Multiple sequence alignment - TraesCS2B01G116100

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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 TraesCS2B01G116100 chr2B 100.000 2975 0 0 1 2975 79644062 79647036 0.000000e+00 5494.0
1 TraesCS2B01G116100 chr2B 88.415 328 20 6 1 315 79320542 79320220 2.160000e-101 379.0
2 TraesCS2B01G116100 chr2B 90.777 206 16 3 313 518 258652532 258652330 3.780000e-69 272.0
3 TraesCS2B01G116100 chr2B 91.111 135 12 0 180 314 79631496 79631630 1.820000e-42 183.0
4 TraesCS2B01G116100 chr2B 93.220 118 4 1 198 315 79318817 79318704 1.420000e-38 171.0
5 TraesCS2B01G116100 chr2B 95.506 89 2 1 1 89 79319061 79318975 1.110000e-29 141.0
6 TraesCS2B01G116100 chr3D 92.619 1978 142 4 1000 2975 179174421 179176396 0.000000e+00 2841.0
7 TraesCS2B01G116100 chr3D 92.391 184 14 0 312 495 443413610 443413793 2.270000e-66 263.0
8 TraesCS2B01G116100 chr3D 90.355 197 17 2 315 511 609640854 609640660 1.060000e-64 257.0
9 TraesCS2B01G116100 chr3D 97.917 48 1 0 17 64 217593332 217593285 1.900000e-12 84.2
10 TraesCS2B01G116100 chr1B 91.450 2035 157 15 953 2975 168993251 168991222 0.000000e+00 2778.0
11 TraesCS2B01G116100 chr6B 94.885 1779 79 4 953 2728 211203824 211202055 0.000000e+00 2771.0
12 TraesCS2B01G116100 chr6B 88.300 641 64 6 315 953 211204498 211203867 0.000000e+00 758.0
13 TraesCS2B01G116100 chr7A 91.115 2026 169 8 953 2975 245978703 245976686 0.000000e+00 2734.0
14 TraesCS2B01G116100 chr7A 91.166 1981 169 4 1000 2975 12978818 12976839 0.000000e+00 2684.0
15 TraesCS2B01G116100 chr7A 90.647 1978 179 6 1000 2975 647118064 647120037 0.000000e+00 2623.0
16 TraesCS2B01G116100 chr3B 91.603 1977 163 3 1000 2975 616640490 616642464 0.000000e+00 2728.0
17 TraesCS2B01G116100 chr3B 86.829 205 21 5 315 517 616639772 616639972 1.070000e-54 224.0
18 TraesCS2B01G116100 chr3B 97.872 47 1 0 18 64 325840916 325840962 6.830000e-12 82.4
19 TraesCS2B01G116100 chr7D 87.719 1995 220 19 1000 2975 472796018 472798006 0.000000e+00 2303.0
20 TraesCS2B01G116100 chr7D 88.073 218 26 0 314 531 472795322 472795539 2.940000e-65 259.0
21 TraesCS2B01G116100 chr5D 86.751 1985 250 10 1000 2975 510653421 510651441 0.000000e+00 2196.0
22 TraesCS2B01G116100 chr2D 93.016 315 16 4 1 314 51116897 51117206 3.500000e-124 455.0
23 TraesCS2B01G116100 chr2D 90.274 329 13 4 1 314 51097321 51097645 2.130000e-111 412.0
24 TraesCS2B01G116100 chr2D 89.057 265 15 8 64 314 51087918 51087654 1.720000e-82 316.0
25 TraesCS2B01G116100 chr2D 88.258 264 17 9 64 314 51095845 51096107 1.340000e-78 303.0
26 TraesCS2B01G116100 chr2D 90.833 120 8 3 63 180 51118263 51118381 1.100000e-34 158.0
27 TraesCS2B01G116100 chr2D 83.621 116 15 4 63 175 51075752 51075638 4.060000e-19 106.0
28 TraesCS2B01G116100 chr2D 96.078 51 2 0 71 121 51116317 51116367 1.900000e-12 84.2
29 TraesCS2B01G116100 chr5B 87.903 248 21 7 315 562 93467124 93466886 1.750000e-72 283.0
30 TraesCS2B01G116100 chr5B 91.667 192 16 0 311 502 26623746 26623555 1.760000e-67 267.0
31 TraesCS2B01G116100 chr4B 92.746 193 12 2 315 507 40430269 40430459 8.120000e-71 278.0
32 TraesCS2B01G116100 chr4B 85.259 251 30 3 314 560 587088922 587088675 4.920000e-63 252.0
33 TraesCS2B01G116100 chr7B 92.228 193 13 2 315 507 17224342 17224152 3.780000e-69 272.0
34 TraesCS2B01G116100 chr7B 92.857 42 3 0 23 64 508816909 508816868 8.900000e-06 62.1
35 TraesCS2B01G116100 chrUn 90.547 201 16 3 312 511 95760498 95760300 2.270000e-66 263.0
36 TraesCS2B01G116100 chrUn 94.355 124 7 0 315 438 284255552 284255429 1.090000e-44 191.0
37 TraesCS2B01G116100 chrUn 94.355 124 6 1 315 438 95737341 95737219 3.910000e-44 189.0
38 TraesCS2B01G116100 chrUn 93.548 124 7 1 315 438 272008214 272008336 1.820000e-42 183.0
39 TraesCS2B01G116100 chrUn 90.400 125 9 2 315 438 300552382 300552260 8.530000e-36 161.0
