Multiple sequence alignment - TraesCS6D01G170800

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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 TraesCS6D01G170800 chr6D 100.000 3329 0 0 1 3329 157442670 157445998 0.000000e+00 6148.0
1 TraesCS6D01G170800 chr2B 93.048 3035 201 10 300 3329 750324411 750321382 0.000000e+00 4427.0
2 TraesCS6D01G170800 chr2B 77.762 2878 562 57 484 3329 367415031 367412200 0.000000e+00 1698.0
3 TraesCS6D01G170800 chr2B 92.676 355 20 5 307 658 750318820 750318469 1.070000e-139 507.0
4 TraesCS6D01G170800 chr5A 88.889 3042 304 28 307 3329 618441993 618445019 0.000000e+00 3714.0
5 TraesCS6D01G170800 chr5A 90.218 2341 221 7 992 3329 625954466 625956801 0.000000e+00 3048.0
6 TraesCS6D01G170800 chr5A 90.000 370 31 6 306 673 625953986 625954351 1.080000e-129 473.0
7 TraesCS6D01G170800 chr5A 90.085 353 29 6 307 657 626018043 626018391 1.410000e-123 453.0
8 TraesCS6D01G170800 chr5A 87.535 353 36 7 307 656 618447569 618447916 5.170000e-108 401.0
9 TraesCS6D01G170800 chr1A 86.625 3043 352 29 307 3329 522008580 522005573 0.000000e+00 3314.0
10 TraesCS6D01G170800 chr1A 86.408 103 12 2 2289 2390 24545329 24545228 9.760000e-21 111.0
11 TraesCS6D01G170800 chr2D 82.737 2821 439 45 306 3101 361264495 361267292 0.000000e+00 2468.0
12 TraesCS6D01G170800 chr7B 88.063 1843 212 5 1490 3329 609037817 609035980 0.000000e+00 2178.0
13 TraesCS6D01G170800 chr7B 78.939 2545 444 69 392 2884 521137879 521140383 0.000000e+00 1646.0
14 TraesCS6D01G170800 chr7B 87.365 1021 85 19 306 1300 418203409 418204411 0.000000e+00 1131.0
15 TraesCS6D01G170800 chr7B 83.485 1205 144 35 306 1479 609060811 609059631 0.000000e+00 1072.0
16 TraesCS6D01G170800 chr7B 83.425 362 46 13 307 664 609027930 609027579 1.150000e-84 324.0
17 TraesCS6D01G170800 chr5D 79.142 2354 458 24 998 3329 293547403 293545061 0.000000e+00 1596.0
18 TraesCS6D01G170800 chr6A 83.769 1300 178 28 307 1586 264843410 264844696 0.000000e+00 1201.0
19 TraesCS6D01G170800 chr6A 87.400 873 103 5 2458 3329 264844685 264845551 0.000000e+00 996.0
20 TraesCS6D01G170800 chr3B 78.999 1538 297 26 1804 3329 9113556 9112033 0.000000e+00 1027.0
21 TraesCS6D01G170800 chr3D 72.953 1453 331 55 781 2202 90763107 90761686 1.820000e-122 449.0
22 TraesCS6D01G170800 chr6B 97.000 200 4 2 107 306 280374015 280374212 5.320000e-88 335.0
23 TraesCS6D01G170800 chr6B 96.694 121 4 0 1 121 280367599 280367719 5.630000e-48 202.0
24 TraesCS6D01G170800 chr7A 88.136 59 4 3 631 688 466531625 466531681 2.140000e-07 67.6


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 TraesCS6D01G170800 chr6D 157442670 157445998 3328 False 6148.0 6148 100.0000 1 3329 1 chr6D.!!$F1 3328
1 TraesCS6D01G170800 chr2B 750318469 750324411 5942 True 2467.0 4427 92.8620 300 3329 2 chr2B.!!$R2 3029
2 TraesCS6D01G170800 chr2B 367412200 367415031 2831 True 1698.0 1698 77.7620 484 3329 1 chr2B.!!$R1 2845
3 TraesCS6D01G170800 chr5A 618441993 618447916 5923 False 2057.5 3714 88.2120 307 3329 2 chr5A.!!$F2 3022
4 TraesCS6D01G170800 chr5A 625953986 625956801 2815 False 1760.5 3048 90.1090 306 3329 2 chr5A.!!$F3 3023
5 TraesCS6D01G170800 chr1A 522005573 522008580 3007 True 3314.0 3314 86.6250 307 3329 1 chr1A.!!$R2 3022
6 TraesCS6D01G170800 chr2D 361264495 361267292 2797 False 2468.0 2468 82.7370 306 3101 1 chr2D.!!$F1 2795
7 TraesCS6D01G170800 chr7B 609035980 609037817 1837 True 2178.0 2178 88.0630 1490 3329 1 chr7B.!!$R2 1839
8 TraesCS6D01G170800 chr7B 521137879 521140383 2504 False 1646.0 1646 78.9390 392 2884 1 chr7B.!!$F2 2492
9 TraesCS6D01G170800 chr7B 418203409 418204411 1002 False 1131.0 1131 87.3650 306 1300 1 chr7B.!!$F1 994
10 TraesCS6D01G170800 chr7B 609059631 609060811 1180 True 1072.0 1072 83.4850 306 1479 1 chr7B.!!$R3 1173
11 TraesCS6D01G170800 chr5D 293545061 293547403 2342 True 1596.0 1596 79.1420 998 3329 1 chr5D.!!$R1 2331
