGAGCAAGAAACAGAAC 59.729 41.667 0.00 0.00 35.82 3.01
65 66 2.540101 ACTTCGAGCAAGAAACAGAACG 59.460 45.455 0.00 0.00 35.82 3.95
66 67 2.502213 TCGAGCAAGAAACAGAACGA 57.498 45.000 0.00 0.00 0.00 3.85
67 68 2.816689 TCGAGCAAGAAACAGAACGAA 58.183 42.857 0.00 0.00 0.00 3.85
68 69 3.390135 TCGAGCAAGAAACAGAACGAAT 58.610 40.909 0.00 0.00 0.00 3.34
69 70 3.807622 TCGAGCAAGAAACAGAACGAATT 59.192 39.130 0.00 0.00 0.00 2.17
70 71 3.902465 CGAGCAAGAAACAGAACGAATTG 59.098 43.478 0.00 0.00 0.00 2.32
71 72 4.318760 CGAGCAAGAAACAGAACGAATTGA 60.319 41.667 0.00 0.00 0.00 2.57
72 73 5.499139 AGCAAGAAACAGAACGAATTGAA 57.501 34.783 0.00 0.00 0.00 2.69
73 74 5.273944 AGCAAGAAACAGAACGAATTGAAC 58.726 37.500 0.00 0.00 0.00 3.18
74 75 5.066505 AGCAAGAAACAGAACGAATTGAACT 59.933 36.000 0.00 0.00 0.00 3.01
75 76 6.260050 AGCAAGAAACAGAACGAATTGAACTA 59.740 34.615 0.00 0.00 0.00 2.24
76 77 6.575201 GCAAGAAACAGAACGAATTGAACTAG 59.425 38.462 0.00 0.00 0.00 2.57
77 78 6.787085 AGAAACAGAACGAATTGAACTAGG 57.213 37.500 0.00 0.00 0.00 3.02
78 79 6.289064 AGAAACAGAACGAATTGAACTAGGT 58.711 36.000 0.00 0.00 0.00 3.08
79 80 6.424207 AGAAACAGAACGAATTGAACTAGGTC 59.576 38.462 0.00 0.00 0.00 3.85
80 81 5.470047 ACAGAACGAATTGAACTAGGTCT 57.530 39.130 9.68 0.00 0.00 3.85
81 82 5.230942 ACAGAACGAATTGAACTAGGTCTG 58.769 41.667 9.68 0.36 0.00 3.51
82 83 4.627467 CAGAACGAATTGAACTAGGTCTGG 59.373 45.833 9.68 0.00 0.00 3.86
83 84 4.527038 AGAACGAATTGAACTAGGTCTGGA 59.473 41.667 9.68 0.00 0.00 3.86
84 85 4.189639 ACGAATTGAACTAGGTCTGGAC 57.810 45.455 9.68 0.00 0.00 4.02
93 94 2.757077 GGTCTGGACCCCACCAAG 59.243 66.667 8.48 0.00 45.68 3.61
94 95 2.154074 GGTCTGGACCCCACCAAGT 61.154 63.158 8.48 0.00 45.68 3.16
95 96 1.375326 GTCTGGACCCCACCAAGTC 59.625 63.158 0.00 0.00 39.59 3.01
96 97 1.074090 TCTGGACCCCACCAAGTCA 60.074 57.895 0.00 0.00 39.59 3.41
97 98 1.073199 CTGGACCCCACCAAGTCAC 59.927 63.158 0.00 0.00 39.59 3.67
98 99 1.385347 TGGACCCCACCAAGTCACT 60.385 57.895 0.00 0.00 36.96 3.41
99 100 1.375326 GGACCCCACCAAGTCACTC 59.625 63.158 0.00 0.00 34.58 3.51
100 101 1.004918 GACCCCACCAAGTCACTCG 60.005 63.158 0.00 0.00 33.08 4.18
101 102 1.755393 GACCCCACCAAGTCACTCGT 61.755 60.000 0.00 0.00 33.08 4.18
102 103 1.004918 CCCCACCAAGTCACTCGTC 60.005 63.158 0.00 0.00 0.00 4.20
103 104 1.745890 CCCACCAAGTCACTCGTCA 59.254 57.895 0.00 0.00 0.00 4.35
104 105 0.105964 CCCACCAAGTCACTCGTCAA 59.894 55.000 0.00 0.00 0.00 3.18
105 106 1.474320 CCCACCAAGTCACTCGTCAAA 60.474 52.381 0.00 0.00 0.00 2.69
106 107 1.867233 CCACCAAGTCACTCGTCAAAG 59.133 52.381 0.00 0.00 0.00 2.77
107 108 2.483013 CCACCAAGTCACTCGTCAAAGA 60.483 50.000 0.00 0.00 0.00 2.52
108 109 3.393800 CACCAAGTCACTCGTCAAAGAT 58.606 45.455 0.00 0.00 0.00 2.40
109 110 3.185188 CACCAAGTCACTCGTCAAAGATG 59.815 47.826 0.00 0.00 0.00 2.90
110 111 3.069586 ACCAAGTCACTCGTCAAAGATGA 59.930 43.478 0.00 0.00 0.00 2.92
111 112 4.248859 CCAAGTCACTCGTCAAAGATGAT 58.751 43.478 0.00 0.00 38.01 2.45
112 113 4.092529 CCAAGTCACTCGTCAAAGATGATG 59.907 45.833 0.00 0.00 42.82 3.07
113 114 3.257393 AGTCACTCGTCAAAGATGATGC 58.743 45.455 0.00 0.00 41.50 3.91
114 115 2.349886 GTCACTCGTCAAAGATGATGCC 59.650 50.000 0.00 0.00 41.50 4.40
