Multiple sequence alignment - TraesCS1B01G304600

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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 TraesCS1B01G304600 chr1B 100.000 2792 0 0 1 2792 526570490 526567699 0.000000e+00 5156
1 TraesCS1B01G304600 chr1B 94.393 107 6 0 1 107 666836518 666836624 6.190000e-37 165
2 TraesCS1B01G304600 chr1A 88.457 1802 80 48 168 1907 490316764 490315029 0.000000e+00 2058
3 TraesCS1B01G304600 chr1A 86.275 204 15 7 1911 2102 490314931 490314729 2.820000e-50 209
4 TraesCS1B01G304600 chr1D 93.694 1221 49 15 846 2050 394704466 394705674 0.000000e+00 1803
5 TraesCS1B01G304600 chr1D 84.094 679 59 16 168 825 394703655 394704305 6.610000e-171 610
6 TraesCS1B01G304600 chr3B 96.974 694 17 4 2101 2792 807531974 807531283 0.000000e+00 1162
7 TraesCS1B01G304600 chr3B 95.369 691 29 3 2102 2792 100378572 100379259 0.000000e+00 1096
8 TraesCS1B01G304600 chr2A 96.387 692 19 4 2101 2792 551460823 551460138 0.000000e+00 1134
9 TraesCS1B01G304600 chr7B 96.087 690 24 3 2103 2792 404737171 404737857 0.000000e+00 1122
10 TraesCS1B01G304600 chr7B 95.948 691 23 5 2103 2792 364209441 364208755 0.000000e+00 1116
11 TraesCS1B01G304600 chr7B 92.035 113 9 0 4 116 96414395 96414283 2.880000e-35 159
12 TraesCS1B01G304600 chr5B 95.217 690 28 5 2103 2792 591443699 591444383 0.000000e+00 1086
13 TraesCS1B01G304600 chr5B 95.192 104 5 0 4 107 127435189 127435086 6.190000e-37 165
14 TraesCS1B01G304600 chr2B 94.805 693 27 8 2103 2792 23044300 23043614 0.000000e+00 1072
15 TraesCS1B01G304600 chr2B 94.493 690 33 5 2103 2792 46692659 46693343 0.000000e+00 1059
16 TraesCS1B01G304600 chr7A 94.413 698 31 8 2099 2792 37927766 37928459 0.000000e+00 1066
17 TraesCS1B01G304600 chr6D 94.393 107 6 0 4 110 9830949 9830843 6.190000e-37 165
18 TraesCS1B01G304600 chr6B 94.393 107 6 0 1 107 715320316 715320422 6.190000e-37 165
19 TraesCS1B01G304600 chr3D 94.393 107 6 0 1 107 553334134 553334240 6.190000e-37 165
20 TraesCS1B01G304600 chr3D 90.400 125 6 5 4 128 581095755 581095637 2.880000e-35 159
21 TraesCS1B01G304600 chr2D 92.523 107 8 0 1 107 334346732 334346838 1.340000e-33 154
22 TraesCS1B01G304600 chr4D 88.281 128 12 3 1 128 72419385 72419509 1.730000e-32 150


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 TraesCS1B01G304600 chr1B 526567699 526570490 2791 True 5156.0 5156 100.000 1 2792 1 chr1B.!!$R1 2791
1 TraesCS1B01G304600 chr1A 490314729 490316764 2035 True 1133.5 2058 87.366 168 2102 2 chr1A.!!$R1 1934
2 TraesCS1B01G304600 chr1D 394703655 394705674 2019 False 1206.5 1803 88.894 168 2050 2 chr1D.!!$F1 1882
3 TraesCS1B01G304600 chr3B 807531283 807531974 691 True 1162.0 1162 96.974 2101 2792 1 chr3B.!!$R1 691
4 TraesCS1B01G304600 chr3B 100378572 100379259 687 False 1096.0 1096 95.369 2102 2792 1 chr3B.!!$F1 690
5 TraesCS1B01G304600 chr2A 551460138 551460823 685 True 1134.0 1134 96.387 2101 2792 1 chr2A.!!$R1 691
6 TraesCS1B01G304600 chr7B 404737171 404737857 686 False 1122.0 1122 96.087 2103 2792 1 chr7B.!!$F1 689
7 TraesCS1B01G304600 chr7B 364208755 364209441 686 True 1116.0 1116 95.948 2103 2792 1 chr7B.!!$R2 689
8 TraesCS1B01G304600 chr5B 591443699 591444383 684 False 1086.0 1086 95.217 2103 2792 1 chr5B.!!$F1 689
9 TraesCS1B01G304600 chr2B 23043614 23044300 686 True 1072.0 1072 94.805 2103 2792 1 chr2B.!!$R1 689
10 TraesCS1B01G304600 chr2B 46692659 46693343 684 False 1059.0 1059 94.493 2103 2792 1 chr2B.!!$F1 689
11 TraesCS1B01G304600 chr7A 37927766 37928459 693 False 1066.0 1066 94.413 2099 2792 1 chr7A.!!$F1 693

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
35 36 0.108520 GTCGCTCCGTGGTTTATGGA 60.109 55.0 0.00 0.00 42.28 3.41 F
529 559 0.181114 AGTACATGACATGGCGGCAT 59.819 50.0 20.18 20.18 33.60 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1031 1240 0.110056 CGCAAGTGGCTAGCAAACAG 60.110 55.000 18.24 11.51 41.67 3.16 R