12 TraesCS6D01G170800 chr6A 264843410 264845551 2141 False 1098.5 1201 85.5845 307 3329 2 chr6A.!!$F1 3022
13 TraesCS6D01G170800 chr3B 9112033 9113556 1523 True 1027.0 1027 78.9990 1804 3329 1 chr3B.!!$R1 1525
14 TraesCS6D01G170800 chr3D 90761686 90763107 1421 True 449.0 449 72.9530 781 2202 1 chr3D.!!$R1 1421

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
185 186 0.036577 CTGAGGTTGAGGTGCCTGAG 60.037 60.0 0.00 0.0 34.81 3.35 F
280 281 0.036671 GGTGAGGTTACCCAGTTCGG 60.037 60.0 0.00 0.0 34.56 4.30 F
882 982 0.462789 ATCGGTAAAATCCCGCGTCT 59.537 50.0 4.92 0.0 45.09 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1653 1775 0.684479 GAAAATCCAGCCCAGGACCC 60.684 60.000 0.00 0.0 41.3 4.46 R
1965 2091 1.402613 TGCACATCAGCCATCAAATCG 59.597 47.619 0.00 0.0 0.0 3.34 R
2363 2501 2.606308 CCTGTTGCAGCAAGTGAATGTC 60.606 50.000 8.49 0.0 0.0 3.06 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 2.829741 GCTTCCTGTCAGAGTGTTCT 57.170 50.000 0.00 0.00 0.00 3.01
28 29 1.517242 CAGAGTGTTCTGGCCAAGAC 58.483 55.000 7.01 9.17 45.79 3.01
29 30 1.071385 CAGAGTGTTCTGGCCAAGACT 59.929 52.381 7.01 6.96 45.79 3.24
30 31 1.071385 AGAGTGTTCTGGCCAAGACTG 59.929 52.381 11.73 0.00 33.46 3.51
31 32 1.070758 GAGTGTTCTGGCCAAGACTGA 59.929 52.381 11.73 0.00 33.46 3.41
32 33 1.071385 AGTGTTCTGGCCAAGACTGAG 59.929 52.381 7.01 0.00 33.46 3.35
33 34 1.131638 TGTTCTGGCCAAGACTGAGT 58.868 50.000 7.01 0.00 33.46 3.41
34 35 2.037251 GTGTTCTGGCCAAGACTGAGTA 59.963 50.000 7.01 0.00 33.46 2.59
35 36 2.037251 TGTTCTGGCCAAGACTGAGTAC 59.963 50.000 7.01 0.00 33.46 2.73
36 37 1.267121 TCTGGCCAAGACTGAGTACC 58.733 55.000 7.01 0.00 0.00 3.34
37 38 1.203187 TCTGGCCAAGACTGAGTACCT 60.203 52.381 7.01 0.00 0.00 3.08
38 39 1.625818 CTGGCCAAGACTGAGTACCTT 59.374 52.381 7.01 0.00 0.00 3.50
39 40 1.347707 TGGCCAAGACTGAGTACCTTG 59.652 52.381 0.61 6.97 37.58 3.61
40 41 1.623811 GGCCAAGACTGAGTACCTTGA 59.376 52.381 13.69 0.00 39.55 3.02
41 42 2.354203 GGCCAAGACTGAGTACCTTGAG 60.354 54.545 13.69 6.80 39.55 3.02
42 43 2.563179 GCCAAGACTGAGTACCTTGAGA 59.437 50.000 13.69 0.00 39.55 3.27
43 44 3.615351 GCCAAGACTGAGTACCTTGAGAC 60.615 52.174 13.69 2.28 39.55 3.36
44 45 3.056465 CCAAGACTGAGTACCTTGAGACC 60.056 52.174 13.69 0.00 39.55 3.85
45 46 3.527507 AGACTGAGTACCTTGAGACCA 57.472 47.619 0.00 0.00 0.00 4.02
46 47 3.158676 AGACTGAGTACCTTGAGACCAC 58.841 50.000 0.00 0.00 0.00 4.16
47 48 3.158676 GACTGAGTACCTTGAGACCACT 58.841 50.000 0.00 0.00 0.00 4.00
48 49 3.158676 ACTGAGTACCTTGAGACCACTC 58.841 50.000 0.00 0.00 42.88 3.51
55 56 3.063526 TGAGACCACTCAGCAGGC 58.936 61.111 0.00 0.00 46.55 4.85
56 57 1.838396 TGAGACCACTCAGCAGGCA 60.838 57.895 0.00 0.00 46.55 4.75
57 58 1.079266 GAGACCACTCAGCAGGCAG 60.079 63.158 0.00 0.00 42.21 4.85
58 59 1.534959 AGACCACTCAGCAGGCAGA 60.535 57.895 0.00 0.00 0.00 4.26
59 60 1.079266 GACCACTCAGCAGGCAGAG 60.079 63.158 11.54 11.54 35.96 3.35
60 61 2.436292 CCACTCAGCAGGCAGAGC 60.436 66.667 12.83 0.00 33.61 4.09
61 62 2.663796 CACTCAGCAGGCAGAGCT 59.336 61.111 12.83 0.00 44.62 4.09
62 63 1.448189 CACTCAGCAGGCAGAGCTC 60.448 63.158 12.83 5.27 41.14 4.09
63 64 2.187424 CTCAGCAGGCAGAGCTCC 59.813 66.667 10.93 0.00 41.14 4.70
64 65 2.284478 TCAGCAGGCAGAGCTCCT 60.284 61.111 10.93 0.00 41.14 3.69
68 69 2.268280 CAGGCAGAGCTCCTGTGG 59.732 66.667 10.93 0.00 44.62 4.17
69 70 2.203907 AGGCAGAGCTCCTGTGGT 60.204 61.111 10.93 0.00 44.71 4.16
70 71 1.079256 AGGCAGAGCTCCTGTGGTA 59.921 57.895 10.93 0.00 44.71 3.25
71 72 0.326048 AGGCAGAGCTCCTGTGGTAT 60.326 55.000 10.93 0.00 44.71 2.73
72 73 0.543749 GGCAGAGCTCCTGTGGTATT 59.456 55.000 10.93 0.00 44.71 1.89
73 74 1.065126 GGCAGAGCTCCTGTGGTATTT 60.065 52.381 10.93 0.00 44.71 1.40
74 75 2.284190 GCAGAGCTCCTGTGGTATTTC 58.716 52.381 10.93 0.00 44.71 2.17
75 76 2.544685 CAGAGCTCCTGTGGTATTTCG 58.455 52.381 10.93 0.00 38.10 3.46
76 77 1.134670 AGAGCTCCTGTGGTATTTCGC 60.135 52.381 10.93 0.00 0.00 4.70