115 116 1.325640 CACTCGTCAAAGATGATGCCG 59.674 52.381 0.00 0.00 41.50 5.69
116 117 0.302890 CTCGTCAAAGATGATGCCGC 59.697 55.000 0.00 0.00 41.50 6.53
117 118 0.108186 TCGTCAAAGATGATGCCGCT 60.108 50.000 0.00 0.00 41.50 5.52
118 119 1.136110 TCGTCAAAGATGATGCCGCTA 59.864 47.619 0.00 0.00 41.50 4.26
119 120 2.138320 CGTCAAAGATGATGCCGCTAT 58.862 47.619 0.00 0.00 38.01 2.97
120 121 3.005367 TCGTCAAAGATGATGCCGCTATA 59.995 43.478 0.00 0.00 41.50 1.31
121 122 3.740832 CGTCAAAGATGATGCCGCTATAA 59.259 43.478 0.00 0.00 38.01 0.98
122 123 4.211164 CGTCAAAGATGATGCCGCTATAAA 59.789 41.667 0.00 0.00 38.01 1.40
123 124 5.106948 CGTCAAAGATGATGCCGCTATAAAT 60.107 40.000 0.00 0.00 38.01 1.40
124 125 6.082338 GTCAAAGATGATGCCGCTATAAATG 58.918 40.000 0.00 0.00 38.01 2.32
125 126 5.764686 TCAAAGATGATGCCGCTATAAATGT 59.235 36.000 0.00 0.00 0.00 2.71
126 127 5.618056 AAGATGATGCCGCTATAAATGTG 57.382 39.130 0.00 0.00 0.00 3.21
127 128 3.438087 AGATGATGCCGCTATAAATGTGC 59.562 43.478 0.00 0.00 0.00 4.57
128 129 2.849942 TGATGCCGCTATAAATGTGCT 58.150 42.857 0.00 0.00 0.00 4.40
129 130 4.001618 TGATGCCGCTATAAATGTGCTA 57.998 40.909 0.00 0.00 0.00 3.49
130 131 3.745975 TGATGCCGCTATAAATGTGCTAC 59.254 43.478 0.00 0.00 0.00 3.58
131 132 2.131972 TGCCGCTATAAATGTGCTACG 58.868 47.619 0.00 0.00 0.00 3.51
132 133 2.223852 TGCCGCTATAAATGTGCTACGA 60.224 45.455 0.00 0.00 0.00 3.43
133 134 2.155155 GCCGCTATAAATGTGCTACGAC 59.845 50.000 0.00 0.00 0.00 4.34
134 135 3.639538 CCGCTATAAATGTGCTACGACT 58.360 45.455 0.00 0.00 0.00 4.18
135 136 4.049186 CCGCTATAAATGTGCTACGACTT 58.951 43.478 0.00 0.00 0.00 3.01
136 137 4.085055 CCGCTATAAATGTGCTACGACTTG 60.085 45.833 0.00 0.00 0.00 3.16
137 138 4.738252 CGCTATAAATGTGCTACGACTTGA 59.262 41.667 0.00 0.00 0.00 3.02
138 139 5.231357 CGCTATAAATGTGCTACGACTTGAA 59.769 40.000 0.00 0.00 0.00 2.69
139 140 6.560433 CGCTATAAATGTGCTACGACTTGAAG 60.560 42.308 0.00 0.00 0.00 3.02
140 141 3.813529 AAATGTGCTACGACTTGAAGC 57.186 42.857 0.00 0.00 36.77 3.86
141 142 2.751166 ATGTGCTACGACTTGAAGCT 57.249 45.000 0.00 0.00 37.16 3.74
142 143 2.065993 TGTGCTACGACTTGAAGCTC 57.934 50.000 0.00 0.00 37.16 4.09
143 144 0.985549 GTGCTACGACTTGAAGCTCG 59.014 55.000 13.03 13.03 37.16 5.03
144 145 0.596577 TGCTACGACTTGAAGCTCGT 59.403 50.000 20.29 20.29 44.97 4.18
145 146 1.261097 GCTACGACTTGAAGCTCGTC 58.739 55.000 20.12 8.71 42.07 4.20
146 147 1.135632 GCTACGACTTGAAGCTCGTCT 60.136 52.381 20.12 6.05 42.07 4.18
147 148 2.776330 CTACGACTTGAAGCTCGTCTC 58.224 52.381 20.12 0.00 42.07 3.36
148 149 0.110147 ACGACTTGAAGCTCGTCTCG 60.110 55.000 14.04 7.74 38.80 4.04
149 150 0.166161 CGACTTGAAGCTCGTCTCGA 59.834 55.000 8.36 0.00 0.00 4.04
150 151 1.608822 GACTTGAAGCTCGTCTCGAC 58.391 55.000 0.00 0.00 0.00 4.20
151 152 0.952280 ACTTGAAGCTCGTCTCGACA 59.048 50.000 0.00 0.00 0.00 4.35
152 153 1.068885 ACTTGAAGCTCGTCTCGACAG 60.069 52.381 0.00 0.00 0.00 3.51
153 154 0.952280 TTGAAGCTCGTCTCGACAGT 59.048 50.000 0.00 0.00 0.00 3.55
154 155 0.238553 TGAAGCTCGTCTCGACAGTG 59.761 55.000 0.00 0.00 0.00 3.66
155 156 0.238817 GAAGCTCGTCTCGACAGTGT 59.761 55.000 0.00 0.00 0.00 3.55
156 157 0.238817 AAGCTCGTCTCGACAGTGTC 59.761 55.000 13.56 13.56 0.00 3.67