40 TraesCS2B01G116100 chr1D 87.838 222 22 5 315 534 326162046 326162264 3.810000e-64 255.0
41 TraesCS2B01G116100 chr1D 88.601 193 20 2 315 507 19401654 19401844 1.780000e-57 233.0
42 TraesCS2B01G116100 chr1D 87.255 204 24 2 315 518 470566414 470566615 6.410000e-57 231.0
43 TraesCS2B01G116100 chr4D 89.474 190 14 4 315 501 396423790 396423976 4.960000e-58 235.0
44 TraesCS2B01G116100 chr4D 90.449 178 15 1 315 490 422507824 422508001 1.780000e-57 233.0
45 TraesCS2B01G116100 chr4D 89.944 179 14 3 315 490 468306680 468306503 8.300000e-56 228.0
46 TraesCS2B01G116100 chr4D 90.286 175 13 3 317 489 85167010 85167182 2.980000e-55 226.0
47 TraesCS2B01G116100 chr4D 88.525 183 17 3 315 495 84990119 84989939 4.990000e-53 219.0
48 TraesCS2B01G116100 chr4A 96.078 51 2 0 13 63 638648509 638648559 1.900000e-12 84.2
49 TraesCS2B01G116100 chr3A 97.674 43 1 0 17 59 291794788 291794830 1.140000e-09 75.0


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 TraesCS2B01G116100 chr2B 79644062 79647036 2974 False 5494.000000 5494 100.000000 1 2975 1 chr2B.!!$F2 2974
1 TraesCS2B01G116100 chr2B 79318704 79320542 1838 True 230.333333 379 92.380333 1 315 3 chr2B.!!$R2 314
2 TraesCS2B01G116100 chr3D 179174421 179176396 1975 False 2841.000000 2841 92.619000 1000 2975 1 chr3D.!!$F1 1975
3 TraesCS2B01G116100 chr1B 168991222 168993251 2029 True 2778.000000 2778 91.450000 953 2975 1 chr1B.!!$R1 2022
4 TraesCS2B01G116100 chr6B 211202055 211204498 2443 True 1764.500000 2771 91.592500 315 2728 2 chr6B.!!$R1 2413
5 TraesCS2B01G116100 chr7A 245976686 245978703 2017 True 2734.000000 2734 91.115000 953 2975 1 chr7A.!!$R2 2022
6 TraesCS2B01G116100 chr7A 12976839 12978818 1979 True 2684.000000 2684 91.166000 1000 2975 1 chr7A.!!$R1 1975
7 TraesCS2B01G116100 chr7A 647118064 647120037 1973 False 2623.000000 2623 90.647000 1000 2975 1 chr7A.!!$F1 1975
8 TraesCS2B01G116100 chr3B 616639772 616642464 2692 False 1476.000000 2728 89.216000 315 2975 2 chr3B.!!$F2 2660
9 TraesCS2B01G116100 chr7D 472795322 472798006 2684 False 1281.000000 2303 87.896000 314 2975 2 chr7D.!!$F1 2661
10 TraesCS2B01G116100 chr5D 510651441 510653421 1980 True 2196.000000 2196 86.751000 1000 2975 1 chr5D.!!$R1 1975
11 TraesCS2B01G116100 chr2D 51095845 51097645 1800 False 357.500000 412 89.266000 1 314 2 chr2D.!!$F1 313
12 TraesCS2B01G116100 chr2D 51116317 51118381 2064 False 232.400000 455 93.309000 1 314 3 chr2D.!!$F2 313

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
632 634 0.248661 GCTCAGTCGCTTATCGCAGA 60.249 55.0 0.0 0.0 45.75 4.26 F
1526 1874 0.392193 CTTCAGCAGGATGGCTCGTT 60.392 55.0 0.0 0.0 43.68 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1827 2175 0.673022 GCAGAAGTGGTGGAGCAGAG 60.673 60.0 0.0 0.0 0.0 3.35 R
2774 4286 0.253044 TCGAATCAAAGGGAGCAGGG 59.747 55.0 0.0 0.0 0.0 4.45 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
103 104 5.544948 CCATTCCCATATCCCAATCACAAAT 59.455 40.000 0.00 0.00 0.00 2.32
104 105 6.295462 CCATTCCCATATCCCAATCACAAATC 60.295 42.308 0.00 0.00 0.00 2.17
105 106 4.739793 TCCCATATCCCAATCACAAATCC 58.260 43.478 0.00 0.00 0.00 3.01
106 107 4.419875 TCCCATATCCCAATCACAAATCCT 59.580 41.667 0.00 0.00 0.00 3.24
107 108 5.103129 TCCCATATCCCAATCACAAATCCTT 60.103 40.000 0.00 0.00 0.00 3.36
108 109 6.103946 TCCCATATCCCAATCACAAATCCTTA 59.896 38.462 0.00 0.00 0.00 2.69
109 110 6.955851 CCCATATCCCAATCACAAATCCTTAT 59.044 38.462 0.00 0.00 0.00 1.73
110 111 7.093640 CCCATATCCCAATCACAAATCCTTATG 60.094 40.741 0.00 0.00 0.00 1.90
111 112 5.796424 ATCCCAATCACAAATCCTTATGC 57.204 39.130 0.00 0.00 0.00 3.14
112 113 4.608269 TCCCAATCACAAATCCTTATGCA 58.392 39.130 0.00 0.00 0.00 3.96
113 114 4.402155 TCCCAATCACAAATCCTTATGCAC 59.598 41.667 0.00 0.00 0.00 4.57
114 115 4.441913 CCCAATCACAAATCCTTATGCACC 60.442 45.833 0.00 0.00 0.00 5.01