77 78 0.905357 AGCTCCTGTGGTATTTCGCT 59.095 50.000 0.00 0.00 0.00 4.93
78 79 1.009829 GCTCCTGTGGTATTTCGCTG 58.990 55.000 0.00 0.00 0.00 5.18
79 80 1.676014 GCTCCTGTGGTATTTCGCTGT 60.676 52.381 0.00 0.00 0.00 4.40
80 81 2.002586 CTCCTGTGGTATTTCGCTGTG 58.997 52.381 0.00 0.00 0.00 3.66
81 82 1.621317 TCCTGTGGTATTTCGCTGTGA 59.379 47.619 0.00 0.00 0.00 3.58
82 83 2.037902 TCCTGTGGTATTTCGCTGTGAA 59.962 45.455 0.00 0.00 33.85 3.18
90 91 2.842208 TTTCGCTGTGAAACCTGTTG 57.158 45.000 12.04 0.00 41.59 3.33
91 92 0.380378 TTCGCTGTGAAACCTGTTGC 59.620 50.000 0.31 0.00 34.36 4.17
92 93 0.463654 TCGCTGTGAAACCTGTTGCT 60.464 50.000 0.00 0.00 34.36 3.91
93 94 0.317269 CGCTGTGAAACCTGTTGCTG 60.317 55.000 0.00 0.00 34.36 4.41
94 95 0.740737 GCTGTGAAACCTGTTGCTGT 59.259 50.000 0.00 0.00 34.36 4.40
95 96 1.946768 GCTGTGAAACCTGTTGCTGTA 59.053 47.619 0.00 0.00 34.36 2.74
96 97 2.287009 GCTGTGAAACCTGTTGCTGTAC 60.287 50.000 0.00 0.00 34.36 2.90
97 98 2.942376 CTGTGAAACCTGTTGCTGTACA 59.058 45.455 0.00 0.00 34.36 2.90
98 99 2.942376 TGTGAAACCTGTTGCTGTACAG 59.058 45.455 18.93 18.93 44.07 2.74
99 100 4.787910 TGTGAAACCTGTTGCTGTACAGC 61.788 47.826 35.76 35.76 46.25 4.40
113 114 5.100751 CTGTACAGCAAAAGGTTCTCAAG 57.899 43.478 10.54 0.00 0.00 3.02
114 115 4.776349 TGTACAGCAAAAGGTTCTCAAGA 58.224 39.130 0.00 0.00 0.00 3.02
115 116 4.574828 TGTACAGCAAAAGGTTCTCAAGAC 59.425 41.667 0.00 0.00 0.00 3.01
116 117 2.614057 ACAGCAAAAGGTTCTCAAGACG 59.386 45.455 0.00 0.00 0.00 4.18
117 118 2.031682 CAGCAAAAGGTTCTCAAGACGG 60.032 50.000 0.00 0.00 0.00 4.79
118 119 1.335051 GCAAAAGGTTCTCAAGACGGC 60.335 52.381 0.00 0.00 0.00 5.68
119 120 2.222027 CAAAAGGTTCTCAAGACGGCT 58.778 47.619 0.00 0.00 0.00 5.52
120 121 1.884235 AAAGGTTCTCAAGACGGCTG 58.116 50.000 0.00 0.00 0.00 4.85
121 122 0.603975 AAGGTTCTCAAGACGGCTGC 60.604 55.000 0.00 0.00 0.00 5.25
122 123 1.301716 GGTTCTCAAGACGGCTGCA 60.302 57.895 0.00 0.00 0.00 4.41
123 124 1.294659 GGTTCTCAAGACGGCTGCAG 61.295 60.000 10.11 10.11 0.00 4.41
124 125 0.601311 GTTCTCAAGACGGCTGCAGT 60.601 55.000 16.64 4.80 0.00 4.40
125 126 0.106708 TTCTCAAGACGGCTGCAGTT 59.893 50.000 16.64 0.00 0.00 3.16
126 127 0.106708 TCTCAAGACGGCTGCAGTTT 59.893 50.000 16.64 0.00 0.00 2.66
127 128 0.236711 CTCAAGACGGCTGCAGTTTG 59.763 55.000 16.64 12.60 0.00 2.93
128 129 0.179059 TCAAGACGGCTGCAGTTTGA 60.179 50.000 16.64 18.35 0.00 2.69
129 130 0.662619 CAAGACGGCTGCAGTTTGAA 59.337 50.000 16.64 0.00 0.00 2.69
130 131 1.065401 CAAGACGGCTGCAGTTTGAAA 59.935 47.619 16.64 0.00 0.00 2.69
131 132 0.947244 AGACGGCTGCAGTTTGAAAG 59.053 50.000 16.64 1.96 0.00 2.62
132 133 0.663153 GACGGCTGCAGTTTGAAAGT 59.337 50.000 16.64 5.16 0.00 2.66
133 134 0.381801 ACGGCTGCAGTTTGAAAGTG 59.618 50.000 16.64 8.35 34.90 3.16
134 135 0.662619 CGGCTGCAGTTTGAAAGTGA 59.337 50.000 16.41 1.60 33.58 3.41
135 136 1.597937 CGGCTGCAGTTTGAAAGTGAC 60.598 52.381 16.41 8.26 33.58 3.67
136 137 1.597937 GGCTGCAGTTTGAAAGTGACG 60.598 52.381 16.41 7.06 33.58 4.35
137 138 1.746760 CTGCAGTTTGAAAGTGACGC 58.253 50.000 16.41 2.04 33.58 5.19
138 139 0.380378 TGCAGTTTGAAAGTGACGCC 59.620 50.000 16.41 0.00 33.58 5.68
139 140 0.657368 GCAGTTTGAAAGTGACGCCG 60.657 55.000 16.41 0.00 33.58 6.46
140 141 0.041312 CAGTTTGAAAGTGACGCCGG 60.041 55.000 6.93 0.00 33.58 6.13
141 142 1.164041 AGTTTGAAAGTGACGCCGGG 61.164 55.000 2.18 0.00 0.00 5.73
142 143 1.146485 TTTGAAAGTGACGCCGGGA 59.854 52.632 2.18 0.00 0.00 5.14
143 144 0.250553 TTTGAAAGTGACGCCGGGAT 60.251 50.000 2.18 0.00 0.00 3.85
144 145 0.672401 TTGAAAGTGACGCCGGGATC 60.672 55.000 2.18 0.00 0.00 3.36
145 146 1.814169 GAAAGTGACGCCGGGATCC 60.814 63.158 1.92 1.92 0.00 3.36
146 147 2.240162 GAAAGTGACGCCGGGATCCT 62.240 60.000 12.58 0.00 0.00 3.24
147 148 2.240162 AAAGTGACGCCGGGATCCTC 62.240 60.000 12.58 0.88 0.00 3.71
148 149 4.222847 GTGACGCCGGGATCCTCC 62.223 72.222 12.58 0.00 35.23 4.30
