Multiple sequence alignment - TraesCS3B01G565500

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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 TraesCS3B01G565500 chr3B 100.000 2222 0 0 1 2222 798228956 798231177 0.000000e+00 4104.0
1 TraesCS3B01G565500 chr3B 79.051 253 35 12 995 1229 798236623 798236875 8.210000e-35 158.0
2 TraesCS3B01G565500 chr3B 76.639 244 48 7 995 1229 798251994 798252237 2.320000e-25 126.0
3 TraesCS3B01G565500 chr3D 90.518 1930 125 27 145 2038 594769048 594770955 0.000000e+00 2497.0
4 TraesCS3B01G565500 chr3D 85.072 556 53 11 1155 1683 594634854 594635406 6.980000e-150 540.0
5 TraesCS3B01G565500 chr3D 90.455 220 17 1 74 293 594754747 594754962 1.000000e-73 287.0
6 TraesCS3B01G565500 chr3D 91.071 168 13 2 2052 2218 594771004 594771170 2.220000e-55 226.0
7 TraesCS3B01G565500 chr3D 87.245 196 23 2 1765 1959 594635405 594635599 2.870000e-54 222.0
8 TraesCS3B01G565500 chr3D 82.328 232 38 1 1001 1229 594802696 594802927 4.840000e-47 198.0
9 TraesCS3B01G565500 chr3D 87.209 86 9 2 130 213 381989073 381989158 1.820000e-16 97.1
10 TraesCS3B01G565500 chr3D 85.870 92 10 3 130 219 157099442 157099352 6.530000e-16 95.3
11 TraesCS3B01G565500 chr3D 88.060 67 8 0 1 67 594754644 594754710 1.830000e-11 80.5
12 TraesCS3B01G565500 chr3A 95.550 1236 39 8 812 2038 725553762 725554990 0.000000e+00 1964.0
13 TraesCS3B01G565500 chr3A 95.469 1236 40 8 812 2038 725596311 725597539 0.000000e+00 1958.0
14 TraesCS3B01G565500 chr3A 93.638 503 24 6 319 813 725552942 725553444 0.000000e+00 745.0
15 TraesCS3B01G565500 chr3A 93.638 503 24 6 319 813 725595491 725595993 0.000000e+00 745.0
16 TraesCS3B01G565500 chr3A 89.529 191 18 2 2033 2222 725555040 725555229 7.930000e-60 241.0
17 TraesCS3B01G565500 chr3A 89.529 191 17 2 2033 2222 725597589 725597777 2.850000e-59 239.0
18 TraesCS3B01G565500 chr3A 80.992 242 38 6 995 1229 725470654 725470894 3.770000e-43 185.0
19 TraesCS3B01G565500 chr3A 77.460 315 49 15 925 1223 725556492 725556800 3.790000e-38 169.0
20 TraesCS3B01G565500 chr3A 77.460 315 49 15 925 1223 725599040 725599348 3.790000e-38 169.0
21 TraesCS3B01G565500 chr7A 90.303 165 12 2 2062 2222 75073126 75073290 1.730000e-51 213.0
22 TraesCS3B01G565500 chr7A 88.372 86 8 2 130 213 562275004 562274919 3.900000e-18 102.0
23 TraesCS3B01G565500 chr6B 89.441 161 13 3 2062 2222 279050939 279051095 1.350000e-47 200.0
24 TraesCS3B01G565500 chr4B 88.750 160 17 1 2062 2220 665569889 665570048 6.260000e-46 195.0
25 TraesCS3B01G565500 chr5A 88.199 161 17 1 2062 2220 705572927 705573087 8.100000e-45 191.0
26 TraesCS3B01G565500 chr7D 90.826 109 8 2 2062 2170 553381186 553381292 6.390000e-31 145.0
27 TraesCS3B01G565500 chr7D 88.372 86 8 2 130 213 497023326 497023241 3.900000e-18 102.0
28 TraesCS3B01G565500 chr7B 91.954 87 7 0 2060 2146 124005583 124005497 3.000000e-24 122.0
29 TraesCS3B01G565500 chr5D 89.362 94 8 2 123 214 420277232 420277139 1.390000e-22 117.0
30 TraesCS3B01G565500 chr2A 86.735 98 11 2 126 221 79308139 79308236 8.390000e-20 108.0
31 TraesCS3B01G565500 chr2A 85.000 100 11 4 126 222 79308233 79308135 5.050000e-17 99.0
32 TraesCS3B01G565500 chr5B 88.636 88 8 2 128 213 364139505 364139418 3.020000e-19 106.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G565500 chr3B 798228956 798231177 2221 False 4104.00 4104 100.00000 1 2222 1 chr3B.!!$F1 2221
1 TraesCS3B01G565500 chr3D 594769048 594771170 2122 False 1361.50 2497 90.79450 145 2218 2 chr3D.!!$F5 2073
2 TraesCS3B01G565500 chr3D 594634854 594635599 745 False 381.00 540 86.15850 1155 1959 2 chr3D.!!$F3 804
3 TraesCS3B01G565500 chr3A 725552942 725556800 3858 False 779.75 1964 89.04425 319 2222 4 chr3A.!!$F2 1903
4 TraesCS3B01G565500 chr3A 725595491 725599348 3857 False 777.75 1958 89.02400 319 2222 4 chr3A.!!$F3 1903

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