2286 2635 1.007271 CAGTCTCACCGTCTGCGTT 60.007 57.895 0.00 0.00 36.15 4.84 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.046283 TTGAGTGCTTGTAGTCGTCG 57.954 50.000 0.00 0.00 0.00 5.12
20 21 0.386858 TGAGTGCTTGTAGTCGTCGC 60.387 55.000 0.00 0.00 0.00 5.19
21 22 0.109689 GAGTGCTTGTAGTCGTCGCT 60.110 55.000 0.00 0.00 0.00 4.93
22 23 0.109689 AGTGCTTGTAGTCGTCGCTC 60.110 55.000 0.00 0.00 0.00 5.03
23 24 1.071567 GTGCTTGTAGTCGTCGCTCC 61.072 60.000 0.00 0.00 0.00 4.70
24 25 1.868251 GCTTGTAGTCGTCGCTCCG 60.868 63.158 0.00 0.00 0.00 4.63
25 26 1.500844 CTTGTAGTCGTCGCTCCGT 59.499 57.895 0.00 0.00 0.00 4.69
26 27 0.793478 CTTGTAGTCGTCGCTCCGTG 60.793 60.000 0.00 0.00 0.00 4.94
27 28 2.099831 GTAGTCGTCGCTCCGTGG 59.900 66.667 0.00 0.00 0.00 4.94
28 29 2.359107 TAGTCGTCGCTCCGTGGT 60.359 61.111 0.00 0.00 0.00 4.16
29 30 1.968017 TAGTCGTCGCTCCGTGGTT 60.968 57.895 0.00 0.00 0.00 3.67
30 31 1.518056 TAGTCGTCGCTCCGTGGTTT 61.518 55.000 0.00 0.00 0.00 3.27
31 32 1.081242 GTCGTCGCTCCGTGGTTTA 60.081 57.895 0.00 0.00 0.00 2.01
32 33 0.457337 GTCGTCGCTCCGTGGTTTAT 60.457 55.000 0.00 0.00 0.00 1.40
33 34 0.457166 TCGTCGCTCCGTGGTTTATG 60.457 55.000 0.00 0.00 0.00 1.90
34 35 1.418342 CGTCGCTCCGTGGTTTATGG 61.418 60.000 0.00 0.00 36.74 2.74
35 36 0.108520 GTCGCTCCGTGGTTTATGGA 60.109 55.000 0.00 0.00 42.28 3.41
36 37 0.828022 TCGCTCCGTGGTTTATGGAT 59.172 50.000 0.00 0.00 43.50 3.41
37 38 1.202486 TCGCTCCGTGGTTTATGGATC 60.202 52.381 0.00 0.00 43.50 3.36
38 39 1.202533 CGCTCCGTGGTTTATGGATCT 60.203 52.381 0.00 0.00 43.50 2.75
39 40 2.213499 GCTCCGTGGTTTATGGATCTG 58.787 52.381 0.00 0.00 43.50 2.90
40 41 2.838736 CTCCGTGGTTTATGGATCTGG 58.161 52.381 0.00 0.00 43.50 3.86
41 42 2.434336 CTCCGTGGTTTATGGATCTGGA 59.566 50.000 0.00 0.00 43.50 3.86
42 43 3.045634 TCCGTGGTTTATGGATCTGGAT 58.954 45.455 0.00 0.00 39.60 3.41
43 44 3.141398 CCGTGGTTTATGGATCTGGATG 58.859 50.000 0.00 0.00 37.69 3.51
44 45 3.433598 CCGTGGTTTATGGATCTGGATGT 60.434 47.826 0.00 0.00 37.69 3.06
45 46 4.202315 CCGTGGTTTATGGATCTGGATGTA 60.202 45.833 0.00 0.00 37.69 2.29
46 47 5.364778 CGTGGTTTATGGATCTGGATGTAA 58.635 41.667 0.00 0.00 0.00 2.41
47 48 5.997746 CGTGGTTTATGGATCTGGATGTAAT 59.002 40.000 0.00 0.00 0.00 1.89
48 49 6.486657 CGTGGTTTATGGATCTGGATGTAATT 59.513 38.462 0.00 0.00 0.00 1.40
49 50 7.013274 CGTGGTTTATGGATCTGGATGTAATTT 59.987 37.037 0.00 0.00 0.00 1.82
50 51 9.349713 GTGGTTTATGGATCTGGATGTAATTTA 57.650 33.333 0.00 0.00 0.00 1.40
78 79 8.970691 TTATTTCTAGTGTTCGTTGTACTACC 57.029 34.615 1.76 0.00 0.00 3.18
79 80 6.389830 TTTCTAGTGTTCGTTGTACTACCA 57.610 37.500 1.76 0.00 0.00 3.25
80 81 6.579666 TTCTAGTGTTCGTTGTACTACCAT 57.420 37.500 1.76 0.00 0.00 3.55
81 82 5.946298 TCTAGTGTTCGTTGTACTACCATG 58.054 41.667 1.76 0.00 0.00 3.66
82 83 4.859304 AGTGTTCGTTGTACTACCATGA 57.141 40.909 0.00 0.00 0.00 3.07
83 84 5.401531 AGTGTTCGTTGTACTACCATGAT 57.598 39.130 0.00 0.00 0.00 2.45
84 85 5.790593 AGTGTTCGTTGTACTACCATGATT 58.209 37.500 0.00 0.00 0.00 2.57
85 86 5.637810 AGTGTTCGTTGTACTACCATGATTG 59.362 40.000 0.00 0.00 0.00 2.67
86 87 5.636121 GTGTTCGTTGTACTACCATGATTGA 59.364 40.000 0.00 0.00 0.00 2.57
87 88 6.146510 GTGTTCGTTGTACTACCATGATTGAA 59.853 38.462 0.00 0.00 0.00 2.69
88 89 6.367695 TGTTCGTTGTACTACCATGATTGAAG 59.632 38.462 0.00 0.00 0.00 3.02
89 90 6.275494 TCGTTGTACTACCATGATTGAAGA 57.725 37.500 0.00 0.00 0.00 2.87
90 91 6.873997 TCGTTGTACTACCATGATTGAAGAT 58.126 36.000 0.00 0.00 0.00 2.40
91 92 6.756542 TCGTTGTACTACCATGATTGAAGATG 59.243 38.462 0.00 0.00 0.00 2.90
92 93 6.756542 CGTTGTACTACCATGATTGAAGATGA 59.243 38.462 0.00 0.00 0.00 2.92
93 94 7.277760 CGTTGTACTACCATGATTGAAGATGAA 59.722 37.037 0.00 0.00 0.00 2.57
94 95 9.113838 GTTGTACTACCATGATTGAAGATGAAT 57.886 33.333 0.00 0.00 0.00 2.57
96 97 9.987272 TGTACTACCATGATTGAAGATGAATAG 57.013 33.333 0.00 0.00 0.00 1.73
101 102 8.405418 ACCATGATTGAAGATGAATAGATTGG 57.595 34.615 0.00 0.00 0.00 3.16
102 103 8.222637 ACCATGATTGAAGATGAATAGATTGGA 58.777 33.333 0.00 0.00 0.00 3.53
103 104 9.074576 CCATGATTGAAGATGAATAGATTGGAA 57.925 33.333 0.00 0.00 0.00 3.53