157 158 0.604243 AGCTCGTCTCGACAGTGTCT 60.604 55.000 20.64 0.00 0.00 3.41
210 211 0.512952 GCAACTCGTGCGTTTGATCT 59.487 50.000 10.96 0.00 45.10 2.75
229 230 0.952280 TGTCTCTACATCCCGATCGC 59.048 55.000 10.32 0.00 0.00 4.58
237 238 0.319728 CATCCCGATCGCTCTCCAAT 59.680 55.000 10.32 0.00 0.00 3.16
242 243 1.666234 GATCGCTCTCCAATCGGGC 60.666 63.158 0.00 0.00 36.21 6.13
243 244 3.170490 ATCGCTCTCCAATCGGGCC 62.170 63.158 0.00 0.00 36.21 5.80
272 306 2.902846 CCCCGCTCGATCTCGTCT 60.903 66.667 0.00 0.00 40.80 4.18
275 309 2.424479 CGCTCGATCTCGTCTCGC 60.424 66.667 0.00 0.00 40.80 5.03
305 339 3.854669 AATCTCCTGCTCCCGCCG 61.855 66.667 0.00 0.00 34.43 6.46
314 348 4.951963 CTCCCGCCGGCTTCGATC 62.952 72.222 26.68 0.00 35.61 3.69
318 352 4.554363 CGCCGGCTTCGATCTCGT 62.554 66.667 26.68 0.00 40.80 4.18
320 354 2.026301 CCGGCTTCGATCTCGTCC 59.974 66.667 0.00 0.00 40.80 4.79
321 355 2.026301 CGGCTTCGATCTCGTCCC 59.974 66.667 0.00 0.00 40.80 4.46
322 356 2.026301 GGCTTCGATCTCGTCCCG 59.974 66.667 0.00 0.00 40.80 5.14
324 358 2.798689 CTTCGATCTCGTCCCGCA 59.201 61.111 0.00 0.00 40.80 5.69
325 359 1.298713 CTTCGATCTCGTCCCGCAG 60.299 63.158 0.00 0.00 40.80 5.18
326 360 2.669808 CTTCGATCTCGTCCCGCAGG 62.670 65.000 0.00 0.00 44.49 4.85
328 362 3.471244 CGATCTCGTCCCGCAGGTC 62.471 68.421 0.00 0.00 39.76 3.85
338 372 3.133014 CGCAGGTCCCTGATCGAT 58.867 61.111 17.49 0.00 46.30 3.59
339 373 2.341452 CGCAGGTCCCTGATCGATA 58.659 57.895 17.49 0.00 46.30 2.92
340 374 0.039074 CGCAGGTCCCTGATCGATAC 60.039 60.000 17.49 0.00 46.30 2.24
341 375 0.318762 GCAGGTCCCTGATCGATACC 59.681 60.000 17.49 1.39 46.30 2.73
342 376 2.002505 CAGGTCCCTGATCGATACCT 57.997 55.000 10.45 10.45 46.30 3.08
343 377 1.889829 CAGGTCCCTGATCGATACCTC 59.110 57.143 12.88 0.00 46.30 3.85
344 378 1.203075 AGGTCCCTGATCGATACCTCC 60.203 57.143 10.45 3.94 35.67 4.30
345 379 1.258676 GTCCCTGATCGATACCTCCC 58.741 60.000 0.00 0.00 0.00 4.30
346 380 0.251209 TCCCTGATCGATACCTCCCG 60.251 60.000 0.00 0.00 0.00 5.14
347 381 0.251209 CCCTGATCGATACCTCCCGA 60.251 60.000 0.00 0.00 39.25 5.14
348 382 1.617263 CCCTGATCGATACCTCCCGAT 60.617 57.143 0.00 0.00 46.67 4.18
353 387 3.769228 CGATACCTCCCGATCGAAC 57.231 57.895 18.66 0.00 46.19 3.95
383 417 3.398134 CGGCGCCGATCGATCTTG 61.398 66.667 44.86 10.04 42.83 3.02
384 418 2.279517 GGCGCCGATCGATCTTGT 60.280 61.111 22.43 0.00 41.67 3.16
387 421 1.661821 CGCCGATCGATCTTGTCCC 60.662 63.158 22.43 4.27 41.67 4.46
388 422 1.661821 GCCGATCGATCTTGTCCCG 60.662 63.158 22.43 8.50 0.00 5.14
390 424 1.065764 CGATCGATCTTGTCCCGCA 59.934 57.895 22.43 0.00 0.00 5.69
406 440 4.247380 CAGGCCCTGATCGCTCCC 62.247 72.222 4.15 0.00 32.44 4.30
407 441 4.488911 AGGCCCTGATCGCTCCCT 62.489 66.667 0.00 0.00 0.00 4.20
408 442 3.483869 GGCCCTGATCGCTCCCTT 61.484 66.667 0.00 0.00 0.00 3.95
409 443 2.203126 GCCCTGATCGCTCCCTTG 60.203 66.667 0.00 0.00 0.00 3.61
410 444 2.203126 CCCTGATCGCTCCCTTGC 60.203 66.667 0.00 0.00 0.00 4.01
412 446 2.587194 CTGATCGCTCCCTTGCCG 60.587 66.667 0.00 0.00 0.00 5.69
476 541 1.815421 CTGCTGATTTCGACCCCGG 60.815 63.158 0.00 0.00 36.24 5.73
479 544 1.815421 CTGATTTCGACCCCGGCTG 60.815 63.158 0.00 0.00 36.24 4.85