43 44 0.102481 GAAGGTAGAGATCGGCGCAA 59.898 55.0 10.83 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1945 2335 0.324368 ATCTCTCACGTGGCTGGGTA 60.324 55.0 17.0 0.0 0.0 3.69 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 2.516227 TCCAACCACCAAAGTTGTGA 57.484 45.000 3.26 0.00 42.46 3.58
20 21 2.808919 TCCAACCACCAAAGTTGTGAA 58.191 42.857 3.26 0.00 42.46 3.18
21 22 3.165875 TCCAACCACCAAAGTTGTGAAA 58.834 40.909 3.26 0.00 42.46 2.69
22 23 3.194542 TCCAACCACCAAAGTTGTGAAAG 59.805 43.478 3.26 0.00 42.46 2.62
23 24 3.056179 CCAACCACCAAAGTTGTGAAAGT 60.056 43.478 3.26 0.00 42.46 2.66
24 25 3.866883 ACCACCAAAGTTGTGAAAGTG 57.133 42.857 0.00 0.00 0.00 3.16
25 26 3.426615 ACCACCAAAGTTGTGAAAGTGA 58.573 40.909 0.00 0.00 0.00 3.41
26 27 3.829601 ACCACCAAAGTTGTGAAAGTGAA 59.170 39.130 0.00 0.00 0.00 3.18
27 28 4.082245 ACCACCAAAGTTGTGAAAGTGAAG 60.082 41.667 0.00 0.00 0.00 3.02
28 29 4.423732 CACCAAAGTTGTGAAAGTGAAGG 58.576 43.478 0.00 0.00 0.00 3.46
29 30 4.082245 CACCAAAGTTGTGAAAGTGAAGGT 60.082 41.667 0.00 0.00 0.00 3.50
30 31 5.124776 CACCAAAGTTGTGAAAGTGAAGGTA 59.875 40.000 0.00 0.00 0.00 3.08
31 32 5.357032 ACCAAAGTTGTGAAAGTGAAGGTAG 59.643 40.000 0.00 0.00 0.00 3.18
32 33 5.588648 CCAAAGTTGTGAAAGTGAAGGTAGA 59.411 40.000 0.00 0.00 0.00 2.59
33 34 6.238484 CCAAAGTTGTGAAAGTGAAGGTAGAG 60.238 42.308 0.00 0.00 0.00 2.43
34 35 5.871396 AGTTGTGAAAGTGAAGGTAGAGA 57.129 39.130 0.00 0.00 0.00 3.10
35 36 6.426646 AGTTGTGAAAGTGAAGGTAGAGAT 57.573 37.500 0.00 0.00 0.00 2.75
36 37 6.459923 AGTTGTGAAAGTGAAGGTAGAGATC 58.540 40.000 0.00 0.00 0.00 2.75
37 38 5.060662 TGTGAAAGTGAAGGTAGAGATCG 57.939 43.478 0.00 0.00 0.00 3.69
38 39 4.082190 TGTGAAAGTGAAGGTAGAGATCGG 60.082 45.833 0.00 0.00 0.00 4.18
39 40 3.119101 TGAAAGTGAAGGTAGAGATCGGC 60.119 47.826 0.00 0.00 0.00 5.54
40 41 1.025812 AGTGAAGGTAGAGATCGGCG 58.974 55.000 0.00 0.00 0.00 6.46
41 42 0.595310 GTGAAGGTAGAGATCGGCGC 60.595 60.000 0.00 0.00 0.00 6.53
42 43 1.035385 TGAAGGTAGAGATCGGCGCA 61.035 55.000 10.83 0.00 0.00 6.09
43 44 0.102481 GAAGGTAGAGATCGGCGCAA 59.898 55.000 10.83 0.00 0.00 4.85
44 45 0.179108 AAGGTAGAGATCGGCGCAAC 60.179 55.000 10.83 0.00 0.00 4.17
45 46 1.141019 GGTAGAGATCGGCGCAACA 59.859 57.895 10.83 0.00 0.00 3.33
46 47 0.459585 GGTAGAGATCGGCGCAACAA 60.460 55.000 10.83 0.00 0.00 2.83
47 48 0.645868 GTAGAGATCGGCGCAACAAC 59.354 55.000 10.83 0.00 0.00 3.32
48 49 0.800683 TAGAGATCGGCGCAACAACG 60.801 55.000 10.83 2.53 0.00 4.10
49 50 2.048597 AGATCGGCGCAACAACGA 60.049 55.556 10.83 9.24 41.20 3.85
50 51 2.095843 GATCGGCGCAACAACGAC 59.904 61.111 10.83 0.04 39.64 4.34
51 52 3.362851 GATCGGCGCAACAACGACC 62.363 63.158 10.83 0.00 38.01 4.79
52 53 4.893601 TCGGCGCAACAACGACCA 62.894 61.111 10.83 0.00 38.01 4.02
53 54 3.722295 CGGCGCAACAACGACCAT 61.722 61.111 10.83 0.00 38.01 3.55
54 55 2.175811 GGCGCAACAACGACCATC 59.824 61.111 10.83 0.00 33.99 3.51
55 56 2.202171 GCGCAACAACGACCATCG 60.202 61.111 0.30 0.00 46.93 3.84
56 57 2.202171 CGCAACAACGACCATCGC 60.202 61.111 0.00 0.00 45.12 4.58
57 58 2.175811 GCAACAACGACCATCGCC 59.824 61.111 0.00 0.00 45.12 5.54
58 59 2.474266 CAACAACGACCATCGCCG 59.526 61.111 0.00 0.00 45.12 6.46
59 60 2.024868 CAACAACGACCATCGCCGA 61.025 57.895 0.00 0.00 45.12 5.54
60 61 2.025418 AACAACGACCATCGCCGAC 61.025 57.895 0.00 0.00 45.12 4.79
61 62 3.541831 CAACGACCATCGCCGACG 61.542 66.667 0.00 0.00 45.12 5.12
62 63 4.789075 AACGACCATCGCCGACGG 62.789 66.667 10.29 10.29 45.12 4.79
65 66 3.823330 GACCATCGCCGACGGTCT 61.823 66.667 23.80 0.00 44.82 3.85
66 67 3.753070 GACCATCGCCGACGGTCTC 62.753 68.421 23.80 0.00 44.82 3.36
67 68 3.822192 CCATCGCCGACGGTCTCA 61.822 66.667 16.73 0.00 40.63 3.27
68 69 2.180769 CATCGCCGACGGTCTCAA 59.819 61.111 16.73 0.00 40.63 3.02
69 70 1.226974 CATCGCCGACGGTCTCAAT 60.227 57.895 16.73 0.00 40.63 2.57