115 116 4.403432 CCAATCACAAATCCTTATGCACCT 59.597 41.667 0.00 0.00 0.00 4.00
116 117 5.105228 CCAATCACAAATCCTTATGCACCTT 60.105 40.000 0.00 0.00 0.00 3.50
117 118 6.400568 CAATCACAAATCCTTATGCACCTTT 58.599 36.000 0.00 0.00 0.00 3.11
118 119 6.610075 ATCACAAATCCTTATGCACCTTTT 57.390 33.333 0.00 0.00 0.00 2.27
119 120 5.782047 TCACAAATCCTTATGCACCTTTTG 58.218 37.500 0.00 0.00 0.00 2.44
121 122 4.020307 ACAAATCCTTATGCACCTTTTGGG 60.020 41.667 0.00 0.00 46.08 4.12
122 123 1.555967 TCCTTATGCACCTTTTGGGC 58.444 50.000 0.00 0.00 46.08 5.36
123 124 0.536724 CCTTATGCACCTTTTGGGCC 59.463 55.000 0.00 0.00 46.08 5.80
124 125 0.536724 CTTATGCACCTTTTGGGCCC 59.463 55.000 17.59 17.59 46.08 5.80
125 126 0.907230 TTATGCACCTTTTGGGCCCC 60.907 55.000 22.27 0.37 46.08 5.80
126 127 2.813949 TATGCACCTTTTGGGCCCCC 62.814 60.000 22.27 0.00 46.08 5.40
142 143 2.454336 CCCCCAAAAAGGATAGACCC 57.546 55.000 0.00 0.00 41.22 4.46
143 144 1.063190 CCCCCAAAAAGGATAGACCCC 60.063 57.143 0.00 0.00 41.22 4.95
144 145 1.930204 CCCCAAAAAGGATAGACCCCT 59.070 52.381 0.00 0.00 41.22 4.79
145 146 3.128049 CCCCAAAAAGGATAGACCCCTA 58.872 50.000 0.00 0.00 41.22 3.53
146 147 3.727391 CCCCAAAAAGGATAGACCCCTAT 59.273 47.826 0.00 0.00 41.22 2.57
147 148 4.447762 CCCCAAAAAGGATAGACCCCTATG 60.448 50.000 0.00 0.00 41.22 2.23
148 149 4.168088 CCCAAAAAGGATAGACCCCTATGT 59.832 45.833 0.00 0.00 41.22 2.29
149 150 5.340863 CCCAAAAAGGATAGACCCCTATGTT 60.341 44.000 0.00 0.00 41.22 2.71
150 151 6.126303 CCCAAAAAGGATAGACCCCTATGTTA 60.126 42.308 0.00 0.00 41.22 2.41
151 152 7.351166 CCAAAAAGGATAGACCCCTATGTTAA 58.649 38.462 0.00 0.00 41.22 2.01
152 153 7.502561 CCAAAAAGGATAGACCCCTATGTTAAG 59.497 40.741 0.00 0.00 41.22 1.85
153 154 7.766736 AAAAGGATAGACCCCTATGTTAAGT 57.233 36.000 0.00 0.00 40.05 2.24
154 155 6.749036 AAGGATAGACCCCTATGTTAAGTG 57.251 41.667 0.00 0.00 40.05 3.16
155 156 6.039415 AGGATAGACCCCTATGTTAAGTGA 57.961 41.667 0.00 0.00 40.05 3.41
156 157 6.449956 AGGATAGACCCCTATGTTAAGTGAA 58.550 40.000 0.00 0.00 40.05 3.18
157 158 6.555360 AGGATAGACCCCTATGTTAAGTGAAG 59.445 42.308 0.00 0.00 40.05 3.02
158 159 6.553852 GGATAGACCCCTATGTTAAGTGAAGA 59.446 42.308 0.00 0.00 35.81 2.87
159 160 7.235812 GGATAGACCCCTATGTTAAGTGAAGAT 59.764 40.741 0.00 0.00 35.81 2.40
160 161 6.240549 AGACCCCTATGTTAAGTGAAGATG 57.759 41.667 0.00 0.00 0.00 2.90
161 162 5.726793 AGACCCCTATGTTAAGTGAAGATGT 59.273 40.000 0.00 0.00 0.00 3.06
162 163 5.990668 ACCCCTATGTTAAGTGAAGATGTC 58.009 41.667 0.00 0.00 0.00 3.06
163 164 5.487488 ACCCCTATGTTAAGTGAAGATGTCA 59.513 40.000 0.00 0.00 0.00 3.58
164 165 6.051717 CCCCTATGTTAAGTGAAGATGTCAG 58.948 44.000 0.00 0.00 36.74 3.51
165 166 6.127054 CCCCTATGTTAAGTGAAGATGTCAGA 60.127 42.308 0.00 0.00 36.74 3.27
166 167 7.331026 CCCTATGTTAAGTGAAGATGTCAGAA 58.669 38.462 0.00 0.00 36.74 3.02
167 168 7.824289 CCCTATGTTAAGTGAAGATGTCAGAAA 59.176 37.037 0.00 0.00 36.74 2.52
168 169 9.219603 CCTATGTTAAGTGAAGATGTCAGAAAA 57.780 33.333 0.00 0.00 36.74 2.29
170 171 8.682936 ATGTTAAGTGAAGATGTCAGAAAACT 57.317 30.769 0.00 0.00 36.74 2.66
171 172 9.778741 ATGTTAAGTGAAGATGTCAGAAAACTA 57.221 29.630 0.00 0.00 36.74 2.24
172 173 9.607988 TGTTAAGTGAAGATGTCAGAAAACTAA 57.392 29.630 0.00 0.00 36.74 2.24
193 194 9.691362 AACTAAAAATTAGTACTGTTGCAATGG 57.309 29.630 5.39 0.83 0.00 3.16
194 195 9.073475 ACTAAAAATTAGTACTGTTGCAATGGA 57.927 29.630 5.39 0.00 0.00 3.41
195 196 9.906660 CTAAAAATTAGTACTGTTGCAATGGAA 57.093 29.630 5.39 0.00 0.00 3.53
196 197 8.587952 AAAAATTAGTACTGTTGCAATGGAAC 57.412 30.769 10.77 10.77 0.00 3.62
197 198 5.897377 ATTAGTACTGTTGCAATGGAACC 57.103 39.130 14.83 0.00 0.00 3.62
198 199 3.508845 AGTACTGTTGCAATGGAACCT 57.491 42.857 14.83 2.02 0.00 3.50
199 200 4.634012 AGTACTGTTGCAATGGAACCTA 57.366 40.909 14.83 2.06 0.00 3.08
200 201 4.579869 AGTACTGTTGCAATGGAACCTAG 58.420 43.478 14.83 8.99 0.00 3.02