480 545 3.202706 GATTTCGACCCCGGCTGC 61.203 66.667 0.00 0.00 36.24 5.25
494 559 2.345244 CTGCTGCGGGTCTTCAGT 59.655 61.111 0.00 0.00 33.09 3.41
718 810 3.005539 AGGTCTGCTGTCCGCCAT 61.006 61.111 1.49 0.00 38.05 4.40
722 814 2.046988 CTGCTGTCCGCCATGTCA 60.047 61.111 0.00 0.00 38.05 3.58
772 864 2.168496 CTCCACTGGTTCTTCCTACGA 58.832 52.381 0.00 0.00 37.07 3.43
849 941 5.105106 TCGTGCTTATGATGAGAGGGTTTTA 60.105 40.000 0.00 0.00 0.00 1.52
1143 1235 2.664518 GCTATCTGGCGCCAGCTC 60.665 66.667 44.77 29.44 43.31 4.09
1171 1263 2.534019 CGCAGTGCTGGTTGTCGTT 61.534 57.895 14.33 0.00 0.00 3.85
1179 1272 1.515521 CTGGTTGTCGTTCTTGCCCC 61.516 60.000 0.00 0.00 0.00 5.80
1180 1273 1.228154 GGTTGTCGTTCTTGCCCCT 60.228 57.895 0.00 0.00 0.00 4.79
1181 1274 0.035739 GGTTGTCGTTCTTGCCCCTA 59.964 55.000 0.00 0.00 0.00 3.53
1188 1281 1.555967 GTTCTTGCCCCTATTGCCAA 58.444 50.000 0.00 0.00 0.00 4.52
1287 1380 1.299541 CTCAGTTGTTTGCTCGTGGT 58.700 50.000 0.00 0.00 0.00 4.16
1315 1408 0.324614 TCTCATGGAGGCGCTTTCAA 59.675 50.000 3.92 0.00 0.00 2.69
1520 1613 6.153170 TGCAACAATGATGGTCATATTGAGTT 59.847 34.615 15.51 5.54 35.76 3.01
1633 1726 4.412796 TTGACTGAGCAGGATATTCTGG 57.587 45.455 13.10 0.00 35.43 3.86
1684 1778 0.607217 TTCTCGACGGGTACTGCTGA 60.607 55.000 0.00 0.00 39.14 4.26
1716 1810 2.042831 GCTTCCCGCACTGAGCAAT 61.043 57.895 0.00 0.00 46.13 3.56
1886 1981 4.033709 TGCTAGTAGAGGCAATCTTTCCT 58.966 43.478 0.00 0.00 39.64 3.36
1899 2005 6.772716 GGCAATCTTTCCTCATTATGTTCCTA 59.227 38.462 0.00 0.00 0.00 2.94
1943 2049 5.769662 ACTTACCATGAATCTGTTTTCTGCA 59.230 36.000 0.00 0.00 0.00 4.41
1996 2102 3.869065 TCCTTGACGTTGACTCTTGTTT 58.131 40.909 0.00 0.00 0.00 2.83
2001 2107 4.250464 TGACGTTGACTCTTGTTTTGTCT 58.750 39.130 0.00 0.00 0.00 3.41
2057 2163 2.813474 CGCCGCCGTGATTCTCAA 60.813 61.111 0.00 0.00 0.00 3.02
2097 2203 1.406887 GGCTTCATGTTCCTTCCGCTA 60.407 52.381 0.00 0.00 0.00 4.26
2126 2232 2.347490 GCCAGTTCCTCCGCTTCA 59.653 61.111 0.00 0.00 0.00 3.02
2327 2433 3.069729 AGTCAGTGTCTAAGCGTCCTTTT 59.930 43.478 0.00 0.00 32.47 2.27
2525 2633 3.316868 TCTTCACCCATTCGTGTTTTTCC 59.683 43.478 0.00 0.00 35.18 3.13
2624 2732 1.812922 GTCCTGGTGCTCATGCTCG 60.813 63.158 0.00 0.00 40.48 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 8.330466 TGACAGAACTCTACACAAAAGAAAAA 57.670 30.769 0.00 0.00 0.00 1.94
17 18 7.822334 TCTGACAGAACTCTACACAAAAGAAAA 59.178 33.333 1.64 0.00 0.00 2.29
18 19 7.327975 TCTGACAGAACTCTACACAAAAGAAA 58.672 34.615 1.64 0.00 0.00 2.52
19 20 6.873997 TCTGACAGAACTCTACACAAAAGAA 58.126 36.000 1.64 0.00 0.00 2.52
20 21 6.465439 TCTGACAGAACTCTACACAAAAGA 57.535 37.500 1.64 0.00 0.00 2.52
34 35 3.068165 TCTTGCTCGAAGTTCTGACAGAA 59.932 43.478 13.99 13.99 32.90 3.02
35 36 2.623416 TCTTGCTCGAAGTTCTGACAGA 59.377 45.455 0.00 0.00 32.90 3.41
36 37 3.018598 TCTTGCTCGAAGTTCTGACAG 57.981 47.619 0.56 0.00 32.90 3.51
37 38 3.452755 TTCTTGCTCGAAGTTCTGACA 57.547 42.857 0.56 0.00 32.90 3.58
38 39 3.555956 TGTTTCTTGCTCGAAGTTCTGAC 59.444 43.478 0.56 0.00 32.90 3.51
39 40 3.792401 TGTTTCTTGCTCGAAGTTCTGA 58.208 40.909 0.56 0.00 32.90 3.27
40 41 3.804325 TCTGTTTCTTGCTCGAAGTTCTG 59.196 43.478 0.56 0.00 32.90 3.02