170 171 3.244033 CTGGAAGGAGTTGTAGCTGAG 57.756 52.381 0.00 0.00 0.00 3.35
171 172 1.902508 TGGAAGGAGTTGTAGCTGAGG 59.097 52.381 0.00 0.00 0.00 3.86
172 173 1.903183 GGAAGGAGTTGTAGCTGAGGT 59.097 52.381 0.00 0.00 0.00 3.85
173 174 2.303311 GGAAGGAGTTGTAGCTGAGGTT 59.697 50.000 0.00 0.00 0.00 3.50
174 175 3.330267 GAAGGAGTTGTAGCTGAGGTTG 58.670 50.000 0.00 0.00 0.00 3.77
175 176 2.609747 AGGAGTTGTAGCTGAGGTTGA 58.390 47.619 0.00 0.00 0.00 3.18
176 177 2.564947 AGGAGTTGTAGCTGAGGTTGAG 59.435 50.000 0.00 0.00 0.00 3.02
177 178 2.354203 GGAGTTGTAGCTGAGGTTGAGG 60.354 54.545 0.00 0.00 0.00 3.86
178 179 2.300437 GAGTTGTAGCTGAGGTTGAGGT 59.700 50.000 0.00 0.00 0.00 3.85
179 180 2.037772 AGTTGTAGCTGAGGTTGAGGTG 59.962 50.000 0.00 0.00 0.00 4.00
180 181 0.321671 TGTAGCTGAGGTTGAGGTGC 59.678 55.000 0.00 0.00 0.00 5.01
181 182 0.391793 GTAGCTGAGGTTGAGGTGCC 60.392 60.000 0.00 0.00 0.00 5.01
182 183 0.545309 TAGCTGAGGTTGAGGTGCCT 60.545 55.000 0.00 0.00 37.91 4.75
183 184 1.673665 GCTGAGGTTGAGGTGCCTG 60.674 63.158 0.00 0.00 34.81 4.85
184 185 2.061220 CTGAGGTTGAGGTGCCTGA 58.939 57.895 0.00 0.00 34.81 3.86
185 186 0.036577 CTGAGGTTGAGGTGCCTGAG 60.037 60.000 0.00 0.00 34.81 3.35
186 187 1.298014 GAGGTTGAGGTGCCTGAGG 59.702 63.158 0.00 0.00 34.81 3.86
187 188 1.462238 AGGTTGAGGTGCCTGAGGT 60.462 57.895 0.00 0.00 33.13 3.85
188 189 1.003233 GGTTGAGGTGCCTGAGGTC 60.003 63.158 0.00 0.00 0.00 3.85
189 190 1.754745 GTTGAGGTGCCTGAGGTCA 59.245 57.895 0.00 0.00 0.00 4.02
190 191 0.321122 GTTGAGGTGCCTGAGGTCAG 60.321 60.000 0.00 0.00 43.40 3.51
198 199 3.307445 CTGAGGTCAGGGAGGCTG 58.693 66.667 0.00 0.00 40.20 4.85
199 200 3.005539 TGAGGTCAGGGAGGCTGC 61.006 66.667 0.00 0.00 0.00 5.25
200 201 3.791586 GAGGTCAGGGAGGCTGCC 61.792 72.222 18.55 18.55 0.00 4.85
203 204 4.154347 GTCAGGGAGGCTGCCGAG 62.154 72.222 20.02 16.09 30.73 4.63
209 210 4.527583 GAGGCTGCCGAGCTCCAG 62.528 72.222 13.96 11.70 45.44 3.86
237 238 4.263572 CCGTGGAGGTGGTTGGCA 62.264 66.667 0.00 0.00 34.51 4.92
238 239 2.669569 CGTGGAGGTGGTTGGCAG 60.670 66.667 0.00 0.00 0.00 4.85
239 240 2.282462 GTGGAGGTGGTTGGCAGG 60.282 66.667 0.00 0.00 0.00 4.85
240 241 3.579302 TGGAGGTGGTTGGCAGGG 61.579 66.667 0.00 0.00 0.00 4.45
241 242 3.256960 GGAGGTGGTTGGCAGGGA 61.257 66.667 0.00 0.00 0.00 4.20
242 243 2.352805 GAGGTGGTTGGCAGGGAG 59.647 66.667 0.00 0.00 0.00 4.30
243 244 2.121963 AGGTGGTTGGCAGGGAGA 60.122 61.111 0.00 0.00 0.00 3.71
244 245 1.542375 AGGTGGTTGGCAGGGAGAT 60.542 57.895 0.00 0.00 0.00 2.75
245 246 1.379044 GGTGGTTGGCAGGGAGATG 60.379 63.158 0.00 0.00 0.00 2.90
246 247 1.379044 GTGGTTGGCAGGGAGATGG 60.379 63.158 0.00 0.00 0.00 3.51
247 248 1.541118 TGGTTGGCAGGGAGATGGA 60.541 57.895 0.00 0.00 0.00 3.41
248 249 1.225704 GGTTGGCAGGGAGATGGAG 59.774 63.158 0.00 0.00 0.00 3.86
249 250 1.452833 GTTGGCAGGGAGATGGAGC 60.453 63.158 0.00 0.00 0.00 4.70
250 251 2.683465 TTGGCAGGGAGATGGAGCC 61.683 63.158 0.00 0.00 45.41 4.70
251 252 4.247380 GGCAGGGAGATGGAGCCG 62.247 72.222 0.00 0.00 35.42 5.52
252 253 4.925861 GCAGGGAGATGGAGCCGC 62.926 72.222 0.00 0.00 0.00 6.53
253 254 4.247380 CAGGGAGATGGAGCCGCC 62.247 72.222 0.00 0.00 37.10 6.13
254 255 4.488911 AGGGAGATGGAGCCGCCT 62.489 66.667 0.00 0.00 37.63 5.52
255 256 3.934962 GGGAGATGGAGCCGCCTC 61.935 72.222 0.00 0.00 37.63 4.70
256 257 3.157252 GGAGATGGAGCCGCCTCA 61.157 66.667 0.00 0.00 39.96 3.86
257 258 2.420890 GAGATGGAGCCGCCTCAG 59.579 66.667 0.00 0.00 39.96 3.35
258 259 3.160047 AGATGGAGCCGCCTCAGG 61.160 66.667 0.00 0.00 39.96 3.86
259 260 3.474570 GATGGAGCCGCCTCAGGT 61.475 66.667 0.00 0.00 39.96 4.00
260 261 2.041922 ATGGAGCCGCCTCAGGTA 60.042 61.111 0.00 0.00 39.96 3.08
261 262 2.093537 GATGGAGCCGCCTCAGGTAG 62.094 65.000 0.00 0.00 39.96 3.18
273 274 2.108970 CTCAGGTAGGTGAGGTTACCC 58.891 57.143 0.00 0.00 41.83 3.69
274 275 1.433985 TCAGGTAGGTGAGGTTACCCA 59.566 52.381 0.00 0.00 41.83 4.51
275 276 1.831736 CAGGTAGGTGAGGTTACCCAG 59.168 57.143 0.00 0.00 41.83 4.45