70 71 1.226974 ATCGCCGACGGTCTCAATG 60.227 57.895 16.73 0.00 40.63 2.82
71 72 1.945354 ATCGCCGACGGTCTCAATGT 61.945 55.000 16.73 0.00 40.63 2.71
72 73 2.444624 CGCCGACGGTCTCAATGTG 61.445 63.158 16.73 0.00 34.97 3.21
73 74 1.374252 GCCGACGGTCTCAATGTGT 60.374 57.895 16.73 0.00 0.00 3.72
74 75 0.108992 GCCGACGGTCTCAATGTGTA 60.109 55.000 16.73 0.00 0.00 2.90
75 76 1.909376 CCGACGGTCTCAATGTGTAG 58.091 55.000 5.48 0.00 0.00 2.74
76 77 1.469251 CCGACGGTCTCAATGTGTAGG 60.469 57.143 5.48 0.00 0.00 3.18
77 78 1.469251 CGACGGTCTCAATGTGTAGGG 60.469 57.143 6.57 0.00 0.00 3.53
78 79 1.549170 GACGGTCTCAATGTGTAGGGT 59.451 52.381 0.00 0.00 0.00 4.34
79 80 1.549170 ACGGTCTCAATGTGTAGGGTC 59.451 52.381 0.00 0.00 0.00 4.46
80 81 1.469251 CGGTCTCAATGTGTAGGGTCG 60.469 57.143 0.00 0.00 0.00 4.79
81 82 1.134788 GGTCTCAATGTGTAGGGTCGG 60.135 57.143 0.00 0.00 0.00 4.79
82 83 1.134788 GTCTCAATGTGTAGGGTCGGG 60.135 57.143 0.00 0.00 0.00 5.14
83 84 0.902531 CTCAATGTGTAGGGTCGGGT 59.097 55.000 0.00 0.00 0.00 5.28
84 85 2.104967 CTCAATGTGTAGGGTCGGGTA 58.895 52.381 0.00 0.00 0.00 3.69
85 86 2.698797 CTCAATGTGTAGGGTCGGGTAT 59.301 50.000 0.00 0.00 0.00 2.73
86 87 3.109151 TCAATGTGTAGGGTCGGGTATT 58.891 45.455 0.00 0.00 0.00 1.89
87 88 3.520317 TCAATGTGTAGGGTCGGGTATTT 59.480 43.478 0.00 0.00 0.00 1.40
88 89 4.019141 TCAATGTGTAGGGTCGGGTATTTT 60.019 41.667 0.00 0.00 0.00 1.82
89 90 4.579647 ATGTGTAGGGTCGGGTATTTTT 57.420 40.909 0.00 0.00 0.00 1.94
112 113 6.976636 TTTTTCCTGTTTGTTTCACCATTC 57.023 33.333 0.00 0.00 0.00 2.67
113 114 5.930837 TTTCCTGTTTGTTTCACCATTCT 57.069 34.783 0.00 0.00 0.00 2.40
114 115 5.930837 TTCCTGTTTGTTTCACCATTCTT 57.069 34.783 0.00 0.00 0.00 2.52
115 116 5.930837 TCCTGTTTGTTTCACCATTCTTT 57.069 34.783 0.00 0.00 0.00 2.52
116 117 5.659463 TCCTGTTTGTTTCACCATTCTTTG 58.341 37.500 0.00 0.00 0.00 2.77
117 118 5.420421 TCCTGTTTGTTTCACCATTCTTTGA 59.580 36.000 0.00 0.00 0.00 2.69
118 119 6.071108 TCCTGTTTGTTTCACCATTCTTTGAA 60.071 34.615 0.00 0.00 0.00 2.69
119 120 6.035975 CCTGTTTGTTTCACCATTCTTTGAAC 59.964 38.462 0.00 0.00 31.42 3.18
120 121 6.696411 TGTTTGTTTCACCATTCTTTGAACT 58.304 32.000 0.00 0.00 31.42 3.01
121 122 7.831753 TGTTTGTTTCACCATTCTTTGAACTA 58.168 30.769 0.00 0.00 31.42 2.24
122 123 8.307483 TGTTTGTTTCACCATTCTTTGAACTAA 58.693 29.630 0.00 0.00 31.42 2.24
123 124 9.145865 GTTTGTTTCACCATTCTTTGAACTAAA 57.854 29.630 0.00 0.00 31.42 1.85
124 125 9.883142 TTTGTTTCACCATTCTTTGAACTAAAT 57.117 25.926 0.00 0.00 31.42 1.40
139 140 9.991906 TTTGAACTAAATATTATACTCCCTCCG 57.008 33.333 0.00 0.00 0.00 4.63
140 141 8.716674 TGAACTAAATATTATACTCCCTCCGT 57.283 34.615 0.00 0.00 0.00 4.69
141 142 8.800332 TGAACTAAATATTATACTCCCTCCGTC 58.200 37.037 0.00 0.00 0.00 4.79
142 143 8.953223 AACTAAATATTATACTCCCTCCGTCT 57.047 34.615 0.00 0.00 0.00 4.18
143 144 8.350852 ACTAAATATTATACTCCCTCCGTCTG 57.649 38.462 0.00 0.00 0.00 3.51
144 145 8.168725 ACTAAATATTATACTCCCTCCGTCTGA 58.831 37.037 0.00 0.00 0.00 3.27
145 146 7.850935 AAATATTATACTCCCTCCGTCTGAA 57.149 36.000 0.00 0.00 0.00 3.02
146 147 7.850935 AATATTATACTCCCTCCGTCTGAAA 57.149 36.000 0.00 0.00 0.00 2.69
147 148 5.793030 ATTATACTCCCTCCGTCTGAAAG 57.207 43.478 0.00 0.00 0.00 2.62
148 149 2.599408 TACTCCCTCCGTCTGAAAGT 57.401 50.000 0.00 0.00 33.76 2.66
163 164 5.862323 GTCTGAAAGTAAGTGTCGCTGATTA 59.138 40.000 0.00 0.00 33.76 1.75
164 165 6.531948 GTCTGAAAGTAAGTGTCGCTGATTAT 59.468 38.462 0.00 0.00 33.76 1.28
167 169 8.181487 TGAAAGTAAGTGTCGCTGATTATTAC 57.819 34.615 0.00 0.00 0.00 1.89
170 172 8.718102 AAGTAAGTGTCGCTGATTATTACAAT 57.282 30.769 0.00 0.00 0.00 2.71
172 174 9.162764 AGTAAGTGTCGCTGATTATTACAATTT 57.837 29.630 0.00 0.00 31.65 1.82
198 200 8.542497 TGTACTAAATCAGCGACACTTATTTT 57.458 30.769 0.00 0.00 34.69 1.82
205 207 2.993899 AGCGACACTTATTTTGAGACGG 59.006 45.455 0.00 0.00 0.00 4.79