41 42 4.060038 TCTGTTTCTTGCTCGAAGTTCT 57.940 40.909 0.56 0.00 32.90 3.01
42 43 4.519147 GTTCTGTTTCTTGCTCGAAGTTC 58.481 43.478 0.00 0.00 32.90 3.01
43 44 3.001330 CGTTCTGTTTCTTGCTCGAAGTT 59.999 43.478 0.00 0.00 32.90 2.66
44 45 2.540101 CGTTCTGTTTCTTGCTCGAAGT 59.460 45.455 0.00 0.00 32.90 3.01
45 46 2.794910 TCGTTCTGTTTCTTGCTCGAAG 59.205 45.455 0.00 0.00 0.00 3.79
46 47 2.816689 TCGTTCTGTTTCTTGCTCGAA 58.183 42.857 0.00 0.00 0.00 3.71
47 48 2.502213 TCGTTCTGTTTCTTGCTCGA 57.498 45.000 0.00 0.00 0.00 4.04
48 49 3.795561 ATTCGTTCTGTTTCTTGCTCG 57.204 42.857 0.00 0.00 0.00 5.03
49 50 5.095691 TCAATTCGTTCTGTTTCTTGCTC 57.904 39.130 0.00 0.00 0.00 4.26
50 51 5.066505 AGTTCAATTCGTTCTGTTTCTTGCT 59.933 36.000 0.00 0.00 0.00 3.91
51 52 5.273944 AGTTCAATTCGTTCTGTTTCTTGC 58.726 37.500 0.00 0.00 0.00 4.01
52 53 7.072030 CCTAGTTCAATTCGTTCTGTTTCTTG 58.928 38.462 0.00 0.00 0.00 3.02
53 54 6.766467 ACCTAGTTCAATTCGTTCTGTTTCTT 59.234 34.615 0.00 0.00 0.00 2.52
54 55 6.289064 ACCTAGTTCAATTCGTTCTGTTTCT 58.711 36.000 0.00 0.00 0.00 2.52
55 56 6.424207 AGACCTAGTTCAATTCGTTCTGTTTC 59.576 38.462 0.00 0.00 0.00 2.78
56 57 6.202954 CAGACCTAGTTCAATTCGTTCTGTTT 59.797 38.462 0.00 0.00 0.00 2.83
57 58 5.696724 CAGACCTAGTTCAATTCGTTCTGTT 59.303 40.000 0.00 0.00 0.00 3.16
58 59 5.230942 CAGACCTAGTTCAATTCGTTCTGT 58.769 41.667 0.00 0.00 0.00 3.41
59 60 4.627467 CCAGACCTAGTTCAATTCGTTCTG 59.373 45.833 0.00 0.00 0.00 3.02
60 61 4.527038 TCCAGACCTAGTTCAATTCGTTCT 59.473 41.667 0.00 0.00 0.00 3.01
61 62 4.626172 GTCCAGACCTAGTTCAATTCGTTC 59.374 45.833 0.00 0.00 0.00 3.95
62 63 4.566987 GTCCAGACCTAGTTCAATTCGTT 58.433 43.478 0.00 0.00 0.00 3.85
63 64 4.189639 GTCCAGACCTAGTTCAATTCGT 57.810 45.455 0.00 0.00 0.00 3.85
77 78 1.375326 GACTTGGTGGGGTCCAGAC 59.625 63.158 0.00 0.00 38.80 3.51
78 79 1.074090 TGACTTGGTGGGGTCCAGA 60.074 57.895 0.00 0.00 38.80 3.86
79 80 1.073199 GTGACTTGGTGGGGTCCAG 59.927 63.158 0.00 0.00 38.80 3.86
80 81 1.385347 AGTGACTTGGTGGGGTCCA 60.385 57.895 0.00 0.00 35.49 4.02
81 82 1.375326 GAGTGACTTGGTGGGGTCC 59.625 63.158 0.00 0.00 0.00 4.46
82 83 1.004918 CGAGTGACTTGGTGGGGTC 60.005 63.158 0.00 0.00 0.00 4.46
83 84 1.755393 GACGAGTGACTTGGTGGGGT 61.755 60.000 4.63 0.00 0.00 4.95
84 85 1.004918 GACGAGTGACTTGGTGGGG 60.005 63.158 4.63 0.00 0.00 4.96
85 86 0.105964 TTGACGAGTGACTTGGTGGG 59.894 55.000 4.63 0.00 0.00 4.61
86 87 1.867233 CTTTGACGAGTGACTTGGTGG 59.133 52.381 4.63 0.00 0.00 4.61
87 88 2.821546 TCTTTGACGAGTGACTTGGTG 58.178 47.619 4.63 0.00 0.00 4.17
88 89 3.069586 TCATCTTTGACGAGTGACTTGGT 59.930 43.478 4.63 0.00 0.00 3.67
89 90 3.653344 TCATCTTTGACGAGTGACTTGG 58.347 45.455 4.63 0.00 0.00 3.61
90 91 4.435253 GCATCATCTTTGACGAGTGACTTG 60.435 45.833 0.00 0.00 33.85 3.16
91 92 3.681897 GCATCATCTTTGACGAGTGACTT 59.318 43.478 0.00 0.00 33.85 3.01
92 93 3.257393 GCATCATCTTTGACGAGTGACT 58.743 45.455 0.00 0.00 33.85 3.41
93 94 2.349886 GGCATCATCTTTGACGAGTGAC 59.650 50.000 0.00 0.00 33.85 3.67
94 95 2.621338 GGCATCATCTTTGACGAGTGA 58.379 47.619 0.00 0.00 33.85 3.41
100 101 5.673337 TTTATAGCGGCATCATCTTTGAC 57.327 39.130 1.45 0.00 33.85 3.18