201 202 2.795329 ACTGTTGCAATGGAACCTAGG 58.205 47.619 14.83 7.41 0.00 3.02
202 203 2.375174 ACTGTTGCAATGGAACCTAGGA 59.625 45.455 17.98 0.00 0.00 2.94
203 204 2.749621 CTGTTGCAATGGAACCTAGGAC 59.250 50.000 17.98 8.97 0.00 3.85
204 205 2.375174 TGTTGCAATGGAACCTAGGACT 59.625 45.455 17.98 1.01 0.00 3.85
205 206 3.010420 GTTGCAATGGAACCTAGGACTC 58.990 50.000 17.98 11.32 0.00 3.36
206 207 2.551270 TGCAATGGAACCTAGGACTCT 58.449 47.619 17.98 0.00 0.00 3.24
207 208 2.912956 TGCAATGGAACCTAGGACTCTT 59.087 45.455 17.98 0.00 0.00 2.85
208 209 3.055094 TGCAATGGAACCTAGGACTCTTC 60.055 47.826 17.98 8.59 0.00 2.87
209 210 3.198853 GCAATGGAACCTAGGACTCTTCT 59.801 47.826 17.98 0.00 0.00 2.85
210 211 4.764172 CAATGGAACCTAGGACTCTTCTG 58.236 47.826 17.98 6.43 0.00 3.02
211 212 2.180276 TGGAACCTAGGACTCTTCTGC 58.820 52.381 17.98 0.00 0.00 4.26
212 213 1.483004 GGAACCTAGGACTCTTCTGCC 59.517 57.143 17.98 0.00 0.00 4.85
213 214 1.135333 GAACCTAGGACTCTTCTGCCG 59.865 57.143 17.98 0.00 0.00 5.69
214 215 0.684805 ACCTAGGACTCTTCTGCCGG 60.685 60.000 17.98 0.00 0.00 6.13
215 216 0.395862 CCTAGGACTCTTCTGCCGGA 60.396 60.000 5.05 0.00 0.00 5.14
216 217 1.698506 CTAGGACTCTTCTGCCGGAT 58.301 55.000 5.05 0.00 0.00 4.18
217 218 2.035632 CTAGGACTCTTCTGCCGGATT 58.964 52.381 5.05 0.00 0.00 3.01
218 219 0.539051 AGGACTCTTCTGCCGGATTG 59.461 55.000 5.05 0.00 0.00 2.67
219 220 0.250513 GGACTCTTCTGCCGGATTGT 59.749 55.000 5.05 0.00 0.00 2.71
220 221 1.646189 GACTCTTCTGCCGGATTGTC 58.354 55.000 5.05 0.00 0.00 3.18
221 222 0.976641 ACTCTTCTGCCGGATTGTCA 59.023 50.000 5.05 0.00 0.00 3.58
222 223 1.556911 ACTCTTCTGCCGGATTGTCAT 59.443 47.619 5.05 0.00 0.00 3.06
223 224 2.026822 ACTCTTCTGCCGGATTGTCATT 60.027 45.455 5.05 0.00 0.00 2.57
224 225 2.353889 CTCTTCTGCCGGATTGTCATTG 59.646 50.000 5.05 0.00 0.00 2.82
225 226 1.402968 CTTCTGCCGGATTGTCATTGG 59.597 52.381 5.05 0.00 0.00 3.16
226 227 0.327924 TCTGCCGGATTGTCATTGGT 59.672 50.000 5.05 0.00 0.00 3.67
227 228 1.557371 TCTGCCGGATTGTCATTGGTA 59.443 47.619 5.05 0.00 0.00 3.25
228 229 1.670811 CTGCCGGATTGTCATTGGTAC 59.329 52.381 5.05 0.00 0.00 3.34
229 230 1.280710 TGCCGGATTGTCATTGGTACT 59.719 47.619 5.05 0.00 0.00 2.73
230 231 2.290641 TGCCGGATTGTCATTGGTACTT 60.291 45.455 5.05 0.00 0.00 2.24
231 232 2.752903 GCCGGATTGTCATTGGTACTTT 59.247 45.455 5.05 0.00 0.00 2.66
232 233 3.181500 GCCGGATTGTCATTGGTACTTTC 60.181 47.826 5.05 0.00 0.00 2.62
233 234 4.261801 CCGGATTGTCATTGGTACTTTCT 58.738 43.478 0.00 0.00 0.00 2.52
234 235 5.424757 CCGGATTGTCATTGGTACTTTCTA 58.575 41.667 0.00 0.00 0.00 2.10
235 236 6.055588 CCGGATTGTCATTGGTACTTTCTAT 58.944 40.000 0.00 0.00 0.00 1.98
236 237 6.017934 CCGGATTGTCATTGGTACTTTCTATG 60.018 42.308 0.00 0.00 0.00 2.23
237 238 6.538742 CGGATTGTCATTGGTACTTTCTATGT 59.461 38.462 0.00 0.00 0.00 2.29
238 239 7.465916 CGGATTGTCATTGGTACTTTCTATGTG 60.466 40.741 0.00 0.00 0.00 3.21
239 240 6.494893 TTGTCATTGGTACTTTCTATGTGC 57.505 37.500 0.00 0.00 0.00 4.57
240 241 5.555966 TGTCATTGGTACTTTCTATGTGCA 58.444 37.500 0.00 0.00 0.00 4.57
241 242 6.000840 TGTCATTGGTACTTTCTATGTGCAA 58.999 36.000 0.00 0.00 0.00 4.08
242 243 6.072728 TGTCATTGGTACTTTCTATGTGCAAC 60.073 38.462 0.00 0.00 37.35 4.17
243 244 6.149474 GTCATTGGTACTTTCTATGTGCAACT 59.851 38.462 0.00 0.00 38.04 3.16
244 245 5.940192 TTGGTACTTTCTATGTGCAACTG 57.060 39.130 0.00 0.00 38.04 3.16
245 246 4.968259 TGGTACTTTCTATGTGCAACTGT 58.032 39.130 0.00 0.00 38.04 3.55
246 247 5.373222 TGGTACTTTCTATGTGCAACTGTT 58.627 37.500 0.00 0.00 38.04 3.16
247 248 5.825679 TGGTACTTTCTATGTGCAACTGTTT 59.174 36.000 0.00 0.00 38.04 2.83
248 249 6.320164 TGGTACTTTCTATGTGCAACTGTTTT 59.680 34.615 0.00 0.00 38.04 2.43
249 250 7.147983 TGGTACTTTCTATGTGCAACTGTTTTT 60.148 33.333 0.00 0.00 38.04 1.94
275 276 8.581253 TTCTTCCTTTAATCATCTTCCTTTCC 57.419 34.615 0.00 0.00 0.00 3.13