276 277 1.435959 AGGTAGGTGAGGTTACCCAGT 59.564 52.381 0.00 0.00 41.83 4.00
277 278 2.158050 AGGTAGGTGAGGTTACCCAGTT 60.158 50.000 0.00 0.00 41.83 3.16
278 279 2.235650 GGTAGGTGAGGTTACCCAGTTC 59.764 54.545 0.00 0.00 41.83 3.01
279 280 0.974383 AGGTGAGGTTACCCAGTTCG 59.026 55.000 0.00 0.00 41.83 3.95
280 281 0.036671 GGTGAGGTTACCCAGTTCGG 60.037 60.000 0.00 0.00 34.56 4.30
571 582 4.974645 TGGCTAATATACTGGAACCCTG 57.025 45.455 0.00 0.00 0.00 4.45
881 981 0.857287 GATCGGTAAAATCCCGCGTC 59.143 55.000 4.92 0.00 45.09 5.19
882 982 0.462789 ATCGGTAAAATCCCGCGTCT 59.537 50.000 4.92 0.00 45.09 4.18
957 1057 1.405661 GGTGAGATTCGGGTTCTGGTC 60.406 57.143 0.00 0.00 0.00 4.02
1124 1227 0.954452 GTGTCCAAACTGCAAGAGGG 59.046 55.000 0.00 0.00 37.43 4.30
1179 1283 0.947244 CAGCAACAGTGGGAACAGTC 59.053 55.000 0.00 0.00 43.90 3.51
1203 1307 2.938956 AAGTGGTTCTGGACTTGAGG 57.061 50.000 0.00 0.00 31.09 3.86
1347 1456 5.418840 AGAACAAACAAAAGAGCAGGAAGAA 59.581 36.000 0.00 0.00 0.00 2.52
1380 1489 5.928264 GCAATTGAGGAAACAACTAGCAATT 59.072 36.000 10.34 0.00 35.56 2.32
1431 1552 5.221283 GGAGATACAGCTACAGAACTTACCC 60.221 48.000 0.00 0.00 0.00 3.69
1653 1775 8.386606 GCTCAGTTTATGAAATCAGTGACTAAG 58.613 37.037 0.00 0.00 37.52 2.18
1660 1782 4.020218 TGAAATCAGTGACTAAGGGTCCTG 60.020 45.833 0.00 0.00 43.89 3.86
2248 2386 2.166254 CTGGAACCACAACAGCAAGTTT 59.834 45.455 0.00 0.00 38.74 2.66
2363 2501 5.634859 GGACACAAATGCAAGTTAATTCCTG 59.365 40.000 0.00 0.00 0.00 3.86
2407 2545 6.071728 AGGACAATCCAGAACAAATTGTGATC 60.072 38.462 0.00 0.00 42.16 2.92
2457 2598 4.774726 ACAGCAAGAGAATACAGAGGAAGA 59.225 41.667 0.00 0.00 0.00 2.87
2554 2695 7.382110 TCTATATAAATGGCAAGAGAGCAGTC 58.618 38.462 0.00 0.00 35.83 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.071385 CAGTCTTGGCCAGAACACTCT 59.929 52.381 18.60 4.92 31.28 3.24
11 12 1.070758 TCAGTCTTGGCCAGAACACTC 59.929 52.381 18.60 3.03 31.28 3.51
12 13 1.071385 CTCAGTCTTGGCCAGAACACT 59.929 52.381 18.60 11.09 31.28 3.55
13 14 1.202698 ACTCAGTCTTGGCCAGAACAC 60.203 52.381 18.60 9.22 31.28 3.32
14 15 1.131638 ACTCAGTCTTGGCCAGAACA 58.868 50.000 18.60 0.00 31.28 3.18
15 16 2.613223 GGTACTCAGTCTTGGCCAGAAC 60.613 54.545 5.11 8.62 31.28 3.01
16 17 1.623811 GGTACTCAGTCTTGGCCAGAA 59.376 52.381 5.11 0.00 31.28 3.02
17 18 1.203187 AGGTACTCAGTCTTGGCCAGA 60.203 52.381 5.11 2.78 0.00 3.86
18 19 1.270907 AGGTACTCAGTCTTGGCCAG 58.729 55.000 5.11 0.00 0.00 4.85
19 20 1.347707 CAAGGTACTCAGTCTTGGCCA 59.652 52.381 0.00 0.00 38.49 5.36
20 21 1.623811 TCAAGGTACTCAGTCTTGGCC 59.376 52.381 6.44 0.00 38.49 5.36
21 22 2.563179 TCTCAAGGTACTCAGTCTTGGC 59.437 50.000 6.44 0.00 38.49 4.52
22 23 3.056465 GGTCTCAAGGTACTCAGTCTTGG 60.056 52.174 6.44 0.00 38.49 3.61
23 24 3.574396 TGGTCTCAAGGTACTCAGTCTTG 59.426 47.826 0.60 0.60 38.49 3.02
24 25 3.574826 GTGGTCTCAAGGTACTCAGTCTT 59.425 47.826 0.00 0.00 38.49 3.01
25 26 3.158676 GTGGTCTCAAGGTACTCAGTCT 58.841 50.000 0.00 0.00 38.49 3.24
26 27 3.158676 AGTGGTCTCAAGGTACTCAGTC 58.841 50.000 0.00 0.00 38.49 3.51
27 28 3.158676 GAGTGGTCTCAAGGTACTCAGT 58.841 50.000 0.00 0.00 38.49 3.41
28 29 3.157881 TGAGTGGTCTCAAGGTACTCAG 58.842 50.000 0.00 0.00 46.17 3.35
29 30 3.238788 TGAGTGGTCTCAAGGTACTCA 57.761 47.619 0.00 0.00 46.17 3.41
38 39 1.824224 CTGCCTGCTGAGTGGTCTCA 61.824 60.000 0.00 0.00 46.85 3.27
39 40 1.079266 CTGCCTGCTGAGTGGTCTC 60.079 63.158 0.00 0.00 40.79 3.36
40 41 1.534959 TCTGCCTGCTGAGTGGTCT 60.535 57.895 0.00 0.00 0.00 3.85
41 42 1.079266 CTCTGCCTGCTGAGTGGTC 60.079 63.158 15.47 0.00 37.28 4.02
42 43 3.067091 CTCTGCCTGCTGAGTGGT 58.933 61.111 15.47 0.00 37.28 4.16
43 44 2.436292 GCTCTGCCTGCTGAGTGG 60.436 66.667 21.92 4.25 41.89 4.00
44 45 1.448189 GAGCTCTGCCTGCTGAGTG 60.448 63.158 21.92 4.85 41.30 3.51
45 46 2.658064 GGAGCTCTGCCTGCTGAGT 61.658 63.158 21.92 12.13 41.30 3.41
46 47 2.187424 GGAGCTCTGCCTGCTGAG 59.813 66.667 14.64 18.38 41.30 3.35