105 106 9.863650 ATGATTGAAGATGAATAGATTGGAAGT 57.136 29.630 0.00 0.00 0.00 3.01
106 107 9.690913 TGATTGAAGATGAATAGATTGGAAGTT 57.309 29.630 0.00 0.00 0.00 2.66
108 109 9.917887 ATTGAAGATGAATAGATTGGAAGTTCT 57.082 29.630 2.25 0.00 0.00 3.01
109 110 9.745018 TTGAAGATGAATAGATTGGAAGTTCTT 57.255 29.630 2.25 0.00 0.00 2.52
110 111 9.170734 TGAAGATGAATAGATTGGAAGTTCTTG 57.829 33.333 2.25 0.00 0.00 3.02
111 112 9.171877 GAAGATGAATAGATTGGAAGTTCTTGT 57.828 33.333 2.25 0.00 0.00 3.16
112 113 9.525826 AAGATGAATAGATTGGAAGTTCTTGTT 57.474 29.630 2.25 0.00 0.00 2.83
115 116 9.739276 ATGAATAGATTGGAAGTTCTTGTTACA 57.261 29.630 2.25 0.00 0.00 2.41
116 117 9.739276 TGAATAGATTGGAAGTTCTTGTTACAT 57.261 29.630 2.25 0.00 0.00 2.29
117 118 9.994432 GAATAGATTGGAAGTTCTTGTTACATG 57.006 33.333 2.25 0.00 0.00 3.21
118 119 9.739276 AATAGATTGGAAGTTCTTGTTACATGA 57.261 29.630 0.00 0.00 0.00 3.07
119 120 9.739276 ATAGATTGGAAGTTCTTGTTACATGAA 57.261 29.630 9.20 9.20 0.00 2.57
120 121 8.463930 AGATTGGAAGTTCTTGTTACATGAAA 57.536 30.769 13.91 0.42 31.20 2.69
121 122 8.571336 AGATTGGAAGTTCTTGTTACATGAAAG 58.429 33.333 13.91 0.00 31.20 2.62
122 123 7.873719 TTGGAAGTTCTTGTTACATGAAAGA 57.126 32.000 13.91 0.00 31.20 2.52
123 124 7.873719 TGGAAGTTCTTGTTACATGAAAGAA 57.126 32.000 13.91 4.46 37.54 2.52
124 125 8.287439 TGGAAGTTCTTGTTACATGAAAGAAA 57.713 30.769 13.91 0.00 40.56 2.52
125 126 8.744652 TGGAAGTTCTTGTTACATGAAAGAAAA 58.255 29.630 13.91 0.69 40.56 2.29
126 127 9.581099 GGAAGTTCTTGTTACATGAAAGAAAAA 57.419 29.630 13.91 0.00 40.56 1.94
129 130 9.573133 AGTTCTTGTTACATGAAAGAAAAAGTG 57.427 29.630 13.91 0.00 40.56 3.16
130 131 8.807581 GTTCTTGTTACATGAAAGAAAAAGTGG 58.192 33.333 13.91 0.00 40.56 4.00
131 132 6.978080 TCTTGTTACATGAAAGAAAAAGTGGC 59.022 34.615 0.00 0.00 0.00 5.01
132 133 6.463995 TGTTACATGAAAGAAAAAGTGGCT 57.536 33.333 0.00 0.00 0.00 4.75
133 134 6.272318 TGTTACATGAAAGAAAAAGTGGCTG 58.728 36.000 0.00 0.00 0.00 4.85
134 135 3.721035 ACATGAAAGAAAAAGTGGCTGC 58.279 40.909 0.00 0.00 0.00 5.25
135 136 3.132646 ACATGAAAGAAAAAGTGGCTGCA 59.867 39.130 0.00 0.00 0.00 4.41
136 137 3.441496 TGAAAGAAAAAGTGGCTGCAG 57.559 42.857 10.11 10.11 0.00 4.41
137 138 2.130395 GAAAGAAAAAGTGGCTGCAGC 58.870 47.619 30.88 30.88 41.14 5.25
138 139 1.406903 AAGAAAAAGTGGCTGCAGCT 58.593 45.000 35.82 16.47 41.70 4.24
139 140 2.276732 AGAAAAAGTGGCTGCAGCTA 57.723 45.000 35.82 29.61 41.70 3.32
140 141 2.586425 AGAAAAAGTGGCTGCAGCTAA 58.414 42.857 35.82 22.78 41.70 3.09
141 142 2.294512 AGAAAAAGTGGCTGCAGCTAAC 59.705 45.455 35.82 30.95 41.70 2.34
142 143 0.593128 AAAAGTGGCTGCAGCTAACG 59.407 50.000 35.82 0.55 41.70 3.18
143 144 1.237285 AAAGTGGCTGCAGCTAACGG 61.237 55.000 35.82 0.00 41.70 4.44
144 145 3.804193 GTGGCTGCAGCTAACGGC 61.804 66.667 35.82 19.78 41.70 5.68
154 155 2.370885 GCTAACGGCGTCTTTCTCC 58.629 57.895 15.17 0.00 0.00 3.71
155 156 1.082679 GCTAACGGCGTCTTTCTCCC 61.083 60.000 15.17 0.00 0.00 4.30
156 157 0.801067 CTAACGGCGTCTTTCTCCCG 60.801 60.000 15.17 0.00 45.80 5.14
157 158 1.243342 TAACGGCGTCTTTCTCCCGA 61.243 55.000 15.17 0.00 43.20 5.14
158 159 2.091102 AACGGCGTCTTTCTCCCGAA 62.091 55.000 15.17 0.00 43.20 4.30
159 160 1.373748 CGGCGTCTTTCTCCCGAAA 60.374 57.895 0.00 0.00 43.20 3.46
160 161 0.947180 CGGCGTCTTTCTCCCGAAAA 60.947 55.000 0.00 0.00 43.20 2.29
161 162 1.232119 GGCGTCTTTCTCCCGAAAAA 58.768 50.000 0.00 0.00 38.58 1.94
180 181 3.597377 AAAAACACTAACGGCGTCTTC 57.403 42.857 15.17 0.00 0.00 2.87
223 225 3.003068 CCGGTTTACACGAGACGAGATAT 59.997 47.826 0.00 0.00 0.00 1.63
226 228 3.620929 TTACACGAGACGAGATATGCC 57.379 47.619 0.00 0.00 0.00 4.40
231 233 2.165641 ACGAGACGAGATATGCCACAAA 59.834 45.455 0.00 0.00 0.00 2.83
232 234 3.181475 ACGAGACGAGATATGCCACAAAT 60.181 43.478 0.00 0.00 0.00 2.32
233 235 3.426859 CGAGACGAGATATGCCACAAATC 59.573 47.826 0.00 0.00 0.00 2.17
234 236 3.384668 AGACGAGATATGCCACAAATCG 58.615 45.455 0.00 0.00 35.00 3.34