276 277 7.933223 TCTTCCTTTAATCATCTTCCTTTCCT 58.067 34.615 0.00 0.00 0.00 3.36
277 278 8.394040 TCTTCCTTTAATCATCTTCCTTTCCTT 58.606 33.333 0.00 0.00 0.00 3.36
278 279 8.956446 TTCCTTTAATCATCTTCCTTTCCTTT 57.044 30.769 0.00 0.00 0.00 3.11
285 286 8.986929 AATCATCTTCCTTTCCTTTATGTAGG 57.013 34.615 0.00 0.00 36.59 3.18
286 287 7.510675 TCATCTTCCTTTCCTTTATGTAGGT 57.489 36.000 0.00 0.00 36.63 3.08
287 288 7.338710 TCATCTTCCTTTCCTTTATGTAGGTG 58.661 38.462 0.00 0.00 36.63 4.00
288 289 5.497474 TCTTCCTTTCCTTTATGTAGGTGC 58.503 41.667 0.00 0.00 36.63 5.01
289 290 5.250774 TCTTCCTTTCCTTTATGTAGGTGCT 59.749 40.000 0.00 0.00 36.63 4.40
290 291 5.099042 TCCTTTCCTTTATGTAGGTGCTC 57.901 43.478 0.00 0.00 36.63 4.26
291 292 4.080526 TCCTTTCCTTTATGTAGGTGCTCC 60.081 45.833 0.00 0.00 36.63 4.70
293 294 4.755266 TTCCTTTATGTAGGTGCTCCTC 57.245 45.455 11.38 4.09 43.94 3.71
294 295 3.995636 TCCTTTATGTAGGTGCTCCTCT 58.004 45.455 11.38 0.24 43.94 3.69
295 296 4.362677 TCCTTTATGTAGGTGCTCCTCTT 58.637 43.478 11.38 4.58 43.94 2.85
296 297 4.783227 TCCTTTATGTAGGTGCTCCTCTTT 59.217 41.667 11.38 0.00 43.94 2.52
297 298 5.250774 TCCTTTATGTAGGTGCTCCTCTTTT 59.749 40.000 11.38 0.00 43.94 2.27
298 299 5.946377 CCTTTATGTAGGTGCTCCTCTTTTT 59.054 40.000 11.38 0.00 43.94 1.94
299 300 7.037873 TCCTTTATGTAGGTGCTCCTCTTTTTA 60.038 37.037 11.38 0.00 43.94 1.52
300 301 7.610305 CCTTTATGTAGGTGCTCCTCTTTTTAA 59.390 37.037 11.38 1.72 43.94 1.52
301 302 9.178758 CTTTATGTAGGTGCTCCTCTTTTTAAT 57.821 33.333 11.38 0.00 43.94 1.40
302 303 9.528489 TTTATGTAGGTGCTCCTCTTTTTAATT 57.472 29.630 11.38 0.00 43.94 1.40
303 304 9.528489 TTATGTAGGTGCTCCTCTTTTTAATTT 57.472 29.630 11.38 0.00 43.94 1.82
304 305 7.448748 TGTAGGTGCTCCTCTTTTTAATTTC 57.551 36.000 11.38 0.00 43.94 2.17
305 306 5.984695 AGGTGCTCCTCTTTTTAATTTCC 57.015 39.130 0.18 0.00 40.58 3.13
306 307 4.772624 AGGTGCTCCTCTTTTTAATTTCCC 59.227 41.667 0.18 0.00 40.58 3.97
307 308 4.772624 GGTGCTCCTCTTTTTAATTTCCCT 59.227 41.667 0.00 0.00 0.00 4.20
308 309 5.105716 GGTGCTCCTCTTTTTAATTTCCCTC 60.106 44.000 0.00 0.00 0.00 4.30
309 310 5.712446 GTGCTCCTCTTTTTAATTTCCCTCT 59.288 40.000 0.00 0.00 0.00 3.69
310 311 5.946377 TGCTCCTCTTTTTAATTTCCCTCTC 59.054 40.000 0.00 0.00 0.00 3.20
311 312 5.946377 GCTCCTCTTTTTAATTTCCCTCTCA 59.054 40.000 0.00 0.00 0.00 3.27
312 313 6.605194 GCTCCTCTTTTTAATTTCCCTCTCAT 59.395 38.462 0.00 0.00 0.00 2.90
343 344 6.553852 AGATGTGTATAGTCCCTTTTCGGTAT 59.446 38.462 0.00 0.00 0.00 2.73
376 378 4.871933 ATAAGGGGTTTTCTGCACTTTG 57.128 40.909 0.00 0.00 0.00 2.77
377 379 2.452600 AGGGGTTTTCTGCACTTTGA 57.547 45.000 0.00 0.00 0.00 2.69
380 382 2.365293 GGGGTTTTCTGCACTTTGACAT 59.635 45.455 0.00 0.00 0.00 3.06
438 440 6.903883 ATACTAGTTGCTGTTTATCCAACG 57.096 37.500 0.00 0.00 42.60 4.10
455 457 4.707934 TCCAACGTGGTATCAGATGTTAGA 59.292 41.667 0.00 0.00 39.03 2.10
469 471 4.171841 AGATGTTAGATTCCTCCCTCTCCT 59.828 45.833 0.00 0.00 0.00 3.69
497 499 1.472376 GCAATTCCGTGCTAGCTCTCT 60.472 52.381 17.23 0.00 41.51 3.10
522 524 1.434696 GATTCGCTCCGTCCCGTTA 59.565 57.895 0.00 0.00 0.00 3.18
593 595 3.382832 CTGCCCGGTTCTCCTCGT 61.383 66.667 0.00 0.00 0.00 4.18
602 604 0.458025 GTTCTCCTCGTCGCGGATTT 60.458 55.000 6.13 0.00 0.00 2.17
625 627 2.579201 GGCAGGCTCAGTCGCTTA 59.421 61.111 0.00 0.00 0.00 3.09
630 632 1.226974 GGCTCAGTCGCTTATCGCA 60.227 57.895 0.00 0.00 39.08 5.10
631 633 1.211818 GGCTCAGTCGCTTATCGCAG 61.212 60.000 0.00 0.00 39.08 5.18
632 634 0.248661 GCTCAGTCGCTTATCGCAGA 60.249 55.000 0.00 0.00 45.75 4.26
633 635 1.799181 GCTCAGTCGCTTATCGCAGAA 60.799 52.381 0.00 0.00 43.58 3.02
640 672 1.583054 GCTTATCGCAGAAATCCGGT 58.417 50.000 0.00 0.00 43.58 5.28
643 675 1.026584 TATCGCAGAAATCCGGTCGA 58.973 50.000 0.00 1.00 43.58 4.20
698 833 3.515286 CCGCTCGTCCGCCTCTTA 61.515 66.667 0.00 0.00 0.00 2.10