47 48 2.284478 AGGAGCTCTGCCTGCTGA 60.284 61.111 14.64 0.00 41.30 4.26
48 49 2.125065 CAGGAGCTCTGCCTGCTG 60.125 66.667 14.64 7.34 45.66 4.41
56 57 1.134670 GCGAAATACCACAGGAGCTCT 60.135 52.381 14.64 0.00 0.00 4.09
57 58 1.134670 AGCGAAATACCACAGGAGCTC 60.135 52.381 4.71 4.71 0.00 4.09
58 59 0.905357 AGCGAAATACCACAGGAGCT 59.095 50.000 0.00 0.00 0.00 4.09
59 60 1.009829 CAGCGAAATACCACAGGAGC 58.990 55.000 0.00 0.00 0.00 4.70
60 61 2.002586 CACAGCGAAATACCACAGGAG 58.997 52.381 0.00 0.00 0.00 3.69
61 62 1.621317 TCACAGCGAAATACCACAGGA 59.379 47.619 0.00 0.00 0.00 3.86
62 63 2.093306 TCACAGCGAAATACCACAGG 57.907 50.000 0.00 0.00 0.00 4.00
63 64 3.364964 GGTTTCACAGCGAAATACCACAG 60.365 47.826 0.00 0.00 45.21 3.66
64 65 2.550606 GGTTTCACAGCGAAATACCACA 59.449 45.455 0.00 0.00 45.21 4.17
65 66 2.812011 AGGTTTCACAGCGAAATACCAC 59.188 45.455 0.00 0.00 45.21 4.16
66 67 2.811431 CAGGTTTCACAGCGAAATACCA 59.189 45.455 0.00 0.00 45.21 3.25
67 68 2.812011 ACAGGTTTCACAGCGAAATACC 59.188 45.455 0.00 0.00 45.21 2.73
68 69 4.219033 CAACAGGTTTCACAGCGAAATAC 58.781 43.478 0.00 0.00 45.21 1.89
69 70 3.304391 GCAACAGGTTTCACAGCGAAATA 60.304 43.478 0.00 0.00 45.21 1.40
70 71 2.543653 GCAACAGGTTTCACAGCGAAAT 60.544 45.455 0.00 0.00 45.21 2.17
71 72 1.202245 GCAACAGGTTTCACAGCGAAA 60.202 47.619 0.00 0.00 41.40 3.46
72 73 0.380378 GCAACAGGTTTCACAGCGAA 59.620 50.000 0.00 0.00 0.00 4.70
73 74 0.463654 AGCAACAGGTTTCACAGCGA 60.464 50.000 0.00 0.00 0.00 4.93
74 75 0.317269 CAGCAACAGGTTTCACAGCG 60.317 55.000 0.00 0.00 0.00 5.18
75 76 0.740737 ACAGCAACAGGTTTCACAGC 59.259 50.000 0.00 0.00 0.00 4.40
76 77 2.942376 TGTACAGCAACAGGTTTCACAG 59.058 45.455 0.00 0.00 0.00 3.66
77 78 2.942376 CTGTACAGCAACAGGTTTCACA 59.058 45.455 10.54 0.00 42.63 3.58
78 79 3.609103 CTGTACAGCAACAGGTTTCAC 57.391 47.619 10.54 0.00 42.63 3.18
91 92 4.816385 TCTTGAGAACCTTTTGCTGTACAG 59.184 41.667 18.93 18.93 0.00 2.74
92 93 4.574828 GTCTTGAGAACCTTTTGCTGTACA 59.425 41.667 0.00 0.00 0.00 2.90
93 94 4.318831 CGTCTTGAGAACCTTTTGCTGTAC 60.319 45.833 0.00 0.00 0.00 2.90
94 95 3.807622 CGTCTTGAGAACCTTTTGCTGTA 59.192 43.478 0.00 0.00 0.00 2.74
95 96 2.614057 CGTCTTGAGAACCTTTTGCTGT 59.386 45.455 0.00 0.00 0.00 4.40
96 97 2.031682 CCGTCTTGAGAACCTTTTGCTG 60.032 50.000 0.00 0.00 0.00 4.41
97 98 2.222027 CCGTCTTGAGAACCTTTTGCT 58.778 47.619 0.00 0.00 0.00 3.91
98 99 1.335051 GCCGTCTTGAGAACCTTTTGC 60.335 52.381 0.00 0.00 0.00 3.68
99 100 2.031682 CAGCCGTCTTGAGAACCTTTTG 60.032 50.000 0.00 0.00 0.00 2.44
100 101 2.222027 CAGCCGTCTTGAGAACCTTTT 58.778 47.619 0.00 0.00 0.00 2.27
101 102 1.884235 CAGCCGTCTTGAGAACCTTT 58.116 50.000 0.00 0.00 0.00 3.11
102 103 0.603975 GCAGCCGTCTTGAGAACCTT 60.604 55.000 0.00 0.00 0.00 3.50
103 104 1.004440 GCAGCCGTCTTGAGAACCT 60.004 57.895 0.00 0.00 0.00 3.50
104 105 1.294659 CTGCAGCCGTCTTGAGAACC 61.295 60.000 0.00 0.00 0.00 3.62
105 106 0.601311 ACTGCAGCCGTCTTGAGAAC 60.601 55.000 15.27 0.00 0.00 3.01
106 107 0.106708 AACTGCAGCCGTCTTGAGAA 59.893 50.000 15.27 0.00 0.00 2.87
107 108 0.106708 AAACTGCAGCCGTCTTGAGA 59.893 50.000 15.27 0.00 0.00 3.27
108 109 0.236711 CAAACTGCAGCCGTCTTGAG 59.763 55.000 15.27 0.00 0.00 3.02
109 110 0.179059 TCAAACTGCAGCCGTCTTGA 60.179 50.000 15.27 11.97 0.00 3.02
110 111 0.662619 TTCAAACTGCAGCCGTCTTG 59.337 50.000 15.27 9.84 0.00 3.02
111 112 1.334869 CTTTCAAACTGCAGCCGTCTT 59.665 47.619 15.27 0.00 0.00 3.01
112 113 0.947244 CTTTCAAACTGCAGCCGTCT 59.053 50.000 15.27 0.00 0.00 4.18
113 114 0.663153 ACTTTCAAACTGCAGCCGTC 59.337 50.000 15.27 0.00 0.00 4.79
114 115 0.381801 CACTTTCAAACTGCAGCCGT 59.618 50.000 15.27 0.00 0.00 5.68
115 116 0.662619 TCACTTTCAAACTGCAGCCG 59.337 50.000 15.27 2.00 0.00 5.52
116 117 1.597937 CGTCACTTTCAAACTGCAGCC 60.598 52.381 15.27 0.00 0.00 4.85
117 118 1.746760 CGTCACTTTCAAACTGCAGC 58.253 50.000 15.27 0.00 0.00 5.25
118 119 1.597937 GGCGTCACTTTCAAACTGCAG 60.598 52.381 13.48 13.48 0.00 4.41