240 242 5.121298 CGAGATATGCCACAAATCGATCAAT 59.879 40.000 0.00 0.00 0.00 2.57
263 265 4.332788 CAAACGCGTTTGTACTTTGTACA 58.667 39.130 41.99 6.48 43.52 2.90
265 267 2.540931 ACGCGTTTGTACTTTGTACAGG 59.459 45.455 5.58 0.00 0.00 4.00
278 280 1.171308 GTACAGGCGTGGACTAGTGA 58.829 55.000 14.57 0.00 34.21 3.41
279 281 1.135460 GTACAGGCGTGGACTAGTGAC 60.135 57.143 14.57 0.00 34.21 3.67
285 287 1.239296 CGTGGACTAGTGACCCGTCA 61.239 60.000 0.00 0.00 37.24 4.35
372 389 3.524648 GACAACGGGCCGGACAAGA 62.525 63.158 31.78 0.00 0.00 3.02
373 390 3.047877 CAACGGGCCGGACAAGAC 61.048 66.667 31.78 0.00 0.00 3.01
374 391 3.552384 AACGGGCCGGACAAGACA 61.552 61.111 31.78 0.00 0.00 3.41
375 392 3.109592 AACGGGCCGGACAAGACAA 62.110 57.895 31.78 0.00 0.00 3.18
406 426 3.889227 CGGAGCGGCAATCTTTGA 58.111 55.556 1.45 0.00 0.00 2.69
407 427 2.170738 CGGAGCGGCAATCTTTGAA 58.829 52.632 1.45 0.00 0.00 2.69
428 448 3.537874 GACCTGACCCGATCCCCG 61.538 72.222 0.00 0.00 38.18 5.73
510 540 1.467543 GCTCACGCGAGAGTAACATGA 60.468 52.381 29.64 12.02 42.34 3.07
511 541 2.445316 CTCACGCGAGAGTAACATGAG 58.555 52.381 23.20 13.33 42.34 2.90
512 542 1.810755 TCACGCGAGAGTAACATGAGT 59.189 47.619 15.93 0.00 0.00 3.41
513 543 3.004862 TCACGCGAGAGTAACATGAGTA 58.995 45.455 15.93 0.00 0.00 2.59
514 544 3.099362 CACGCGAGAGTAACATGAGTAC 58.901 50.000 15.93 1.20 0.00 2.73
515 545 2.745821 ACGCGAGAGTAACATGAGTACA 59.254 45.455 15.93 0.00 0.00 2.90
516 546 3.377485 ACGCGAGAGTAACATGAGTACAT 59.623 43.478 15.93 0.00 37.19 2.29
526 556 2.245159 ATGAGTACATGACATGGCGG 57.755 50.000 19.39 0.00 35.21 6.13
527 557 0.461870 TGAGTACATGACATGGCGGC 60.462 55.000 19.39 0.00 33.60 6.53
528 558 0.461870 GAGTACATGACATGGCGGCA 60.462 55.000 16.34 16.34 33.60 5.69
529 559 0.181114 AGTACATGACATGGCGGCAT 59.819 50.000 20.18 20.18 33.60 4.40
530 560 0.308684 GTACATGACATGGCGGCATG 59.691 55.000 40.61 40.61 43.70 4.06
585 622 4.715130 TCACGGGCCCCACTAGCT 62.715 66.667 18.66 0.00 0.00 3.32
590 627 2.187163 GGCCCCACTAGCTCGTTC 59.813 66.667 0.00 0.00 0.00 3.95
616 653 4.680537 ACCCCGTCGCCAGAGACT 62.681 66.667 0.12 0.00 38.90 3.24
663 700 4.103103 GCCGCCGTTCCTTCTTGC 62.103 66.667 0.00 0.00 0.00 4.01
763 819 2.178474 TACGACCTTGAATACGCGTC 57.822 50.000 18.63 1.04 33.69 5.19
797 853 1.690893 AGTGCATGCATCTACCGATCT 59.309 47.619 25.64 9.82 0.00 2.75
798 854 2.893489 AGTGCATGCATCTACCGATCTA 59.107 45.455 25.64 0.00 0.00 1.98
799 855 2.989840 GTGCATGCATCTACCGATCTAC 59.010 50.000 25.64 1.60 0.00 2.59
800 856 2.893489 TGCATGCATCTACCGATCTACT 59.107 45.455 18.46 0.00 0.00 2.57
801 857 3.057245 TGCATGCATCTACCGATCTACTC 60.057 47.826 18.46 0.00 0.00 2.59
802 858 3.674682 GCATGCATCTACCGATCTACTCC 60.675 52.174 14.21 0.00 0.00 3.85
838 894 6.581171 TGTAGAGATGGTATGCTCTGTATG 57.419 41.667 0.00 0.00 41.34 2.39
840 896 5.465532 AGAGATGGTATGCTCTGTATGTG 57.534 43.478 0.00 0.00 39.86 3.21
841 897 3.993081 GAGATGGTATGCTCTGTATGTGC 59.007 47.826 0.00 0.00 35.88 4.57
842 898 3.645212 AGATGGTATGCTCTGTATGTGCT 59.355 43.478 0.00 0.00 36.27 4.40
858 1054 4.060288 TGTGCTACGTATTTCGCAAAAG 57.940 40.909 8.60 0.00 44.19 2.27
928 1134 1.374758 GTAGCTTGCCGCACTGACT 60.375 57.895 0.00 0.00 42.61 3.41
932 1138 1.912371 GCTTGCCGCACTGACTAACC 61.912 60.000 0.00 0.00 38.92 2.85
957 1163 1.375523 GGGCGACATTTCCACGTCT 60.376 57.895 0.00 0.00 0.00 4.18
961 1167 1.635663 CGACATTTCCACGTCTGCCC 61.636 60.000 0.00 0.00 0.00 5.36
973 1179 2.353889 ACGTCTGCCCGCTATATATACG 59.646 50.000 0.00 0.00 0.00 3.06
982 1188 2.686405 CGCTATATATACGGCCCACAGA 59.314 50.000 0.00 0.00 0.00 3.41
1028 1237 2.879026 TCCCGTCTCATTATCTGTCTCG 59.121 50.000 0.00 0.00 0.00 4.04
1031 1240 2.047769 GTCTCATTATCTGTCTCGCGC 58.952 52.381 0.00 0.00 0.00 6.86
1191 1407 0.034896 TGAAGAAGGTGCGGTTCCTC 59.965 55.000 0.00 0.00 33.76 3.71
1431 1650 1.451747 GGAGTACTCGAGGTCCGCT 60.452 63.158 18.41 6.77 38.37 5.52
1632 1851 2.228822 CAGGGTTTCTTGACCGATTTGG 59.771 50.000 0.00 0.00 46.41 3.28
1646 1866 0.250727 ATTTGGTCCCCGGATATGCG 60.251 55.000 9.98 9.98 0.00 4.73