699 834 2.722487 CGCTCGTCCGCCTCTTAT 59.278 61.111 0.00 0.00 0.00 1.73
700 835 1.370657 CGCTCGTCCGCCTCTTATC 60.371 63.158 0.00 0.00 0.00 1.75
701 836 1.734137 GCTCGTCCGCCTCTTATCA 59.266 57.895 0.00 0.00 0.00 2.15
704 938 0.745486 TCGTCCGCCTCTTATCACGA 60.745 55.000 0.00 0.00 34.08 4.35
841 1125 4.737177 GGGGCTGCTGCTGCTCTT 62.737 66.667 26.93 0.00 40.48 2.85
845 1129 1.101331 GGCTGCTGCTGCTCTTTATT 58.899 50.000 26.79 0.00 40.48 1.40
877 1161 4.704833 GGCCTCGTTCCAGCAGCA 62.705 66.667 0.00 0.00 0.00 4.41
878 1162 2.669569 GCCTCGTTCCAGCAGCAA 60.670 61.111 0.00 0.00 0.00 3.91
1011 1357 2.476854 GCAAATCAGCATGTCTTCGTCC 60.477 50.000 0.00 0.00 37.40 4.79
1101 1447 2.279186 CGTATCCACATGCGCGGA 60.279 61.111 8.83 5.00 31.00 5.54
1110 1456 0.884704 ACATGCGCGGACTTCTGTTT 60.885 50.000 8.83 0.00 0.00 2.83
1358 1704 1.669265 CAATGATGATGCTCGTGCTGT 59.331 47.619 11.19 0.00 40.48 4.40
1435 1781 1.968017 ACTGTTGCAGCGATGTGGG 60.968 57.895 1.22 0.00 34.37 4.61
1449 1795 1.951209 TGTGGGCCTATCTCTGTCAA 58.049 50.000 4.53 0.00 0.00 3.18
1458 1804 4.499865 GCCTATCTCTGTCAACGCTATCAA 60.500 45.833 0.00 0.00 0.00 2.57
1468 1816 1.264749 ACGCTATCAACCCTCTGGCA 61.265 55.000 0.00 0.00 33.59 4.92
1526 1874 0.392193 CTTCAGCAGGATGGCTCGTT 60.392 55.000 0.00 0.00 43.68 3.85
1647 1995 3.322254 GGTCTGACTTGGAGTTTCAGAGA 59.678 47.826 7.85 0.00 44.97 3.10
1814 2162 1.600636 CTTCCGTTCTTGCTGCCCA 60.601 57.895 0.00 0.00 0.00 5.36
1826 2174 3.640257 CTGCCCATGCTCCTGTGCT 62.640 63.158 0.00 0.00 38.71 4.40
1827 2175 2.827642 GCCCATGCTCCTGTGCTC 60.828 66.667 0.00 0.00 33.53 4.26
1948 2894 1.548357 CCAGGTCACCCAGAGTCAGG 61.548 65.000 0.00 0.00 0.00 3.86
1971 2917 2.100749 TGTCACAAGAAGCGAAGAGACA 59.899 45.455 0.00 0.00 32.91 3.41
2092 3102 1.446272 CTTCCTCGACGGGTTCTGC 60.446 63.158 0.00 0.00 0.00 4.26
2121 3134 4.704833 CAGCCACCACCACTCCGG 62.705 72.222 0.00 0.00 42.50 5.14
2448 3468 0.898326 TCGCACTCAGGCTCTGGTTA 60.898 55.000 2.86 0.00 31.51 2.85
2461 3482 1.841302 CTGGTTAGTGCTGGCCCTCA 61.841 60.000 0.00 0.00 0.00 3.86
2558 3963 0.327259 ATGCTCTTGCTGCCTCTTCA 59.673 50.000 0.00 0.00 40.48 3.02
2564 3969 0.037160 TTGCTGCCTCTTCATCTGCA 59.963 50.000 0.00 0.00 33.84 4.41
2567 3972 1.746171 GCTGCCTCTTCATCTGCATCA 60.746 52.381 0.00 0.00 32.53 3.07
2740 4252 1.756430 AGCGAGTCTGTATCTCAGCA 58.244 50.000 0.00 0.00 43.32 4.41
2774 4286 2.019984 GTTCATTCTGATGTCTGGGGC 58.980 52.381 0.00 0.00 34.77 5.80
2957 5117 2.292569 TCGTACTTTTCGTGCTGACTCT 59.707 45.455 0.00 0.00 0.00 3.24
2961 5121 2.035961 ACTTTTCGTGCTGACTCTGCTA 59.964 45.455 9.11 0.00 0.00 3.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 8.199449 CCATTGTCTACCTTATGCATTCAAAAT 58.801 33.333 3.54 0.00 0.00 1.82
103 104 1.555967 GCCCAAAAGGTGCATAAGGA 58.444 50.000 0.00 0.00 38.26 3.36
104 105 0.536724 GGCCCAAAAGGTGCATAAGG 59.463 55.000 0.00 0.00 38.26 2.69
105 106 0.536724 GGGCCCAAAAGGTGCATAAG 59.463 55.000 19.95 0.00 38.26 1.73
106 107 0.907230 GGGGCCCAAAAGGTGCATAA 60.907 55.000 26.86 0.00 38.26 1.90
107 108 1.305718 GGGGCCCAAAAGGTGCATA 60.306 57.895 26.86 0.00 38.26 3.14
108 109 2.607442 GGGGCCCAAAAGGTGCAT 60.607 61.111 26.86 0.00 38.26 3.96
109 110 4.952102 GGGGGCCCAAAAGGTGCA 62.952 66.667 26.86 0.00 38.26 4.57
123 124 1.063190 GGGGTCTATCCTTTTTGGGGG 60.063 57.143 0.00 0.00 36.20 5.40
124 125 1.930204 AGGGGTCTATCCTTTTTGGGG 59.070 52.381 0.00 0.00 36.20 4.96
125 126 4.168088 ACATAGGGGTCTATCCTTTTTGGG 59.832 45.833 0.00 0.00 34.16 4.12
126 127 5.388599 ACATAGGGGTCTATCCTTTTTGG 57.611 43.478 0.00 0.00 34.16 3.28
127 128 8.053355 ACTTAACATAGGGGTCTATCCTTTTTG 58.947 37.037 0.00 0.00 34.16 2.44
128 129 8.053355 CACTTAACATAGGGGTCTATCCTTTTT 58.947 37.037 0.00 0.00 34.16 1.94
129 130 7.404980 TCACTTAACATAGGGGTCTATCCTTTT 59.595 37.037 0.00 0.00 34.16 2.27
130 131 6.906901 TCACTTAACATAGGGGTCTATCCTTT 59.093 38.462 0.00 0.00 34.16 3.11