208 210 3.615592 CGACACTTATTTTGAGACGGGGA 60.616 47.826 0.00 0.00 0.00 4.81
225 228 3.676324 CGGGGAAGTAGTAAGCAGAACTG 60.676 52.174 0.00 0.00 0.00 3.16
228 231 4.246458 GGAAGTAGTAAGCAGAACTGGTG 58.754 47.826 7.28 0.00 41.62 4.17
244 247 4.910195 ACTGGTGCTCATGAAATAACTCA 58.090 39.130 0.00 0.00 0.00 3.41
255 258 7.801547 CATGAAATAACTCATGGTTTGTGAC 57.198 36.000 5.80 0.00 46.00 3.67
259 262 7.936847 TGAAATAACTCATGGTTTGTGACTACT 59.063 33.333 5.12 0.00 39.17 2.57
266 269 4.085357 TGGTTTGTGACTACTGCAGAAT 57.915 40.909 23.35 4.58 0.00 2.40
267 270 3.814842 TGGTTTGTGACTACTGCAGAATG 59.185 43.478 23.35 11.98 40.87 2.67
271 274 4.541973 TGTGACTACTGCAGAATGATGT 57.458 40.909 23.35 9.02 39.69 3.06
279 282 4.392047 ACTGCAGAATGATGTGAAAGTGA 58.608 39.130 23.35 0.00 39.69 3.41
282 285 5.522456 TGCAGAATGATGTGAAAGTGAAAC 58.478 37.500 0.00 0.00 39.69 2.78
284 287 5.149273 CAGAATGATGTGAAAGTGAAACCG 58.851 41.667 0.00 0.00 39.69 4.44
298 301 9.678941 GAAAGTGAAACCGAAAAATAAGAAGAT 57.321 29.630 0.00 0.00 37.80 2.40
357 370 5.156355 CAGCTGAAATATGTGTGGTGAAAC 58.844 41.667 8.42 0.00 0.00 2.78
364 377 2.684001 TGTGTGGTGAAACTCTTCGT 57.316 45.000 0.00 0.00 36.74 3.85
382 395 7.494625 ACTCTTCGTTTGAGTAAATCAGTTTGA 59.505 33.333 6.07 0.00 42.28 2.69
401 432 9.693157 CAGTTTGAATTCAACAAAACATTTCTC 57.307 29.630 20.35 0.00 38.63 2.87
402 433 8.594687 AGTTTGAATTCAACAAAACATTTCTCG 58.405 29.630 20.35 0.00 38.63 4.04
403 434 8.591312 GTTTGAATTCAACAAAACATTTCTCGA 58.409 29.630 20.35 0.00 38.63 4.04
404 435 8.694975 TTGAATTCAACAAAACATTTCTCGAA 57.305 26.923 16.91 0.00 0.00 3.71
405 436 8.694975 TGAATTCAACAAAACATTTCTCGAAA 57.305 26.923 5.45 0.00 34.46 3.46
406 437 8.806634 TGAATTCAACAAAACATTTCTCGAAAG 58.193 29.630 5.45 0.00 33.32 2.62
407 438 8.925161 AATTCAACAAAACATTTCTCGAAAGA 57.075 26.923 0.00 0.00 39.12 2.52
408 439 8.925161 ATTCAACAAAACATTTCTCGAAAGAA 57.075 26.923 0.00 0.00 41.32 2.52
432 463 9.927668 GAAAATTGAAGGTGAAAGGAAATATGA 57.072 29.630 0.00 0.00 0.00 2.15
502 536 4.019792 TGGCATGTCTCTTTCTTTAGCA 57.980 40.909 0.00 0.00 0.00 3.49
503 537 3.753272 TGGCATGTCTCTTTCTTTAGCAC 59.247 43.478 0.00 0.00 0.00 4.40
504 538 3.127721 GGCATGTCTCTTTCTTTAGCACC 59.872 47.826 0.00 0.00 0.00 5.01
659 693 5.359860 CCACATACACTATGACTGACAGGTA 59.640 44.000 7.51 0.00 39.45 3.08
662 696 6.544197 ACATACACTATGACTGACAGGTAGAG 59.456 42.308 7.51 4.53 39.45 2.43
670 705 2.241176 ACTGACAGGTAGAGAGGAGAGG 59.759 54.545 7.51 0.00 0.00 3.69
769 804 2.125673 GCTCGTGTGCGGGTACAT 60.126 61.111 0.00 0.00 41.45 2.29
954 1308 5.304778 AGAGCAGAGGAAAGAAAGAAAGAC 58.695 41.667 0.00 0.00 0.00 3.01
971 1329 2.271777 AGACAGGGACGGGGAAATTTA 58.728 47.619 0.00 0.00 0.00 1.40
1113 1471 0.682209 ATGGCGCCAAGAAGAAGCAT 60.682 50.000 36.33 10.11 0.00 3.79
1209 1567 0.252513 TCCCCTTCCATTCTCGACCA 60.253 55.000 0.00 0.00 0.00 4.02
1264 1626 8.829612 CAGAACAATAGTGCATACATACAATCA 58.170 33.333 0.00 0.00 0.00 2.57
1362 1724 8.208224 TCCACGTGTACTATTTTATTCATGGAT 58.792 33.333 15.65 0.00 0.00 3.41
1367 1729 9.337396 GTGTACTATTTTATTCATGGATGGTCA 57.663 33.333 0.00 0.00 0.00 4.02
1384 1747 2.416431 GGTCAGTTGATCCAATTGCTGC 60.416 50.000 0.00 0.00 32.39 5.25
1495 1860 4.220821 TCTGGCTTGACTGAACTTACTAGG 59.779 45.833 0.00 0.00 0.00 3.02
1693 2082 1.119684 AGGCAAACCCAACAAAGGAC 58.880 50.000 0.00 0.00 36.11 3.85
1695 2084 1.484653 GGCAAACCCAACAAAGGACTT 59.515 47.619 0.00 0.00 0.00 3.01
1939 2329 2.682494 GGGGTGCGTCTCCCTACA 60.682 66.667 14.01 0.00 44.07 2.74
1943 2333 1.218047 GTGCGTCTCCCTACATGCA 59.782 57.895 0.00 0.00 0.00 3.96
1945 2335 1.257750 TGCGTCTCCCTACATGCACT 61.258 55.000 0.00 0.00 0.00 4.40
2101 2558 6.680810 CAAATAGCAAAGTCATTCAAGACCA 58.319 36.000 0.00 0.00 39.34 4.02
2128 2585 1.913419 TGCCTAGTCGAAGGGGAAAAT 59.087 47.619 5.32 0.00 37.11 1.82
2135 2592 5.453567 AGTCGAAGGGGAAAATGAAAAAG 57.546 39.130 0.00 0.00 0.00 2.27