1659 1879 2.287915 GGATATGCGTTGCGATTCTTGT 59.712 45.455 0.00 0.00 0.00 3.16
1674 1894 6.031417 GCGATTCTTGTTTAATTTCGTGTGAG 59.969 38.462 0.00 0.00 0.00 3.51
1738 1958 1.421410 ATCATTTCTGCGCGTCGTCC 61.421 55.000 8.43 0.00 0.00 4.79
1739 1959 2.094659 CATTTCTGCGCGTCGTCCT 61.095 57.895 8.43 0.00 0.00 3.85
1740 1960 1.805945 ATTTCTGCGCGTCGTCCTC 60.806 57.895 8.43 0.00 0.00 3.71
1938 2266 7.949434 AGCCAGAATCAATTAATCAAGAATCC 58.051 34.615 0.00 0.00 0.00 3.01
2044 2372 7.707624 ATATGTCCGGCATATTCAATTTCAT 57.292 32.000 19.47 2.98 45.73 2.57
2050 2378 5.418524 CCGGCATATTCAATTTCATATGGGA 59.581 40.000 2.13 0.00 34.94 4.37
2051 2379 6.324819 CGGCATATTCAATTTCATATGGGAC 58.675 40.000 2.13 1.27 34.94 4.46
2055 2395 9.236006 GCATATTCAATTTCATATGGGACTACT 57.764 33.333 2.13 0.00 34.94 2.57
2092 2432 4.093261 GCAAACTTCACATGTGCACTTTTT 59.907 37.500 21.38 11.80 35.28 1.94
2093 2433 5.724769 GCAAACTTCACATGTGCACTTTTTC 60.725 40.000 21.38 8.12 35.28 2.29
2094 2434 4.717233 ACTTCACATGTGCACTTTTTCA 57.283 36.364 21.38 0.00 0.00 2.69
2095 2435 5.266733 ACTTCACATGTGCACTTTTTCAT 57.733 34.783 21.38 0.00 0.00 2.57
2098 2438 3.005684 TCACATGTGCACTTTTTCATCCC 59.994 43.478 21.38 0.00 0.00 3.85
2286 2635 1.663388 CGCAGTCACAACGGTAGCA 60.663 57.895 0.00 0.00 0.00 3.49
2334 2683 4.699522 AAGGCAAGCCGACGGACC 62.700 66.667 20.50 12.67 41.95 4.46
2378 2727 4.796231 GCATCGCGGAGTCGTGGT 62.796 66.667 6.13 0.00 45.85 4.16
2481 2830 3.834799 CCGTGGTCGAGGTAGCCC 61.835 72.222 0.00 0.00 39.71 5.19
2583 2932 2.879462 GAGTTAGTCGTGGGCGCG 60.879 66.667 0.00 0.00 38.14 6.86
2716 3065 4.201679 CCGGGCATGCGTAGACGA 62.202 66.667 12.44 0.00 43.02 4.20
2720 3069 2.514013 GGCATGCGTAGACGAACGG 61.514 63.158 12.44 0.00 43.06 4.44
2788 3137 3.598715 TCGTGGACGAAGGCACGT 61.599 61.111 9.24 9.24 46.30 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.929038 GCGACGACTACAAGCACTCAA 60.929 52.381 0.00 0.00 0.00 3.02
2 3 0.109689 AGCGACGACTACAAGCACTC 60.110 55.000 0.00 0.00 0.00 3.51
3 4 0.109689 GAGCGACGACTACAAGCACT 60.110 55.000 0.00 0.00 0.00 4.40
4 5 1.071567 GGAGCGACGACTACAAGCAC 61.072 60.000 0.00 0.00 0.00 4.40
6 7 1.868251 CGGAGCGACGACTACAAGC 60.868 63.158 0.00 0.00 35.47 4.01
7 8 0.793478 CACGGAGCGACGACTACAAG 60.793 60.000 9.99 0.00 37.61 3.16
8 9 1.208358 CACGGAGCGACGACTACAA 59.792 57.895 9.99 0.00 37.61 2.41
9 10 2.683859 CCACGGAGCGACGACTACA 61.684 63.158 9.99 0.00 37.61 2.74
10 11 2.099831 CCACGGAGCGACGACTAC 59.900 66.667 9.99 0.00 37.61 2.73
11 12 1.518056 AAACCACGGAGCGACGACTA 61.518 55.000 9.99 0.00 37.61 2.59
12 13 1.518056 TAAACCACGGAGCGACGACT 61.518 55.000 9.99 0.00 37.61 4.18
13 14 0.457337 ATAAACCACGGAGCGACGAC 60.457 55.000 9.99 0.00 37.61 4.34
14 15 0.457166 CATAAACCACGGAGCGACGA 60.457 55.000 9.99 0.00 37.61 4.20
15 16 1.418342 CCATAAACCACGGAGCGACG 61.418 60.000 1.52 1.52 40.31 5.12
16 17 0.108520 TCCATAAACCACGGAGCGAC 60.109 55.000 0.00 0.00 0.00 5.19
17 18 0.828022 ATCCATAAACCACGGAGCGA 59.172 50.000 0.00 0.00 30.84 4.93
18 19 1.202533 AGATCCATAAACCACGGAGCG 60.203 52.381 0.00 0.00 40.19 5.03
19 20 2.213499 CAGATCCATAAACCACGGAGC 58.787 52.381 0.00 0.00 35.41 4.70
20 21 2.434336 TCCAGATCCATAAACCACGGAG 59.566 50.000 0.00 0.00 30.84 4.63
21 22 2.473070 TCCAGATCCATAAACCACGGA 58.527 47.619 0.00 0.00 0.00 4.69
22 23 3.141398 CATCCAGATCCATAAACCACGG 58.859 50.000 0.00 0.00 0.00 4.94
23 24 3.808728 ACATCCAGATCCATAAACCACG 58.191 45.455 0.00 0.00 0.00 4.94
24 25 7.823745 AATTACATCCAGATCCATAAACCAC 57.176 36.000 0.00 0.00 0.00 4.16
52 53 9.578439 GGTAGTACAACGAACACTAGAAATAAT 57.422 33.333 2.06 0.00 0.00 1.28
53 54 8.575589 TGGTAGTACAACGAACACTAGAAATAA 58.424 33.333 2.06 0.00 0.00 1.40
54 55 8.109705 TGGTAGTACAACGAACACTAGAAATA 57.890 34.615 2.06 0.00 0.00 1.40
55 56 6.985117 TGGTAGTACAACGAACACTAGAAAT 58.015 36.000 2.06 0.00 0.00 2.17
56 57 6.389830 TGGTAGTACAACGAACACTAGAAA 57.610 37.500 2.06 0.00 0.00 2.52
57 58 6.207221 TCATGGTAGTACAACGAACACTAGAA 59.793 38.462 2.06 0.00 0.00 2.10