119 120 0.380378 GGCGTCACTTTCAAACTGCA 59.620 50.000 0.00 0.00 0.00 4.41
120 121 0.657368 CGGCGTCACTTTCAAACTGC 60.657 55.000 0.00 0.00 0.00 4.40
121 122 0.041312 CCGGCGTCACTTTCAAACTG 60.041 55.000 6.01 0.00 0.00 3.16
122 123 1.164041 CCCGGCGTCACTTTCAAACT 61.164 55.000 6.01 0.00 0.00 2.66
123 124 1.161563 TCCCGGCGTCACTTTCAAAC 61.162 55.000 6.01 0.00 0.00 2.93
124 125 0.250553 ATCCCGGCGTCACTTTCAAA 60.251 50.000 6.01 0.00 0.00 2.69
125 126 0.672401 GATCCCGGCGTCACTTTCAA 60.672 55.000 6.01 0.00 0.00 2.69
126 127 1.079405 GATCCCGGCGTCACTTTCA 60.079 57.895 6.01 0.00 0.00 2.69
127 128 1.814169 GGATCCCGGCGTCACTTTC 60.814 63.158 6.01 0.00 0.00 2.62
128 129 2.240162 GAGGATCCCGGCGTCACTTT 62.240 60.000 8.55 0.00 0.00 2.66
129 130 2.683933 AGGATCCCGGCGTCACTT 60.684 61.111 8.55 0.00 0.00 3.16
130 131 3.148279 GAGGATCCCGGCGTCACT 61.148 66.667 8.55 0.00 0.00 3.41
141 142 2.847201 CTCCTTCCAGGGGAGGATC 58.153 63.158 15.87 0.00 38.47 3.36
146 147 1.952621 CTACAACTCCTTCCAGGGGA 58.047 55.000 0.00 0.00 38.47 4.81
147 148 0.253327 GCTACAACTCCTTCCAGGGG 59.747 60.000 0.00 0.00 43.27 4.79
148 149 1.065854 CAGCTACAACTCCTTCCAGGG 60.066 57.143 0.00 0.00 35.59 4.45
149 150 1.902508 TCAGCTACAACTCCTTCCAGG 59.097 52.381 0.00 0.00 36.46 4.45
150 151 2.093764 CCTCAGCTACAACTCCTTCCAG 60.094 54.545 0.00 0.00 0.00 3.86
151 152 1.902508 CCTCAGCTACAACTCCTTCCA 59.097 52.381 0.00 0.00 0.00 3.53
152 153 1.903183 ACCTCAGCTACAACTCCTTCC 59.097 52.381 0.00 0.00 0.00 3.46
153 154 3.006967 TCAACCTCAGCTACAACTCCTTC 59.993 47.826 0.00 0.00 0.00 3.46
154 155 2.972713 TCAACCTCAGCTACAACTCCTT 59.027 45.455 0.00 0.00 0.00 3.36
155 156 2.564947 CTCAACCTCAGCTACAACTCCT 59.435 50.000 0.00 0.00 0.00 3.69
156 157 2.354203 CCTCAACCTCAGCTACAACTCC 60.354 54.545 0.00 0.00 0.00 3.85
157 158 2.300437 ACCTCAACCTCAGCTACAACTC 59.700 50.000 0.00 0.00 0.00 3.01
158 159 2.037772 CACCTCAACCTCAGCTACAACT 59.962 50.000 0.00 0.00 0.00 3.16
159 160 2.417719 CACCTCAACCTCAGCTACAAC 58.582 52.381 0.00 0.00 0.00 3.32
160 161 1.270839 GCACCTCAACCTCAGCTACAA 60.271 52.381 0.00 0.00 0.00 2.41
161 162 0.321671 GCACCTCAACCTCAGCTACA 59.678 55.000 0.00 0.00 0.00 2.74
162 163 0.391793 GGCACCTCAACCTCAGCTAC 60.392 60.000 0.00 0.00 0.00 3.58
163 164 0.545309 AGGCACCTCAACCTCAGCTA 60.545 55.000 0.00 0.00 0.00 3.32
164 165 1.845205 AGGCACCTCAACCTCAGCT 60.845 57.895 0.00 0.00 0.00 4.24
165 166 1.673665 CAGGCACCTCAACCTCAGC 60.674 63.158 0.00 0.00 32.56 4.26
166 167 0.036577 CTCAGGCACCTCAACCTCAG 60.037 60.000 0.00 0.00 32.56 3.35
167 168 1.483595 CCTCAGGCACCTCAACCTCA 61.484 60.000 0.00 0.00 32.56 3.86
168 169 1.298014 CCTCAGGCACCTCAACCTC 59.702 63.158 0.00 0.00 32.56 3.85
169 170 1.462238 ACCTCAGGCACCTCAACCT 60.462 57.895 0.00 0.00 36.45 3.50
170 171 1.003233 GACCTCAGGCACCTCAACC 60.003 63.158 0.00 0.00 0.00 3.77
171 172 0.321122 CTGACCTCAGGCACCTCAAC 60.321 60.000 0.00 0.00 40.20 3.18
172 173 2.061220 CTGACCTCAGGCACCTCAA 58.939 57.895 0.00 0.00 40.20 3.02
173 174 3.797331 CTGACCTCAGGCACCTCA 58.203 61.111 0.00 0.00 40.20 3.86
181 182 3.028921 GCAGCCTCCCTGACCTCAG 62.029 68.421 0.00 0.00 44.64 3.35
182 183 3.005539 GCAGCCTCCCTGACCTCA 61.006 66.667 0.00 0.00 44.64 3.86
183 184 3.791586 GGCAGCCTCCCTGACCTC 61.792 72.222 3.29 0.00 44.30 3.85
186 187 4.154347 CTCGGCAGCCTCCCTGAC 62.154 72.222 10.54 0.00 46.71 3.51
213 214 4.436998 CACCTCCACGGCGTCCTC 62.437 72.222 10.85 0.00 35.61 3.71
216 217 4.309950 AACCACCTCCACGGCGTC 62.310 66.667 10.85 0.00 35.61 5.19
217 218 4.619227 CAACCACCTCCACGGCGT 62.619 66.667 6.77 6.77 35.61 5.68
220 221 4.263572 TGCCAACCACCTCCACGG 62.264 66.667 0.00 0.00 39.35 4.94
221 222 2.669569 CTGCCAACCACCTCCACG 60.670 66.667 0.00 0.00 0.00 4.94
222 223 2.282462 CCTGCCAACCACCTCCAC 60.282 66.667 0.00 0.00 0.00 4.02
223 224 3.579302 CCCTGCCAACCACCTCCA 61.579 66.667 0.00 0.00 0.00 3.86
224 225 3.256960 TCCCTGCCAACCACCTCC 61.257 66.667 0.00 0.00 0.00 4.30