101 102 5.764686 ACATTTATAGCGGCATCATCTTTGA 59.235 36.000 1.45 0.00 36.00 2.69
102 103 5.854866 CACATTTATAGCGGCATCATCTTTG 59.145 40.000 1.45 0.00 0.00 2.77
103 104 5.563475 GCACATTTATAGCGGCATCATCTTT 60.563 40.000 1.45 0.00 0.00 2.52
104 105 4.083110 GCACATTTATAGCGGCATCATCTT 60.083 41.667 1.45 0.00 0.00 2.40
105 106 3.438087 GCACATTTATAGCGGCATCATCT 59.562 43.478 1.45 0.00 0.00 2.90
106 107 3.438087 AGCACATTTATAGCGGCATCATC 59.562 43.478 1.45 0.00 0.00 2.92
107 108 3.415212 AGCACATTTATAGCGGCATCAT 58.585 40.909 1.45 0.00 0.00 2.45
108 109 2.849942 AGCACATTTATAGCGGCATCA 58.150 42.857 1.45 0.00 0.00 3.07
109 110 3.181530 CGTAGCACATTTATAGCGGCATC 60.182 47.826 1.45 0.00 0.00 3.91
110 111 2.736721 CGTAGCACATTTATAGCGGCAT 59.263 45.455 1.45 0.00 0.00 4.40
111 112 2.131972 CGTAGCACATTTATAGCGGCA 58.868 47.619 1.45 0.00 0.00 5.69
112 113 2.155155 GTCGTAGCACATTTATAGCGGC 59.845 50.000 0.00 0.00 0.00 6.53
113 114 3.639538 AGTCGTAGCACATTTATAGCGG 58.360 45.455 0.00 0.00 0.00 5.52
114 115 4.738252 TCAAGTCGTAGCACATTTATAGCG 59.262 41.667 0.00 0.00 0.00 4.26
115 116 6.583912 TTCAAGTCGTAGCACATTTATAGC 57.416 37.500 0.00 0.00 0.00 2.97
116 117 6.477033 AGCTTCAAGTCGTAGCACATTTATAG 59.523 38.462 0.00 0.00 40.32 1.31
117 118 6.338146 AGCTTCAAGTCGTAGCACATTTATA 58.662 36.000 0.00 0.00 40.32 0.98
118 119 5.178797 AGCTTCAAGTCGTAGCACATTTAT 58.821 37.500 0.00 0.00 40.32 1.40
119 120 4.566004 AGCTTCAAGTCGTAGCACATTTA 58.434 39.130 0.00 0.00 40.32 1.40
120 121 3.403038 AGCTTCAAGTCGTAGCACATTT 58.597 40.909 0.00 0.00 40.32 2.32
121 122 2.996621 GAGCTTCAAGTCGTAGCACATT 59.003 45.455 0.00 0.00 40.32 2.71
122 123 2.611518 GAGCTTCAAGTCGTAGCACAT 58.388 47.619 0.00 0.00 40.32 3.21
123 124 1.666023 CGAGCTTCAAGTCGTAGCACA 60.666 52.381 0.00 0.00 40.32 4.57
124 125 0.985549 CGAGCTTCAAGTCGTAGCAC 59.014 55.000 0.00 0.00 40.32 4.40
125 126 3.401577 CGAGCTTCAAGTCGTAGCA 57.598 52.632 0.00 0.00 40.32 3.49
130 131 0.166161 TCGAGACGAGCTTCAAGTCG 59.834 55.000 7.56 7.56 42.04 4.18
131 132 1.069159 TGTCGAGACGAGCTTCAAGTC 60.069 52.381 0.00 0.00 36.23 3.01
132 133 0.952280 TGTCGAGACGAGCTTCAAGT 59.048 50.000 0.00 0.00 36.23 3.16
133 134 1.068885 ACTGTCGAGACGAGCTTCAAG 60.069 52.381 0.00 0.00 36.23 3.02
134 135 0.952280 ACTGTCGAGACGAGCTTCAA 59.048 50.000 0.00 0.00 36.23 2.69
135 136 0.238553 CACTGTCGAGACGAGCTTCA 59.761 55.000 0.00 0.00 36.23 3.02
136 137 0.238817 ACACTGTCGAGACGAGCTTC 59.761 55.000 0.00 0.00 36.23 3.86
137 138 0.238817 GACACTGTCGAGACGAGCTT 59.761 55.000 0.00 0.00 36.23 3.74
138 139 0.604243 AGACACTGTCGAGACGAGCT 60.604 55.000 3.46 0.00 36.23 4.09
139 140 0.238817 AAGACACTGTCGAGACGAGC 59.761 55.000 3.46 0.00 36.23 5.03
140 141 1.400371 CCAAGACACTGTCGAGACGAG 60.400 57.143 3.46 0.92 36.23 4.18
141 142 0.591659 CCAAGACACTGTCGAGACGA 59.408 55.000 3.46 0.00 37.67 4.20
142 143 0.311165 ACCAAGACACTGTCGAGACG 59.689 55.000 3.46 0.00 37.67 4.18
143 144 3.851976 ATACCAAGACACTGTCGAGAC 57.148 47.619 3.46 0.00 37.67 3.36
144 145 5.250982 TCTAATACCAAGACACTGTCGAGA 58.749 41.667 3.46 0.00 37.67 4.04
145 146 5.562506 TCTAATACCAAGACACTGTCGAG 57.437 43.478 3.46 0.85 37.67 4.04
146 147 4.142447 GCTCTAATACCAAGACACTGTCGA 60.142 45.833 3.46 0.00 37.67 4.20