58 59 5.706833 TCATGGTAGTACAACGAACACTAGA 59.293 40.000 2.06 0.00 0.00 2.43
59 60 5.946298 TCATGGTAGTACAACGAACACTAG 58.054 41.667 2.06 0.00 0.00 2.57
60 61 5.963176 TCATGGTAGTACAACGAACACTA 57.037 39.130 2.06 0.00 0.00 2.74
61 62 4.859304 TCATGGTAGTACAACGAACACT 57.141 40.909 2.06 0.00 0.00 3.55
62 63 5.636121 TCAATCATGGTAGTACAACGAACAC 59.364 40.000 2.06 0.00 0.00 3.32
63 64 5.785243 TCAATCATGGTAGTACAACGAACA 58.215 37.500 2.06 0.00 0.00 3.18
64 65 6.588756 TCTTCAATCATGGTAGTACAACGAAC 59.411 38.462 2.06 0.00 0.00 3.95
65 66 6.693466 TCTTCAATCATGGTAGTACAACGAA 58.307 36.000 2.06 0.00 0.00 3.85
66 67 6.275494 TCTTCAATCATGGTAGTACAACGA 57.725 37.500 2.06 0.00 0.00 3.85
67 68 6.756542 TCATCTTCAATCATGGTAGTACAACG 59.243 38.462 2.06 0.00 0.00 4.10
68 69 8.492673 TTCATCTTCAATCATGGTAGTACAAC 57.507 34.615 2.06 0.00 0.00 3.32
70 71 9.987272 CTATTCATCTTCAATCATGGTAGTACA 57.013 33.333 2.06 0.00 0.00 2.90
75 76 9.511272 CCAATCTATTCATCTTCAATCATGGTA 57.489 33.333 0.00 0.00 0.00 3.25
76 77 8.222637 TCCAATCTATTCATCTTCAATCATGGT 58.777 33.333 0.00 0.00 0.00 3.55
77 78 8.631480 TCCAATCTATTCATCTTCAATCATGG 57.369 34.615 0.00 0.00 0.00 3.66
79 80 9.863650 ACTTCCAATCTATTCATCTTCAATCAT 57.136 29.630 0.00 0.00 0.00 2.45
80 81 9.690913 AACTTCCAATCTATTCATCTTCAATCA 57.309 29.630 0.00 0.00 0.00 2.57
82 83 9.917887 AGAACTTCCAATCTATTCATCTTCAAT 57.082 29.630 0.00 0.00 0.00 2.57
83 84 9.745018 AAGAACTTCCAATCTATTCATCTTCAA 57.255 29.630 0.00 0.00 0.00 2.69
84 85 9.170734 CAAGAACTTCCAATCTATTCATCTTCA 57.829 33.333 0.00 0.00 0.00 3.02
85 86 9.171877 ACAAGAACTTCCAATCTATTCATCTTC 57.828 33.333 0.00 0.00 0.00 2.87
86 87 9.525826 AACAAGAACTTCCAATCTATTCATCTT 57.474 29.630 0.00 0.00 0.00 2.40
89 90 9.739276 TGTAACAAGAACTTCCAATCTATTCAT 57.261 29.630 0.00 0.00 0.00 2.57
90 91 9.739276 ATGTAACAAGAACTTCCAATCTATTCA 57.261 29.630 0.00 0.00 0.00 2.57
91 92 9.994432 CATGTAACAAGAACTTCCAATCTATTC 57.006 33.333 0.00 0.00 0.00 1.75
92 93 9.739276 TCATGTAACAAGAACTTCCAATCTATT 57.261 29.630 0.00 0.00 0.00 1.73
93 94 9.739276 TTCATGTAACAAGAACTTCCAATCTAT 57.261 29.630 0.00 0.00 0.00 1.98
94 95 9.567776 TTTCATGTAACAAGAACTTCCAATCTA 57.432 29.630 0.00 0.00 0.00 1.98
95 96 8.463930 TTTCATGTAACAAGAACTTCCAATCT 57.536 30.769 0.00 0.00 0.00 2.40
96 97 8.567948 TCTTTCATGTAACAAGAACTTCCAATC 58.432 33.333 0.00 0.00 0.00 2.67
97 98 8.463930 TCTTTCATGTAACAAGAACTTCCAAT 57.536 30.769 0.00 0.00 0.00 3.16
98 99 7.873719 TCTTTCATGTAACAAGAACTTCCAA 57.126 32.000 0.00 0.00 0.00 3.53
99 100 7.873719 TTCTTTCATGTAACAAGAACTTCCA 57.126 32.000 0.00 0.00 32.72 3.53
100 101 9.581099 TTTTTCTTTCATGTAACAAGAACTTCC 57.419 29.630 9.93 0.00 36.49 3.46
103 104 9.573133 CACTTTTTCTTTCATGTAACAAGAACT 57.427 29.630 9.93 0.00 36.49 3.01
104 105 8.807581 CCACTTTTTCTTTCATGTAACAAGAAC 58.192 33.333 9.93 0.00 36.49 3.01
105 106 7.491048 GCCACTTTTTCTTTCATGTAACAAGAA 59.509 33.333 0.00 0.81 35.25 2.52
106 107 6.978080 GCCACTTTTTCTTTCATGTAACAAGA 59.022 34.615 0.00 0.00 0.00 3.02
107 108 6.980397 AGCCACTTTTTCTTTCATGTAACAAG 59.020 34.615 0.00 0.00 0.00 3.16
108 109 6.756074 CAGCCACTTTTTCTTTCATGTAACAA 59.244 34.615 0.00 0.00 0.00 2.83
109 110 6.272318 CAGCCACTTTTTCTTTCATGTAACA 58.728 36.000 0.00 0.00 0.00 2.41
110 111 5.175673 GCAGCCACTTTTTCTTTCATGTAAC 59.824 40.000 0.00 0.00 0.00 2.50
111 112 5.163468 TGCAGCCACTTTTTCTTTCATGTAA 60.163 36.000 0.00 0.00 0.00 2.41
112 113 4.340666 TGCAGCCACTTTTTCTTTCATGTA 59.659 37.500 0.00 0.00 0.00 2.29
113 114 3.132646 TGCAGCCACTTTTTCTTTCATGT 59.867 39.130 0.00 0.00 0.00 3.21
114 115 3.719924 TGCAGCCACTTTTTCTTTCATG 58.280 40.909 0.00 0.00 0.00 3.07
115 116 3.801293 GCTGCAGCCACTTTTTCTTTCAT 60.801 43.478 28.76 0.00 34.31 2.57
116 117 2.481795 GCTGCAGCCACTTTTTCTTTCA 60.482 45.455 28.76 0.00 34.31 2.69
117 118 2.130395 GCTGCAGCCACTTTTTCTTTC 58.870 47.619 28.76 0.00 34.31 2.62
118 119 1.758862 AGCTGCAGCCACTTTTTCTTT 59.241 42.857 34.39 9.07 43.38 2.52
119 120 1.406903 AGCTGCAGCCACTTTTTCTT 58.593 45.000 34.39 9.65 43.38 2.52