225 226 1.566298 ATCTCCCTGCCAACCACCTC 61.566 60.000 0.00 0.00 0.00 3.85
226 227 1.542375 ATCTCCCTGCCAACCACCT 60.542 57.895 0.00 0.00 0.00 4.00
227 228 1.379044 CATCTCCCTGCCAACCACC 60.379 63.158 0.00 0.00 0.00 4.61
228 229 1.379044 CCATCTCCCTGCCAACCAC 60.379 63.158 0.00 0.00 0.00 4.16
229 230 1.541118 TCCATCTCCCTGCCAACCA 60.541 57.895 0.00 0.00 0.00 3.67
230 231 1.225704 CTCCATCTCCCTGCCAACC 59.774 63.158 0.00 0.00 0.00 3.77
231 232 1.452833 GCTCCATCTCCCTGCCAAC 60.453 63.158 0.00 0.00 0.00 3.77
232 233 2.683465 GGCTCCATCTCCCTGCCAA 61.683 63.158 0.00 0.00 42.79 4.52
233 234 3.092511 GGCTCCATCTCCCTGCCA 61.093 66.667 0.00 0.00 42.79 4.92
234 235 4.247380 CGGCTCCATCTCCCTGCC 62.247 72.222 0.00 0.00 40.14 4.85
235 236 4.925861 GCGGCTCCATCTCCCTGC 62.926 72.222 0.00 0.00 0.00 4.85
236 237 4.247380 GGCGGCTCCATCTCCCTG 62.247 72.222 0.00 0.00 34.01 4.45
237 238 4.488911 AGGCGGCTCCATCTCCCT 62.489 66.667 5.25 0.00 37.29 4.20
238 239 3.934962 GAGGCGGCTCCATCTCCC 61.935 72.222 27.54 0.44 37.29 4.30
239 240 3.157252 TGAGGCGGCTCCATCTCC 61.157 66.667 33.19 10.50 37.29 3.71
240 241 2.420890 CTGAGGCGGCTCCATCTC 59.579 66.667 33.19 11.50 37.29 2.75
241 242 2.589610 TACCTGAGGCGGCTCCATCT 62.590 60.000 33.19 16.67 37.29 2.90
242 243 2.093537 CTACCTGAGGCGGCTCCATC 62.094 65.000 33.19 12.65 37.29 3.51
243 244 2.041922 TACCTGAGGCGGCTCCAT 60.042 61.111 33.19 21.27 37.29 3.41
244 245 2.759973 CTACCTGAGGCGGCTCCA 60.760 66.667 33.19 20.70 37.29 3.86
245 246 3.541713 CCTACCTGAGGCGGCTCC 61.542 72.222 33.19 17.40 38.96 4.70
292 293 4.803426 GACACTCGGCCTCAGCGG 62.803 72.222 0.00 0.00 41.24 5.52
293 294 3.978723 CTGACACTCGGCCTCAGCG 62.979 68.421 6.05 0.00 41.24 5.18
294 295 2.125753 CTGACACTCGGCCTCAGC 60.126 66.667 6.05 0.00 38.76 4.26
295 296 2.575993 CCTGACACTCGGCCTCAG 59.424 66.667 11.16 11.16 32.66 3.35
296 297 3.695606 GCCTGACACTCGGCCTCA 61.696 66.667 0.00 0.00 40.43 3.86
300 301 4.767255 CAGGGCCTGACACTCGGC 62.767 72.222 29.96 0.00 45.55 5.54
301 302 1.043116 TATCAGGGCCTGACACTCGG 61.043 60.000 37.24 7.73 43.63 4.63
302 303 1.043816 ATATCAGGGCCTGACACTCG 58.956 55.000 37.24 8.56 43.63 4.18
303 304 1.765314 ACATATCAGGGCCTGACACTC 59.235 52.381 37.24 0.00 43.63 3.51
304 305 1.885049 ACATATCAGGGCCTGACACT 58.115 50.000 37.24 24.24 43.63 3.55
571 582 2.357009 TCGTATGAGTAAGAGGAACGCC 59.643 50.000 0.00 0.00 0.00 5.68
693 738 4.642429 GTGGGATTCACCGCTATAGAAAT 58.358 43.478 3.21 0.00 40.39 2.17
881 981 1.226802 CACACGGATCGGAGCTGAG 60.227 63.158 9.40 3.31 0.00 3.35
882 982 1.934220 GACACACGGATCGGAGCTGA 61.934 60.000 9.40 0.00 0.00 4.26
920 1020 3.842923 CTCAGATCCTGCCGCCGT 61.843 66.667 0.00 0.00 0.00 5.68
957 1057 5.189934 AGGTAGGAATTTTACCACTGGAGAG 59.810 44.000 17.46 0.00 42.47 3.20
1124 1227 5.938125 TGTTTAGCTCCAATAACCTGAACTC 59.062 40.000 0.00 0.00 0.00 3.01
1179 1283 2.802816 CAAGTCCAGAACCACTTTCTCG 59.197 50.000 0.00 0.00 43.23 4.04
1347 1456 7.449704 AGTTGTTTCCTCAATTGCTCTATTCTT 59.550 33.333 0.00 0.00 0.00 2.52
1380 1489 8.375506 TCTAGCTGTTTAGATTTCTCCTTTTCA 58.624 33.333 0.00 0.00 0.00 2.69
1431 1552 2.584835 TTCTGTTTGTCCTGATGGGG 57.415 50.000 0.00 0.00 35.33 4.96
1653 1775 0.684479 GAAAATCCAGCCCAGGACCC 60.684 60.000 0.00 0.00 41.30 4.46
1660 1782 3.068732 GCAAATCTAGGAAAATCCAGCCC 59.931 47.826 0.00 0.00 39.61 5.19
1725 1847 1.895131 GGAGCTCCAGCCATTTGAAAA 59.105 47.619 28.43 0.00 43.38 2.29
1965 2091 1.402613 TGCACATCAGCCATCAAATCG 59.597 47.619 0.00 0.00 0.00 3.34
2363 2501 2.606308 CCTGTTGCAGCAAGTGAATGTC 60.606 50.000 8.49 0.00 0.00 3.06
2407 2545 8.282592 TCTTGTTGTTGTATTTCTTCTTGATCG 58.717 33.333 0.00 0.00 0.00 3.69
2509 2650 7.726033 ATAGATTATAGCAGTAGGAGTTGGG 57.274 40.000 0.00 0.00 0.00 4.12
2554 2695 6.097356 TGTACTACCAGAATCAAGTAAAGCG 58.903 40.000 0.00 0.00 0.00 4.68


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

AutoCloner maintained by Alex Coulton.