2139 2596 6.759356 GTCGAAGGGGAAAATGAAAAAGAAAA 59.241 34.615 0.00 0.00 0.00 2.29
2140 2597 6.759356 TCGAAGGGGAAAATGAAAAAGAAAAC 59.241 34.615 0.00 0.00 0.00 2.43
2158 2615 5.977129 AGAAAACGAAAGCGATGAAAACAAT 59.023 32.000 0.00 0.00 41.64 2.71
2174 2631 6.146347 TGAAAACAATGATTGACGACATACGA 59.854 34.615 12.80 0.00 45.77 3.43
2204 2661 3.677700 CATTGGCACCAATCATGTCTTGG 60.678 47.826 20.95 20.95 43.92 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.516227 TCACAACTTTGGTGGTTGGA 57.484 45.000 10.58 3.59 45.61 3.53
1 2 3.056179 ACTTTCACAACTTTGGTGGTTGG 60.056 43.478 10.58 1.65 45.61 3.77
2 3 3.925913 CACTTTCACAACTTTGGTGGTTG 59.074 43.478 5.23 5.23 46.42 3.77
3 4 3.829601 TCACTTTCACAACTTTGGTGGTT 59.170 39.130 0.00 0.00 36.90 3.67
4 5 3.426615 TCACTTTCACAACTTTGGTGGT 58.573 40.909 0.00 0.00 36.90 4.16
5 6 4.423732 CTTCACTTTCACAACTTTGGTGG 58.576 43.478 0.00 0.00 36.90 4.61
6 7 4.082245 ACCTTCACTTTCACAACTTTGGTG 60.082 41.667 0.00 0.00 37.60 4.17
7 8 4.086457 ACCTTCACTTTCACAACTTTGGT 58.914 39.130 0.00 0.00 0.00 3.67
8 9 4.718940 ACCTTCACTTTCACAACTTTGG 57.281 40.909 0.00 0.00 0.00 3.28
9 10 6.538742 TCTCTACCTTCACTTTCACAACTTTG 59.461 38.462 0.00 0.00 0.00 2.77
10 11 6.650120 TCTCTACCTTCACTTTCACAACTTT 58.350 36.000 0.00 0.00 0.00 2.66
11 12 6.235231 TCTCTACCTTCACTTTCACAACTT 57.765 37.500 0.00 0.00 0.00 2.66
12 13 5.871396 TCTCTACCTTCACTTTCACAACT 57.129 39.130 0.00 0.00 0.00 3.16
13 14 5.346281 CGATCTCTACCTTCACTTTCACAAC 59.654 44.000 0.00 0.00 0.00 3.32
14 15 5.470368 CGATCTCTACCTTCACTTTCACAA 58.530 41.667 0.00 0.00 0.00 3.33
15 16 4.082190 CCGATCTCTACCTTCACTTTCACA 60.082 45.833 0.00 0.00 0.00 3.58
16 17 4.425520 CCGATCTCTACCTTCACTTTCAC 58.574 47.826 0.00 0.00 0.00 3.18
17 18 3.119101 GCCGATCTCTACCTTCACTTTCA 60.119 47.826 0.00 0.00 0.00 2.69
18 19 3.449632 GCCGATCTCTACCTTCACTTTC 58.550 50.000 0.00 0.00 0.00 2.62
19 20 2.159226 CGCCGATCTCTACCTTCACTTT 60.159 50.000 0.00 0.00 0.00 2.66
20 21 1.405821 CGCCGATCTCTACCTTCACTT 59.594 52.381 0.00 0.00 0.00 3.16
21 22 1.025812 CGCCGATCTCTACCTTCACT 58.974 55.000 0.00 0.00 0.00 3.41
22 23 0.595310 GCGCCGATCTCTACCTTCAC 60.595 60.000 0.00 0.00 0.00 3.18
23 24 1.035385 TGCGCCGATCTCTACCTTCA 61.035 55.000 4.18 0.00 0.00 3.02
24 25 0.102481 TTGCGCCGATCTCTACCTTC 59.898 55.000 4.18 0.00 0.00 3.46
25 26 0.179108 GTTGCGCCGATCTCTACCTT 60.179 55.000 4.18 0.00 0.00 3.50
26 27 1.320344 TGTTGCGCCGATCTCTACCT 61.320 55.000 4.18 0.00 0.00 3.08
27 28 0.459585 TTGTTGCGCCGATCTCTACC 60.460 55.000 4.18 0.00 0.00 3.18
28 29 0.645868 GTTGTTGCGCCGATCTCTAC 59.354 55.000 4.18 0.00 0.00 2.59
29 30 0.800683 CGTTGTTGCGCCGATCTCTA 60.801 55.000 4.18 0.00 0.00 2.43
30 31 2.094659 CGTTGTTGCGCCGATCTCT 61.095 57.895 4.18 0.00 0.00 3.10
31 32 2.092291 TCGTTGTTGCGCCGATCTC 61.092 57.895 4.18 0.00 0.00 2.75
32 33 2.048597 TCGTTGTTGCGCCGATCT 60.049 55.556 4.18 0.00 0.00 2.75
33 34 2.095843 GTCGTTGTTGCGCCGATC 59.904 61.111 4.18 0.00 32.68 3.69
34 35 3.419759 GGTCGTTGTTGCGCCGAT 61.420 61.111 4.18 0.00 32.68 4.18
35 36 4.893601 TGGTCGTTGTTGCGCCGA 62.894 61.111 4.18 2.59 33.18 5.54
36 37 3.645157 GATGGTCGTTGTTGCGCCG 62.645 63.158 4.18 0.00 33.18 6.46
37 38 2.175811 GATGGTCGTTGTTGCGCC 59.824 61.111 4.18 0.00 0.00 6.53
38 39 2.202171 CGATGGTCGTTGTTGCGC 60.202 61.111 0.00 0.00 34.72 6.09
39 40 2.202171 GCGATGGTCGTTGTTGCG 60.202 61.111 1.11 0.00 42.81 4.85
40 41 2.175811 GGCGATGGTCGTTGTTGC 59.824 61.111 1.11 0.00 42.81 4.17
41 42 2.024868 TCGGCGATGGTCGTTGTTG 61.025 57.895 4.99 0.00 43.10 3.33
42 43 2.025418 GTCGGCGATGGTCGTTGTT 61.025 57.895 14.79 0.00 43.10 2.83
43 44 2.431942 GTCGGCGATGGTCGTTGT 60.432 61.111 14.79 0.00 43.10 3.32
44 45 3.541831 CGTCGGCGATGGTCGTTG 61.542 66.667 21.01 0.00 43.10 4.10
45 46 4.789075 CCGTCGGCGATGGTCGTT 62.789 66.667 34.32 0.00 43.10 3.85
50 51 2.629050 ATTGAGACCGTCGGCGATGG 62.629 60.000 38.91 38.91 43.80 3.51