120 121 2.276732 TAGCTGCAGCCACTTTTTCT 57.723 45.000 34.39 15.49 43.38 2.52
121 122 2.666026 GTTAGCTGCAGCCACTTTTTC 58.334 47.619 34.39 12.79 43.38 2.29
122 123 1.001378 CGTTAGCTGCAGCCACTTTTT 60.001 47.619 34.39 17.02 43.38 1.94
123 124 0.593128 CGTTAGCTGCAGCCACTTTT 59.407 50.000 34.39 17.78 43.38 2.27
124 125 1.237285 CCGTTAGCTGCAGCCACTTT 61.237 55.000 34.39 18.55 43.38 2.66
125 126 1.672356 CCGTTAGCTGCAGCCACTT 60.672 57.895 34.39 18.95 43.38 3.16
126 127 2.046892 CCGTTAGCTGCAGCCACT 60.047 61.111 34.39 19.34 43.38 4.00
127 128 3.804193 GCCGTTAGCTGCAGCCAC 61.804 66.667 34.39 27.97 43.38 5.01
130 131 3.854459 GACGCCGTTAGCTGCAGC 61.854 66.667 31.53 31.53 40.39 5.25
131 132 1.291877 AAAGACGCCGTTAGCTGCAG 61.292 55.000 10.11 10.11 40.39 4.41
132 133 1.289109 GAAAGACGCCGTTAGCTGCA 61.289 55.000 1.02 0.00 40.39 4.41
133 134 1.014564 AGAAAGACGCCGTTAGCTGC 61.015 55.000 0.00 0.00 40.39 5.25
134 135 0.992802 GAGAAAGACGCCGTTAGCTG 59.007 55.000 0.00 0.00 40.39 4.24
135 136 0.108756 GGAGAAAGACGCCGTTAGCT 60.109 55.000 0.00 0.00 40.39 3.32
136 137 1.082679 GGGAGAAAGACGCCGTTAGC 61.083 60.000 0.00 0.00 39.38 3.09
137 138 0.801067 CGGGAGAAAGACGCCGTTAG 60.801 60.000 0.00 0.00 39.38 2.34
138 139 1.213537 CGGGAGAAAGACGCCGTTA 59.786 57.895 0.00 0.00 39.38 3.18
139 140 2.048503 CGGGAGAAAGACGCCGTT 60.049 61.111 0.00 0.00 39.38 4.44
140 141 2.987547 TCGGGAGAAAGACGCCGT 60.988 61.111 0.00 0.00 39.38 5.68
160 161 3.200483 AGAAGACGCCGTTAGTGTTTTT 58.800 40.909 0.00 0.00 40.03 1.94
161 162 2.830104 AGAAGACGCCGTTAGTGTTTT 58.170 42.857 0.00 0.00 40.03 2.43
162 163 2.521105 AGAAGACGCCGTTAGTGTTT 57.479 45.000 0.00 0.00 40.03 2.83
163 164 2.521105 AAGAAGACGCCGTTAGTGTT 57.479 45.000 0.00 0.00 40.03 3.32
164 165 2.132762 CAAAGAAGACGCCGTTAGTGT 58.867 47.619 0.00 0.00 43.60 3.55
165 166 2.096909 CACAAAGAAGACGCCGTTAGTG 60.097 50.000 0.00 0.00 0.00 2.74
166 167 2.132762 CACAAAGAAGACGCCGTTAGT 58.867 47.619 0.00 0.00 0.00 2.24
180 181 1.002468 CTCCGACCTGTTTGCACAAAG 60.002 52.381 0.00 0.00 30.36 2.77
223 225 4.484236 GTTTGATTGATCGATTTGTGGCA 58.516 39.130 0.00 0.00 0.00 4.92
226 228 3.235852 CGCGTTTGATTGATCGATTTGTG 59.764 43.478 0.00 0.00 0.00 3.33
231 233 3.740044 AAACGCGTTTGATTGATCGAT 57.260 38.095 34.36 7.53 0.00 3.59
254 256 0.756903 AGTCCACGCCTGTACAAAGT 59.243 50.000 0.00 0.00 0.00 2.66
263 265 1.982938 GGGTCACTAGTCCACGCCT 60.983 63.158 0.00 0.00 0.00 5.52
265 267 2.181021 CGGGTCACTAGTCCACGC 59.819 66.667 0.00 0.25 0.00 5.34
278 280 2.697761 CGGAGTGACGATGACGGGT 61.698 63.158 0.00 0.00 44.46 5.28
279 281 2.102357 CGGAGTGACGATGACGGG 59.898 66.667 0.00 0.00 44.46 5.28
285 287 3.518998 CGAGCCCGGAGTGACGAT 61.519 66.667 0.73 0.00 35.47 3.73
401 421 3.146066 TCGGGTCAGGTCAAATTCAAAG 58.854 45.455 0.00 0.00 0.00 2.77
402 422 3.216187 TCGGGTCAGGTCAAATTCAAA 57.784 42.857 0.00 0.00 0.00 2.69
403 423 2.940994 TCGGGTCAGGTCAAATTCAA 57.059 45.000 0.00 0.00 0.00 2.69
404 424 2.355716 GGATCGGGTCAGGTCAAATTCA 60.356 50.000 0.00 0.00 0.00 2.57
405 425 2.289565 GGATCGGGTCAGGTCAAATTC 58.710 52.381 0.00 0.00 0.00 2.17
406 426 1.064685 GGGATCGGGTCAGGTCAAATT 60.065 52.381 0.00 0.00 0.00 1.82
407 427 0.546598 GGGATCGGGTCAGGTCAAAT 59.453 55.000 0.00 0.00 0.00 2.32
510 540 0.181114 ATGCCGCCATGTCATGTACT 59.819 50.000 11.84 0.00 0.00 2.73
511 541 0.308684 CATGCCGCCATGTCATGTAC 59.691 55.000 11.84 2.91 43.07 2.90
512 542 0.818852 CCATGCCGCCATGTCATGTA 60.819 55.000 11.84 0.00 45.90 2.29
513 543 2.122797 CCATGCCGCCATGTCATGT 61.123 57.895 11.84 0.00 45.90 3.21
514 544 2.725641 CCATGCCGCCATGTCATG 59.274 61.111 5.56 5.79 45.90 3.07
515 545 3.221389 GCCATGCCGCCATGTCAT 61.221 61.111 5.56 0.00 45.90 3.06
581 618 1.001764 TCCTGGTCCGAACGAGCTA 60.002 57.895 0.00 0.00 39.84 3.32
585 622 2.993264 GGGTCCTGGTCCGAACGA 60.993 66.667 3.87 0.00 0.00 3.85
614 651 3.119459 CGTGCACTACTGGTATTCTGAGT 60.119 47.826 16.19 0.00 0.00 3.41
616 653 2.823747 ACGTGCACTACTGGTATTCTGA 59.176 45.455 16.19 0.00 0.00 3.27