131 132 6.449956 TCACTTAACATAGGGGTCTATCCTT 58.550 40.000 0.00 0.00 34.16 3.36
132 133 6.039415 TCACTTAACATAGGGGTCTATCCT 57.961 41.667 0.00 0.00 34.16 3.24
133 134 6.553852 TCTTCACTTAACATAGGGGTCTATCC 59.446 42.308 0.00 0.00 34.16 2.59
134 135 7.598759 TCTTCACTTAACATAGGGGTCTATC 57.401 40.000 0.00 0.00 34.16 2.08
135 136 7.569111 ACATCTTCACTTAACATAGGGGTCTAT 59.431 37.037 0.00 0.00 36.68 1.98
136 137 6.901300 ACATCTTCACTTAACATAGGGGTCTA 59.099 38.462 0.00 0.00 0.00 2.59
137 138 5.726793 ACATCTTCACTTAACATAGGGGTCT 59.273 40.000 0.00 0.00 0.00 3.85
138 139 5.990668 ACATCTTCACTTAACATAGGGGTC 58.009 41.667 0.00 0.00 0.00 4.46
139 140 5.487488 TGACATCTTCACTTAACATAGGGGT 59.513 40.000 0.00 0.00 0.00 4.95
140 141 5.989477 TGACATCTTCACTTAACATAGGGG 58.011 41.667 0.00 0.00 0.00 4.79
141 142 6.878317 TCTGACATCTTCACTTAACATAGGG 58.122 40.000 0.00 0.00 0.00 3.53
142 143 8.777865 TTTCTGACATCTTCACTTAACATAGG 57.222 34.615 0.00 0.00 0.00 2.57
144 145 9.778741 AGTTTTCTGACATCTTCACTTAACATA 57.221 29.630 0.00 0.00 0.00 2.29
145 146 8.682936 AGTTTTCTGACATCTTCACTTAACAT 57.317 30.769 0.00 0.00 0.00 2.71
146 147 9.607988 TTAGTTTTCTGACATCTTCACTTAACA 57.392 29.630 0.00 0.00 0.00 2.41
167 168 9.691362 CCATTGCAACAGTACTAATTTTTAGTT 57.309 29.630 0.00 0.00 0.00 2.24
168 169 9.073475 TCCATTGCAACAGTACTAATTTTTAGT 57.927 29.630 0.00 5.36 0.00 2.24
169 170 9.906660 TTCCATTGCAACAGTACTAATTTTTAG 57.093 29.630 0.00 0.00 0.00 1.85
170 171 9.685828 GTTCCATTGCAACAGTACTAATTTTTA 57.314 29.630 0.00 0.00 0.00 1.52
171 172 7.655732 GGTTCCATTGCAACAGTACTAATTTTT 59.344 33.333 0.00 0.00 0.00 1.94
172 173 7.015195 AGGTTCCATTGCAACAGTACTAATTTT 59.985 33.333 0.00 0.00 0.00 1.82
173 174 6.493458 AGGTTCCATTGCAACAGTACTAATTT 59.507 34.615 0.00 0.00 0.00 1.82
174 175 6.010219 AGGTTCCATTGCAACAGTACTAATT 58.990 36.000 0.00 0.00 0.00 1.40
175 176 5.570320 AGGTTCCATTGCAACAGTACTAAT 58.430 37.500 0.00 0.00 0.00 1.73
176 177 4.980573 AGGTTCCATTGCAACAGTACTAA 58.019 39.130 0.00 0.00 0.00 2.24
177 178 4.634012 AGGTTCCATTGCAACAGTACTA 57.366 40.909 0.00 0.00 0.00 1.82
178 179 3.508845 AGGTTCCATTGCAACAGTACT 57.491 42.857 0.00 0.00 0.00 2.73
179 180 3.689649 CCTAGGTTCCATTGCAACAGTAC 59.310 47.826 0.00 0.00 0.00 2.73
180 181 3.585289 TCCTAGGTTCCATTGCAACAGTA 59.415 43.478 9.08 0.00 0.00 2.74
181 182 2.375174 TCCTAGGTTCCATTGCAACAGT 59.625 45.455 9.08 0.00 0.00 3.55
182 183 2.749621 GTCCTAGGTTCCATTGCAACAG 59.250 50.000 9.08 0.00 0.00 3.16
183 184 2.375174 AGTCCTAGGTTCCATTGCAACA 59.625 45.455 9.08 0.00 0.00 3.33
184 185 3.010420 GAGTCCTAGGTTCCATTGCAAC 58.990 50.000 9.08 0.00 0.00 4.17
185 186 2.912956 AGAGTCCTAGGTTCCATTGCAA 59.087 45.455 9.08 0.00 0.00 4.08
186 187 2.551270 AGAGTCCTAGGTTCCATTGCA 58.449 47.619 9.08 0.00 0.00 4.08
187 188 3.198853 AGAAGAGTCCTAGGTTCCATTGC 59.801 47.826 9.08 0.00 0.00 3.56
188 189 4.764172 CAGAAGAGTCCTAGGTTCCATTG 58.236 47.826 9.08 3.49 0.00 2.82
189 190 3.198853 GCAGAAGAGTCCTAGGTTCCATT 59.801 47.826 9.08 0.00 0.00 3.16
190 191 2.769095 GCAGAAGAGTCCTAGGTTCCAT 59.231 50.000 9.08 0.70 0.00 3.41
191 192 2.180276 GCAGAAGAGTCCTAGGTTCCA 58.820 52.381 9.08 0.00 0.00 3.53
192 193 1.483004 GGCAGAAGAGTCCTAGGTTCC 59.517 57.143 9.08 0.00 0.00 3.62
193 194 1.135333 CGGCAGAAGAGTCCTAGGTTC 59.865 57.143 9.08 8.23 0.00 3.62
194 195 1.187087 CGGCAGAAGAGTCCTAGGTT 58.813 55.000 9.08 0.00 0.00 3.50
195 196 0.684805 CCGGCAGAAGAGTCCTAGGT 60.685 60.000 9.08 0.00 0.00 3.08
196 197 0.395862 TCCGGCAGAAGAGTCCTAGG 60.396 60.000 0.82 0.82 0.00 3.02
197 198 1.698506 ATCCGGCAGAAGAGTCCTAG 58.301 55.000 0.00 0.00 0.00 3.02
198 199 1.757118 CAATCCGGCAGAAGAGTCCTA 59.243 52.381 0.00 0.00 0.00 2.94
199 200 0.539051 CAATCCGGCAGAAGAGTCCT 59.461 55.000 0.00 0.00 0.00 3.85
200 201 0.250513 ACAATCCGGCAGAAGAGTCC 59.749 55.000 0.00 0.00 0.00 3.85
201 202 1.066858 TGACAATCCGGCAGAAGAGTC 60.067 52.381 0.00 0.00 0.00 3.36