51 52 1.226974 ATTGAGACCGTCGGCGATG 60.227 57.895 21.74 21.74 41.33 3.84
52 53 1.226974 CATTGAGACCGTCGGCGAT 60.227 57.895 12.93 0.00 41.33 4.58
53 54 2.180769 CATTGAGACCGTCGGCGA 59.819 61.111 12.93 4.99 41.33 5.54
54 55 2.126071 ACATTGAGACCGTCGGCG 60.126 61.111 12.28 0.29 37.95 6.46
55 56 0.108992 TACACATTGAGACCGTCGGC 60.109 55.000 12.28 4.24 0.00 5.54
56 57 1.469251 CCTACACATTGAGACCGTCGG 60.469 57.143 10.48 10.48 0.00 4.79
57 58 1.469251 CCCTACACATTGAGACCGTCG 60.469 57.143 0.00 0.00 0.00 5.12
58 59 1.549170 ACCCTACACATTGAGACCGTC 59.451 52.381 0.00 0.00 0.00 4.79
59 60 1.549170 GACCCTACACATTGAGACCGT 59.451 52.381 0.00 0.00 0.00 4.83
60 61 1.469251 CGACCCTACACATTGAGACCG 60.469 57.143 0.00 0.00 0.00 4.79
61 62 1.134788 CCGACCCTACACATTGAGACC 60.135 57.143 0.00 0.00 0.00 3.85
62 63 1.134788 CCCGACCCTACACATTGAGAC 60.135 57.143 0.00 0.00 0.00 3.36
63 64 1.191535 CCCGACCCTACACATTGAGA 58.808 55.000 0.00 0.00 0.00 3.27
64 65 0.902531 ACCCGACCCTACACATTGAG 59.097 55.000 0.00 0.00 0.00 3.02
65 66 2.234896 TACCCGACCCTACACATTGA 57.765 50.000 0.00 0.00 0.00 2.57
66 67 3.553828 AATACCCGACCCTACACATTG 57.446 47.619 0.00 0.00 0.00 2.82
67 68 4.579647 AAAATACCCGACCCTACACATT 57.420 40.909 0.00 0.00 0.00 2.71
68 69 4.579647 AAAAATACCCGACCCTACACAT 57.420 40.909 0.00 0.00 0.00 3.21
89 90 6.706295 AGAATGGTGAAACAAACAGGAAAAA 58.294 32.000 0.00 0.00 39.98 1.94
90 91 6.293004 AGAATGGTGAAACAAACAGGAAAA 57.707 33.333 0.00 0.00 39.98 2.29
91 92 5.930837 AGAATGGTGAAACAAACAGGAAA 57.069 34.783 0.00 0.00 39.98 3.13
92 93 5.930837 AAGAATGGTGAAACAAACAGGAA 57.069 34.783 0.00 0.00 39.98 3.36
93 94 5.420421 TCAAAGAATGGTGAAACAAACAGGA 59.580 36.000 0.00 0.00 39.98 3.86
94 95 5.659463 TCAAAGAATGGTGAAACAAACAGG 58.341 37.500 0.00 0.00 39.98 4.00
95 96 6.813152 AGTTCAAAGAATGGTGAAACAAACAG 59.187 34.615 0.00 0.00 39.98 3.16
96 97 6.696411 AGTTCAAAGAATGGTGAAACAAACA 58.304 32.000 0.00 0.00 39.98 2.83
97 98 8.696410 TTAGTTCAAAGAATGGTGAAACAAAC 57.304 30.769 0.00 0.00 39.98 2.93
98 99 9.883142 ATTTAGTTCAAAGAATGGTGAAACAAA 57.117 25.926 0.00 0.00 39.98 2.83
113 114 9.991906 CGGAGGGAGTATAATATTTAGTTCAAA 57.008 33.333 0.00 0.00 0.00 2.69
114 115 9.151177 ACGGAGGGAGTATAATATTTAGTTCAA 57.849 33.333 0.00 0.00 0.00 2.69
115 116 8.716674 ACGGAGGGAGTATAATATTTAGTTCA 57.283 34.615 0.00 0.00 0.00 3.18
116 117 9.022884 AGACGGAGGGAGTATAATATTTAGTTC 57.977 37.037 0.00 0.00 0.00 3.01
117 118 8.804204 CAGACGGAGGGAGTATAATATTTAGTT 58.196 37.037 0.00 0.00 0.00 2.24
118 119 8.168725 TCAGACGGAGGGAGTATAATATTTAGT 58.831 37.037 0.00 0.00 0.00 2.24
119 120 8.577048 TCAGACGGAGGGAGTATAATATTTAG 57.423 38.462 0.00 0.00 0.00 1.85
120 121 8.945195 TTCAGACGGAGGGAGTATAATATTTA 57.055 34.615 0.00 0.00 0.00 1.40
121 122 7.850935 TTCAGACGGAGGGAGTATAATATTT 57.149 36.000 0.00 0.00 0.00 1.40
122 123 7.509659 ACTTTCAGACGGAGGGAGTATAATATT 59.490 37.037 0.00 0.00 0.00 1.28
123 124 7.011382 ACTTTCAGACGGAGGGAGTATAATAT 58.989 38.462 0.00 0.00 0.00 1.28
124 125 6.371278 ACTTTCAGACGGAGGGAGTATAATA 58.629 40.000 0.00 0.00 0.00 0.98
125 126 5.209659 ACTTTCAGACGGAGGGAGTATAAT 58.790 41.667 0.00 0.00 0.00 1.28
126 127 4.607239 ACTTTCAGACGGAGGGAGTATAA 58.393 43.478 0.00 0.00 0.00 0.98
127 128 4.246712 ACTTTCAGACGGAGGGAGTATA 57.753 45.455 0.00 0.00 0.00 1.47
128 129 3.103080 ACTTTCAGACGGAGGGAGTAT 57.897 47.619 0.00 0.00 0.00 2.12
129 130 2.599408 ACTTTCAGACGGAGGGAGTA 57.401 50.000 0.00 0.00 0.00 2.59
130 131 2.599408 TACTTTCAGACGGAGGGAGT 57.401 50.000 0.00 0.00 0.00 3.85
131 132 2.826725 ACTTACTTTCAGACGGAGGGAG 59.173 50.000 0.00 0.00 0.00 4.30
132 133 2.561419 CACTTACTTTCAGACGGAGGGA 59.439 50.000 0.00 0.00 0.00 4.20
133 134 2.299297 ACACTTACTTTCAGACGGAGGG 59.701 50.000 0.00 0.00 0.00 4.30
134 135 3.576648 GACACTTACTTTCAGACGGAGG 58.423 50.000 0.00 0.00 0.00 4.30
135 136 3.235195 CGACACTTACTTTCAGACGGAG 58.765 50.000 0.00 0.00 0.00 4.63