147 148 4.106197 GCTCTAATACCAAGACACTGTCG 58.894 47.826 3.46 0.00 37.67 4.35
148 149 5.331876 AGCTCTAATACCAAGACACTGTC 57.668 43.478 0.38 0.38 0.00 3.51
149 150 5.361285 CCTAGCTCTAATACCAAGACACTGT 59.639 44.000 0.00 0.00 0.00 3.55
150 151 5.361285 ACCTAGCTCTAATACCAAGACACTG 59.639 44.000 0.00 0.00 0.00 3.66
151 152 5.520751 ACCTAGCTCTAATACCAAGACACT 58.479 41.667 0.00 0.00 0.00 3.55
152 153 5.360144 TGACCTAGCTCTAATACCAAGACAC 59.640 44.000 0.00 0.00 0.00 3.67
153 154 5.516044 TGACCTAGCTCTAATACCAAGACA 58.484 41.667 0.00 0.00 0.00 3.41
154 155 6.466885 TTGACCTAGCTCTAATACCAAGAC 57.533 41.667 0.00 0.00 0.00 3.01
155 156 7.676683 AATTGACCTAGCTCTAATACCAAGA 57.323 36.000 0.00 0.00 0.00 3.02
156 157 8.738645 AAAATTGACCTAGCTCTAATACCAAG 57.261 34.615 0.00 0.00 0.00 3.61
210 211 0.952280 GCGATCGGGATGTAGAGACA 59.048 55.000 18.30 0.00 40.72 3.41
229 230 3.798954 GAGCGGCCCGATTGGAGAG 62.799 68.421 7.68 0.00 37.49 3.20
253 254 3.183776 GACGAGATCGAGCGGGGAC 62.184 68.421 9.58 0.00 43.02 4.46
275 309 1.072159 GAGATTGATCGGGGGCCTG 59.928 63.158 0.84 0.00 0.00 4.85
317 351 3.083997 ATCAGGGACCTGCGGGAC 61.084 66.667 21.41 12.98 43.31 4.46
318 352 2.764128 GATCAGGGACCTGCGGGA 60.764 66.667 21.41 0.00 43.31 5.14
320 354 1.179174 TATCGATCAGGGACCTGCGG 61.179 60.000 13.51 5.32 43.31 5.69
321 355 0.039074 GTATCGATCAGGGACCTGCG 60.039 60.000 13.51 11.98 43.31 5.18
322 356 0.318762 GGTATCGATCAGGGACCTGC 59.681 60.000 13.51 0.00 43.31 4.85
324 358 1.203075 GGAGGTATCGATCAGGGACCT 60.203 57.143 15.19 15.19 43.28 3.85
325 359 1.258676 GGAGGTATCGATCAGGGACC 58.741 60.000 0.00 3.28 0.00 4.46
326 360 1.258676 GGGAGGTATCGATCAGGGAC 58.741 60.000 0.00 0.00 0.00 4.46
328 362 0.251209 TCGGGAGGTATCGATCAGGG 60.251 60.000 0.00 0.00 0.00 4.45
333 367 3.950869 TCGATCGGGAGGTATCGAT 57.049 52.632 16.41 2.16 46.52 3.59
335 369 0.240411 GGTTCGATCGGGAGGTATCG 59.760 60.000 16.41 0.00 44.88 2.92
336 370 0.602060 GGGTTCGATCGGGAGGTATC 59.398 60.000 16.41 0.00 0.00 2.24
337 371 0.830866 GGGGTTCGATCGGGAGGTAT 60.831 60.000 16.41 0.00 0.00 2.73
338 372 1.456331 GGGGTTCGATCGGGAGGTA 60.456 63.158 16.41 0.00 0.00 3.08
339 373 2.762875 GGGGTTCGATCGGGAGGT 60.763 66.667 16.41 0.00 0.00 3.85
340 374 2.444140 AGGGGTTCGATCGGGAGG 60.444 66.667 16.41 0.00 0.00 4.30
341 375 2.815308 CAGGGGTTCGATCGGGAG 59.185 66.667 16.41 0.00 0.00 4.30
342 376 3.467226 GCAGGGGTTCGATCGGGA 61.467 66.667 16.41 1.21 0.00 5.14
343 377 3.447025 GAGCAGGGGTTCGATCGGG 62.447 68.421 16.41 0.00 0.00 5.14
344 378 2.107141 GAGCAGGGGTTCGATCGG 59.893 66.667 16.41 0.00 0.00 4.18
345 379 2.107141 GGAGCAGGGGTTCGATCG 59.893 66.667 9.36 9.36 0.00 3.69
346 380 1.144936 CTGGAGCAGGGGTTCGATC 59.855 63.158 0.00 0.00 0.00 3.69
347 381 3.036429 GCTGGAGCAGGGGTTCGAT 62.036 63.158 0.00 0.00 41.59 3.59
348 382 3.706373 GCTGGAGCAGGGGTTCGA 61.706 66.667 0.00 0.00 41.59 3.71
349 383 4.785453 GGCTGGAGCAGGGGTTCG 62.785 72.222 0.20 0.00 44.36 3.95
350 384 4.785453 CGGCTGGAGCAGGGGTTC 62.785 72.222 0.20 0.00 44.36 3.62
370 404 1.661821 CGGGACAAGATCGATCGGC 60.662 63.158 19.33 8.62 0.00 5.54
371 405 1.661821 GCGGGACAAGATCGATCGG 60.662 63.158 19.33 17.28 0.00 4.18
377 411 2.514824 GGCCTGCGGGACAAGATC 60.515 66.667 18.31 0.00 41.30 2.75