715 755 7.446319 ACCGAGCAACATGTACATAGTAGTATA 59.554 37.037 8.32 0.00 0.00 1.47
717 757 5.591472 ACCGAGCAACATGTACATAGTAGTA 59.409 40.000 8.32 0.00 0.00 1.82
719 759 4.933330 ACCGAGCAACATGTACATAGTAG 58.067 43.478 8.32 0.00 0.00 2.57
720 760 4.399934 TGACCGAGCAACATGTACATAGTA 59.600 41.667 8.32 0.00 0.00 1.82
722 762 3.780902 TGACCGAGCAACATGTACATAG 58.219 45.455 8.32 5.94 0.00 2.23
763 819 1.302383 TGCACTCCGGCCGTTAATTG 61.302 55.000 26.12 14.16 0.00 2.32
797 853 5.370679 TCTACATGCATACACGTAGGAGTA 58.629 41.667 17.30 4.65 41.73 2.59
798 854 4.204799 TCTACATGCATACACGTAGGAGT 58.795 43.478 17.30 3.82 41.73 3.85
799 855 4.515567 TCTCTACATGCATACACGTAGGAG 59.484 45.833 17.30 13.89 41.73 3.69
800 856 4.457466 TCTCTACATGCATACACGTAGGA 58.543 43.478 17.30 12.33 41.73 2.94
801 857 4.830826 TCTCTACATGCATACACGTAGG 57.169 45.455 17.30 10.80 41.73 3.18
802 858 5.157067 CCATCTCTACATGCATACACGTAG 58.843 45.833 13.25 13.25 42.56 3.51
838 894 4.316375 TCTTTTGCGAAATACGTAGCAC 57.684 40.909 6.72 0.00 44.60 4.40
840 896 6.663480 TTTTTCTTTTGCGAAATACGTAGC 57.337 33.333 0.08 0.00 44.60 3.58
865 1067 1.148310 GTACGCACACACAGAGCATT 58.852 50.000 0.00 0.00 32.95 3.56
875 1081 1.705256 TTCGAGGAATGTACGCACAC 58.295 50.000 0.00 0.00 37.54 3.82
928 1134 1.594194 ATGTCGCCCACGTACGGTTA 61.594 55.000 21.06 0.00 41.18 2.85
932 1138 1.689352 GGAAATGTCGCCCACGTACG 61.689 60.000 15.01 15.01 41.18 3.67
961 1167 2.686405 TCTGTGGGCCGTATATATAGCG 59.314 50.000 0.00 0.91 0.00 4.26
973 1179 1.376037 CGAGAGGTTTCTGTGGGCC 60.376 63.158 0.00 0.00 32.53 5.80
982 1188 0.543174 AGTGAGAGGGCGAGAGGTTT 60.543 55.000 0.00 0.00 0.00 3.27
1031 1240 0.110056 CGCAAGTGGCTAGCAAACAG 60.110 55.000 18.24 11.51 41.67 3.16
1191 1407 2.125350 GTGGCGCTGAAGGAGAGG 60.125 66.667 7.64 0.00 0.00 3.69
1508 1727 3.394674 TGTAGAAGTTGGCGATGAACA 57.605 42.857 0.00 0.00 0.00 3.18
1569 1788 1.153745 GCTGTCGACCCTGCAGTAG 60.154 63.158 14.12 6.19 33.18 2.57
1576 1795 3.699894 CTGCAGGCTGTCGACCCT 61.700 66.667 17.16 10.45 0.00 4.34
1632 1851 2.251642 GCAACGCATATCCGGGGAC 61.252 63.158 0.00 0.00 0.00 4.46
1646 1866 6.141685 ACACGAAATTAAACAAGAATCGCAAC 59.858 34.615 0.00 0.00 32.46 4.17
1659 1879 5.587043 ACACCTGTTCTCACACGAAATTAAA 59.413 36.000 0.00 0.00 0.00 1.52
1674 1894 3.120321 TCCACATACACACACCTGTTC 57.880 47.619 0.00 0.00 0.00 3.18
1738 1958 9.995003 ATCTTACAGAGCAAATTAATCCTAGAG 57.005 33.333 0.00 0.00 0.00 2.43
1739 1959 9.988815 GATCTTACAGAGCAAATTAATCCTAGA 57.011 33.333 0.00 0.00 29.54 2.43
1740 1960 8.920665 CGATCTTACAGAGCAAATTAATCCTAG 58.079 37.037 0.00 0.00 27.99 3.02
1938 2266 3.194968 ACAAGGAGATAGTACCAACCGTG 59.805 47.826 0.00 0.00 34.27 4.94
1979 2307 3.918253 TTCCGGCTGCCCATGTGAC 62.918 63.158 14.12 0.00 0.00 3.67
2023 2351 6.072008 CCATATGAAATTGAATATGCCGGACA 60.072 38.462 5.05 2.56 36.05 4.02
2027 2355 6.151648 AGTCCCATATGAAATTGAATATGCCG 59.848 38.462 3.65 7.07 36.05 5.69
2044 2372 7.225011 CACTGTGAGTATAGAGTAGTCCCATA 58.775 42.308 0.32 0.00 0.00 2.74
2050 2378 6.434652 AGTTTGCACTGTGAGTATAGAGTAGT 59.565 38.462 12.86 0.00 0.00 2.73
2051 2379 6.857956 AGTTTGCACTGTGAGTATAGAGTAG 58.142 40.000 12.86 0.00 0.00 2.57
2055 2395 5.926542 GTGAAGTTTGCACTGTGAGTATAGA 59.073 40.000 12.86 0.00 31.60 1.98
2059 2399 3.867857 TGTGAAGTTTGCACTGTGAGTA 58.132 40.909 12.86 0.00 37.18 2.59
2098 2438 3.196685 CCCTCTCTCCCTTCTAACACAAG 59.803 52.174 0.00 0.00 0.00 3.16
2286 2635 1.007271 CAGTCTCACCGTCTGCGTT 60.007 57.895 0.00 0.00 36.15 4.84
2378 2727 1.476110 CCTCGTTGGTTTCCACTCCAA 60.476 52.381 0.00 0.00 40.77 3.53
2412 2761 2.033448 CGGCACAAAGGGCTACCA 59.967 61.111 0.00 0.00 40.13 3.25
2481 2830 1.970917 GACCACGGCATTCTTCGCAG 61.971 60.000 0.00 0.00 0.00 5.18
2583 2932 0.677842 ACCACTACTTCGACACCACC 59.322 55.000 0.00 0.00 0.00 4.61
2716 3065 0.664761 TCGTCAACTTCGTCTCCGTT 59.335 50.000 0.00 0.00 35.01 4.44
2720 3069 0.703466 CGCTTCGTCAACTTCGTCTC 59.297 55.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.