136 137 2.606308 GCGACACTTACTTTCAGACGGA 60.606 50.000 0.00 0.00 0.00 4.69
137 138 1.719780 GCGACACTTACTTTCAGACGG 59.280 52.381 0.00 0.00 0.00 4.79
138 139 2.405357 CAGCGACACTTACTTTCAGACG 59.595 50.000 0.00 0.00 0.00 4.18
139 140 3.639538 TCAGCGACACTTACTTTCAGAC 58.360 45.455 0.00 0.00 0.00 3.51
140 141 4.521130 ATCAGCGACACTTACTTTCAGA 57.479 40.909 0.00 0.00 0.00 3.27
141 142 6.893958 ATAATCAGCGACACTTACTTTCAG 57.106 37.500 0.00 0.00 0.00 3.02
142 143 7.815549 TGTAATAATCAGCGACACTTACTTTCA 59.184 33.333 0.00 0.00 0.00 2.69
143 144 8.181487 TGTAATAATCAGCGACACTTACTTTC 57.819 34.615 0.00 0.00 0.00 2.62
144 145 8.542497 TTGTAATAATCAGCGACACTTACTTT 57.458 30.769 0.00 0.00 0.00 2.66
145 146 8.718102 ATTGTAATAATCAGCGACACTTACTT 57.282 30.769 0.00 0.00 0.00 2.24
146 147 8.718102 AATTGTAATAATCAGCGACACTTACT 57.282 30.769 0.00 0.00 0.00 2.24
147 148 9.769093 AAAATTGTAATAATCAGCGACACTTAC 57.231 29.630 0.00 0.00 0.00 2.34
148 149 9.767684 CAAAATTGTAATAATCAGCGACACTTA 57.232 29.630 0.00 0.00 0.00 2.24
163 164 9.769093 GTCGCTGATTTAGTACAAAATTGTAAT 57.231 29.630 10.60 10.60 44.46 1.89
164 165 8.775527 TGTCGCTGATTTAGTACAAAATTGTAA 58.224 29.630 7.53 0.00 44.46 2.41
167 169 7.298122 AGTGTCGCTGATTTAGTACAAAATTG 58.702 34.615 0.00 0.00 0.00 2.32
170 172 6.854496 AAGTGTCGCTGATTTAGTACAAAA 57.146 33.333 0.00 0.00 0.00 2.44
172 174 8.542497 AAATAAGTGTCGCTGATTTAGTACAA 57.458 30.769 6.91 0.00 36.68 2.41
185 187 2.093783 CCCGTCTCAAAATAAGTGTCGC 59.906 50.000 0.00 0.00 0.00 5.19
198 200 2.097825 GCTTACTACTTCCCCGTCTCA 58.902 52.381 0.00 0.00 0.00 3.27
205 207 3.261137 ACCAGTTCTGCTTACTACTTCCC 59.739 47.826 0.00 0.00 0.00 3.97
208 210 3.325135 AGCACCAGTTCTGCTTACTACTT 59.675 43.478 0.00 0.00 42.54 2.24
244 247 3.769739 TCTGCAGTAGTCACAAACCAT 57.230 42.857 14.67 0.00 0.00 3.55
255 258 5.640783 TCACTTTCACATCATTCTGCAGTAG 59.359 40.000 14.67 5.06 0.00 2.57
259 262 5.507817 GGTTTCACTTTCACATCATTCTGCA 60.508 40.000 0.00 0.00 0.00 4.41
266 269 5.568685 TTTTCGGTTTCACTTTCACATCA 57.431 34.783 0.00 0.00 0.00 3.07
267 270 8.568732 TTATTTTTCGGTTTCACTTTCACATC 57.431 30.769 0.00 0.00 0.00 3.06
271 274 8.679100 TCTTCTTATTTTTCGGTTTCACTTTCA 58.321 29.630 0.00 0.00 0.00 2.69
279 282 8.996271 ACTTCGTATCTTCTTATTTTTCGGTTT 58.004 29.630 0.00 0.00 0.00 3.27
282 285 9.079833 TGTACTTCGTATCTTCTTATTTTTCGG 57.920 33.333 0.00 0.00 0.00 4.30
298 301 7.201835 TGTGTTTCAATAGTGTGTACTTCGTA 58.798 34.615 0.00 0.00 38.36 3.43
308 317 5.590530 TTTTGGCTGTGTTTCAATAGTGT 57.409 34.783 0.00 0.00 0.00 3.55
311 320 7.148755 GCTGTTATTTTGGCTGTGTTTCAATAG 60.149 37.037 0.00 0.00 0.00 1.73
357 370 7.851508 TCAAACTGATTTACTCAAACGAAGAG 58.148 34.615 0.00 0.00 39.04 2.85
382 395 8.925161 TCTTTCGAGAAATGTTTTGTTGAATT 57.075 26.923 0.00 0.00 0.00 2.17
394 425 7.862372 TCACCTTCAATTTTCTTTCGAGAAATG 59.138 33.333 2.77 0.61 37.59 2.32
395 426 7.940850 TCACCTTCAATTTTCTTTCGAGAAAT 58.059 30.769 2.77 0.00 37.59 2.17
396 427 7.328277 TCACCTTCAATTTTCTTTCGAGAAA 57.672 32.000 0.00 0.00 36.17 2.52
397 428 6.935741 TCACCTTCAATTTTCTTTCGAGAA 57.064 33.333 0.00 0.00 0.00 2.87
398 429 6.935741 TTCACCTTCAATTTTCTTTCGAGA 57.064 33.333 0.00 0.00 0.00 4.04
401 432 6.503524 TCCTTTCACCTTCAATTTTCTTTCG 58.496 36.000 0.00 0.00 0.00 3.46
402 433 8.716646 TTTCCTTTCACCTTCAATTTTCTTTC 57.283 30.769 0.00 0.00 0.00 2.62
405 436 9.933723 CATATTTCCTTTCACCTTCAATTTTCT 57.066 29.630 0.00 0.00 0.00 2.52
406 437 9.927668 TCATATTTCCTTTCACCTTCAATTTTC 57.072 29.630 0.00 0.00 0.00 2.29
407 438 9.710900 GTCATATTTCCTTTCACCTTCAATTTT 57.289 29.630 0.00 0.00 0.00 1.82
408 439 8.869109 TGTCATATTTCCTTTCACCTTCAATTT 58.131 29.630 0.00 0.00 0.00 1.82
409 440 8.421249 TGTCATATTTCCTTTCACCTTCAATT 57.579 30.769 0.00 0.00 0.00 2.32
410 441 8.421249 TTGTCATATTTCCTTTCACCTTCAAT 57.579 30.769 0.00 0.00 0.00 2.57
411 442 7.831691 TTGTCATATTTCCTTTCACCTTCAA 57.168 32.000 0.00 0.00 0.00 2.69