378 412 4.115199 GGGCCTGCGGGACAAGAT 62.115 66.667 22.08 0.00 44.19 2.40
383 417 4.554036 GATCAGGGCCTGCGGGAC 62.554 72.222 29.02 14.26 40.80 4.46
388 422 4.925861 GGAGCGATCAGGGCCTGC 62.926 72.222 29.02 17.13 0.00 4.85
390 424 4.488911 AGGGAGCGATCAGGGCCT 62.489 66.667 0.00 0.00 0.00 5.19
392 426 2.203126 CAAGGGAGCGATCAGGGC 60.203 66.667 1.84 0.00 0.00 5.19
393 427 2.203126 GCAAGGGAGCGATCAGGG 60.203 66.667 1.84 0.00 0.00 4.45
394 428 2.203126 GGCAAGGGAGCGATCAGG 60.203 66.667 1.84 0.00 34.64 3.86
395 429 2.587194 CGGCAAGGGAGCGATCAG 60.587 66.667 1.84 0.00 34.64 2.90
397 431 4.838152 TGCGGCAAGGGAGCGATC 62.838 66.667 0.00 0.00 34.64 3.69
398 432 4.845580 CTGCGGCAAGGGAGCGAT 62.846 66.667 3.44 0.00 34.64 4.58
476 541 3.123620 CTGAAGACCCGCAGCAGC 61.124 66.667 0.00 0.00 37.42 5.25
479 544 2.564553 ATCGACTGAAGACCCGCAGC 62.565 60.000 0.00 0.00 35.57 5.25
480 545 0.526524 GATCGACTGAAGACCCGCAG 60.527 60.000 0.00 0.00 38.10 5.18
494 559 2.798689 CGGAAGGCAGTCGATCGA 59.201 61.111 15.15 15.15 0.00 3.59
508 573 4.458829 ACAGGATCGGGGAGCGGA 62.459 66.667 0.00 0.00 0.00 5.54
681 773 0.821711 CGCCAGAAAGAACACCCCAA 60.822 55.000 0.00 0.00 0.00 4.12
772 864 2.029623 CTTGGCAGCCTGATTAGCATT 58.970 47.619 14.15 0.00 0.00 3.56
849 941 2.699846 CTGAAGAGCCTCCTCATAAGCT 59.300 50.000 0.00 0.00 40.68 3.74
1143 1235 1.140589 AGCACTGCGGAGAGAATCG 59.859 57.895 12.26 0.00 42.67 3.34
1179 1272 1.386533 CCTGGACAGCTTGGCAATAG 58.613 55.000 0.00 0.00 0.00 1.73
1180 1273 0.680921 GCCTGGACAGCTTGGCAATA 60.681 55.000 0.00 0.00 44.34 1.90
1181 1274 1.980772 GCCTGGACAGCTTGGCAAT 60.981 57.895 0.00 0.00 44.34 3.56
1188 1281 0.901580 CCAAATTGGCCTGGACAGCT 60.902 55.000 0.76 0.00 34.35 4.24
1287 1380 2.034685 CGCCTCCATGAGAGAAATACGA 59.965 50.000 11.48 0.00 46.50 3.43
1315 1408 2.165437 GAGTCTCCTCAGCACGAATCTT 59.835 50.000 0.00 0.00 37.67 2.40
1520 1613 0.317160 CCACTTCGTGTAGCACTGGA 59.683 55.000 0.67 0.00 30.63 3.86
1537 1630 2.192861 CCTTGCGCAGGTGTTTCCA 61.193 57.895 18.90 0.00 37.99 3.53
1684 1778 2.679059 CGGGAAGCATCAGTCACAGAAT 60.679 50.000 0.00 0.00 0.00 2.40
1716 1810 0.784495 ACCTGACTGTGTAGAGGGGA 59.216 55.000 0.00 0.00 0.00 4.81
1886 1981 7.557358 ACATGAGCAACATTAGGAACATAATGA 59.443 33.333 20.63 3.42 43.06 2.57
1891 1997 5.126061 GGAACATGAGCAACATTAGGAACAT 59.874 40.000 0.00 0.00 37.07 2.71
1899 2005 2.744202 GTCGAGGAACATGAGCAACATT 59.256 45.455 0.00 0.00 37.07 2.71
1943 2049 5.163195 ACAACCAGAATCAGTAAGTTGACCT 60.163 40.000 7.61 0.00 38.32 3.85
1996 2102 1.582968 GTGCGACGGTCCTAGACAA 59.417 57.895 1.91 0.00 33.68 3.18
2001 2107 4.409218 GTGCGTGCGACGGTCCTA 62.409 66.667 1.91 0.00 42.82 2.94
2057 2163 1.421646 CAGTCCAACTCCCAAAGACCT 59.578 52.381 0.00 0.00 0.00 3.85
2097 2203 2.748058 GAACTGGCGATGGTGGTGGT 62.748 60.000 0.00 0.00 0.00 4.16
2327 2433 7.226441 CCCATACATCAGAATGGACTAAATCA 58.774 38.462 2.92 0.00 44.62 2.57
2473 2581 1.630223 TGAACCATGGCAGCAAATCA 58.370 45.000 13.04 2.49 0.00 2.57
2475 2583 3.368248 AGTATGAACCATGGCAGCAAAT 58.632 40.909 13.04 0.00 0.00 2.32
2624 2732 2.401766 CGCTCAGCCACACCATTCC 61.402 63.158 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.