412 443 7.831691 TTTGTCATATTTCCTTTCACCTTCA 57.168 32.000 0.00 0.00 0.00 3.02
413 444 9.358872 GATTTTGTCATATTTCCTTTCACCTTC 57.641 33.333 0.00 0.00 0.00 3.46
414 445 8.869109 TGATTTTGTCATATTTCCTTTCACCTT 58.131 29.630 0.00 0.00 0.00 3.50
415 446 8.421249 TGATTTTGTCATATTTCCTTTCACCT 57.579 30.769 0.00 0.00 0.00 4.00
432 463 3.067180 CGAAGCCAGCCATATGATTTTGT 59.933 43.478 3.65 0.00 0.00 2.83
448 479 0.322546 ATGGAAAGTGGGTCGAAGCC 60.323 55.000 0.00 0.00 36.00 4.35
502 536 2.282745 GGCAGGCAAGCTTCTGGT 60.283 61.111 14.94 0.00 34.17 4.00
503 537 1.874345 CTTGGCAGGCAAGCTTCTGG 61.874 60.000 22.73 0.00 34.17 3.86
504 538 1.585006 CTTGGCAGGCAAGCTTCTG 59.415 57.895 22.73 10.13 34.17 3.02
526 560 5.600484 AGCAATGGAATGAGCTACTACTAGT 59.400 40.000 0.00 0.00 36.84 2.57
659 693 2.038007 TTGCGGCCTCTCCTCTCT 59.962 61.111 0.00 0.00 0.00 3.10
769 804 5.301805 TCTCTAATTCGAGCATGTGGTCATA 59.698 40.000 12.12 0.35 42.28 2.15
813 849 3.945640 TTTTTATAGGGGGAGGTGAGC 57.054 47.619 0.00 0.00 0.00 4.26
814 850 5.132816 AGACATTTTTATAGGGGGAGGTGAG 59.867 44.000 0.00 0.00 0.00 3.51
954 1308 2.752903 CACTTAAATTTCCCCGTCCCTG 59.247 50.000 0.00 0.00 0.00 4.45
971 1329 3.578716 TCTGCTAAGCTTCTACACCACTT 59.421 43.478 0.00 0.00 0.00 3.16
1113 1471 2.253610 TCCTTCTTTACGGCTTGAGGA 58.746 47.619 0.00 0.00 0.00 3.71
1209 1567 8.150827 TCTGCATAATCTATTACATTAGGCCT 57.849 34.615 11.78 11.78 40.96 5.19
1264 1626 8.097662 GGCATAAGCTAATAAGAGAACCTACAT 58.902 37.037 0.00 0.00 41.70 2.29
1287 1649 4.659172 CCGAGGCAAACCCAGGCA 62.659 66.667 0.00 0.00 36.11 4.75
1362 1724 2.821378 CAGCAATTGGATCAACTGACCA 59.179 45.455 7.72 0.00 0.00 4.02
1367 1729 2.522185 ACAGCAGCAATTGGATCAACT 58.478 42.857 7.72 0.00 0.00 3.16
1384 1747 9.692749 TGTCTACTAGTAAATTGACAAGAACAG 57.307 33.333 16.29 0.00 32.50 3.16
1495 1860 4.520492 AGATCATGTCTTTGTTCACCCAAC 59.480 41.667 0.00 0.00 31.47 3.77
1693 2082 8.781067 TTCAGTTAACGAAAATGATGAACAAG 57.219 30.769 9.44 0.00 41.47 3.16
1695 2084 9.179552 CAATTCAGTTAACGAAAATGATGAACA 57.820 29.630 13.97 0.00 41.47 3.18
1702 2091 6.746104 TGTGCAATTCAGTTAACGAAAATG 57.254 33.333 13.97 15.19 34.46 2.32
1939 2329 2.268920 CGTGGCTGGGTAGTGCAT 59.731 61.111 0.00 0.00 0.00 3.96
1943 2333 1.228769 TCTCACGTGGCTGGGTAGT 60.229 57.895 17.00 0.00 0.00 2.73
1945 2335 0.324368 ATCTCTCACGTGGCTGGGTA 60.324 55.000 17.00 0.00 0.00 3.69
2052 2508 2.395360 TGATACTTTGTGGGCGCGC 61.395 57.895 25.94 25.94 0.00 6.86
2053 2509 1.423845 GTGATACTTTGTGGGCGCG 59.576 57.895 0.00 0.00 0.00 6.86
2054 2510 1.296056 ACGTGATACTTTGTGGGCGC 61.296 55.000 0.00 0.00 0.00 6.53
2055 2511 0.719465 GACGTGATACTTTGTGGGCG 59.281 55.000 0.00 0.00 0.00 6.13
2056 2512 0.719465 CGACGTGATACTTTGTGGGC 59.281 55.000 0.00 0.00 0.00 5.36
2057 2513 1.355971 CCGACGTGATACTTTGTGGG 58.644 55.000 0.00 0.00 0.00 4.61
2058 2514 0.719465 GCCGACGTGATACTTTGTGG 59.281 55.000 0.00 0.00 0.00 4.17
2059 2515 1.424403 TGCCGACGTGATACTTTGTG 58.576 50.000 0.00 0.00 0.00 3.33
2060 2516 2.157834 TTGCCGACGTGATACTTTGT 57.842 45.000 0.00 0.00 0.00 2.83
2061 2517 3.740044 ATTTGCCGACGTGATACTTTG 57.260 42.857 0.00 0.00 0.00 2.77
2101 2558 2.103263 CCCTTCGACTAGGCATAGCTTT 59.897 50.000 5.07 0.00 33.73 3.51
2128 2585 5.574082 TCATCGCTTTCGTTTTCTTTTTCA 58.426 33.333 0.00 0.00 36.96 2.69
2135 2592 5.613964 TTGTTTTCATCGCTTTCGTTTTC 57.386 34.783 0.00 0.00 36.96 2.29
2139 2596 4.481930 TCATTGTTTTCATCGCTTTCGT 57.518 36.364 0.00 0.00 36.96 3.85
2140 2597 5.568677 TCAATCATTGTTTTCATCGCTTTCG 59.431 36.000 0.00 0.00 0.00 3.46
2158 2615 3.189702 TCACTGTCGTATGTCGTCAATCA 59.810 43.478 0.00 0.00 37.18 2.57
2174 2631 0.106268 TTGGTGCCAATGGTCACTGT 60.106 50.000 20.32 0.00 32.93 3.55
2204 2661 4.988065 TCGTAGTCCTTGTGCTGC 57.012 55.556 0.00 0.00 0.00 5.25


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

AutoCloner maintained by Alex Coulton.