202 203 0.976641 TGACAATCCGGCAGAAGAGT 59.023 50.000 0.00 0.00 0.00 3.24
203 204 2.322355 ATGACAATCCGGCAGAAGAG 57.678 50.000 0.00 0.00 0.00 2.85
204 205 2.358957 CAATGACAATCCGGCAGAAGA 58.641 47.619 0.00 0.00 0.00 2.87
205 206 1.402968 CCAATGACAATCCGGCAGAAG 59.597 52.381 0.00 0.00 0.00 2.85
206 207 1.271871 ACCAATGACAATCCGGCAGAA 60.272 47.619 0.00 0.00 0.00 3.02
207 208 0.327924 ACCAATGACAATCCGGCAGA 59.672 50.000 0.00 0.00 0.00 4.26
208 209 1.670811 GTACCAATGACAATCCGGCAG 59.329 52.381 0.00 0.00 0.00 4.85
209 210 1.280710 AGTACCAATGACAATCCGGCA 59.719 47.619 0.00 0.00 0.00 5.69
210 211 2.038387 AGTACCAATGACAATCCGGC 57.962 50.000 0.00 0.00 0.00 6.13
211 212 4.261801 AGAAAGTACCAATGACAATCCGG 58.738 43.478 0.00 0.00 0.00 5.14
212 213 6.538742 ACATAGAAAGTACCAATGACAATCCG 59.461 38.462 0.00 0.00 0.00 4.18
213 214 7.679638 GCACATAGAAAGTACCAATGACAATCC 60.680 40.741 0.00 0.00 0.00 3.01
214 215 7.148255 TGCACATAGAAAGTACCAATGACAATC 60.148 37.037 0.00 0.00 0.00 2.67
215 216 6.658816 TGCACATAGAAAGTACCAATGACAAT 59.341 34.615 0.00 0.00 0.00 2.71
216 217 6.000840 TGCACATAGAAAGTACCAATGACAA 58.999 36.000 0.00 0.00 0.00 3.18
217 218 5.555966 TGCACATAGAAAGTACCAATGACA 58.444 37.500 0.00 0.00 0.00 3.58
218 219 6.149474 AGTTGCACATAGAAAGTACCAATGAC 59.851 38.462 0.00 0.00 0.00 3.06
219 220 6.149308 CAGTTGCACATAGAAAGTACCAATGA 59.851 38.462 0.00 0.00 0.00 2.57
220 221 6.072508 ACAGTTGCACATAGAAAGTACCAATG 60.073 38.462 0.00 0.00 0.00 2.82
221 222 6.003950 ACAGTTGCACATAGAAAGTACCAAT 58.996 36.000 0.00 0.00 0.00 3.16
222 223 5.373222 ACAGTTGCACATAGAAAGTACCAA 58.627 37.500 0.00 0.00 0.00 3.67
223 224 4.968259 ACAGTTGCACATAGAAAGTACCA 58.032 39.130 0.00 0.00 0.00 3.25
224 225 5.941948 AACAGTTGCACATAGAAAGTACC 57.058 39.130 0.00 0.00 0.00 3.34
249 250 9.025041 GGAAAGGAAGATGATTAAAGGAAGAAA 57.975 33.333 0.00 0.00 0.00 2.52
250 251 8.394040 AGGAAAGGAAGATGATTAAAGGAAGAA 58.606 33.333 0.00 0.00 0.00 2.52
251 252 7.933223 AGGAAAGGAAGATGATTAAAGGAAGA 58.067 34.615 0.00 0.00 0.00 2.87
252 253 8.586879 AAGGAAAGGAAGATGATTAAAGGAAG 57.413 34.615 0.00 0.00 0.00 3.46
253 254 8.956446 AAAGGAAAGGAAGATGATTAAAGGAA 57.044 30.769 0.00 0.00 0.00 3.36
260 261 8.560903 ACCTACATAAAGGAAAGGAAGATGATT 58.439 33.333 0.00 0.00 39.15 2.57
261 262 7.995488 CACCTACATAAAGGAAAGGAAGATGAT 59.005 37.037 0.00 0.00 39.15 2.45
262 263 7.338710 CACCTACATAAAGGAAAGGAAGATGA 58.661 38.462 0.00 0.00 39.15 2.92
263 264 6.038714 GCACCTACATAAAGGAAAGGAAGATG 59.961 42.308 0.00 0.00 39.15 2.90
264 265 6.069381 AGCACCTACATAAAGGAAAGGAAGAT 60.069 38.462 0.00 0.00 39.15 2.40
265 266 5.250774 AGCACCTACATAAAGGAAAGGAAGA 59.749 40.000 0.00 0.00 39.15 2.87
266 267 5.501156 AGCACCTACATAAAGGAAAGGAAG 58.499 41.667 0.00 0.00 39.15 3.46
267 268 5.497474 GAGCACCTACATAAAGGAAAGGAA 58.503 41.667 0.00 0.00 39.15 3.36
268 269 4.080526 GGAGCACCTACATAAAGGAAAGGA 60.081 45.833 0.00 0.00 39.15 3.36
269 270 4.080299 AGGAGCACCTACATAAAGGAAAGG 60.080 45.833 0.00 0.00 45.83 3.11
270 271 5.104259 AGGAGCACCTACATAAAGGAAAG 57.896 43.478 0.00 0.00 45.83 2.62
284 285 4.772624 AGGGAAATTAAAAAGAGGAGCACC 59.227 41.667 0.00 0.00 0.00 5.01
285 286 5.712446 AGAGGGAAATTAAAAAGAGGAGCAC 59.288 40.000 0.00 0.00 0.00 4.40
286 287 5.892348 AGAGGGAAATTAAAAAGAGGAGCA 58.108 37.500 0.00 0.00 0.00 4.26
287 288 5.946377 TGAGAGGGAAATTAAAAAGAGGAGC 59.054 40.000 0.00 0.00 0.00 4.70
288 289 8.052141 AGATGAGAGGGAAATTAAAAAGAGGAG 58.948 37.037 0.00 0.00 0.00 3.69
289 290 7.831193 CAGATGAGAGGGAAATTAAAAAGAGGA 59.169 37.037 0.00 0.00 0.00 3.71
290 291 7.613411 ACAGATGAGAGGGAAATTAAAAAGAGG 59.387 37.037 0.00 0.00 0.00 3.69
291 292 8.572855 ACAGATGAGAGGGAAATTAAAAAGAG 57.427 34.615 0.00 0.00 0.00 2.85
292 293 8.940397 AACAGATGAGAGGGAAATTAAAAAGA 57.060 30.769 0.00 0.00 0.00 2.52
308 309 7.450014 AGGGACTATACACATCTAACAGATGAG 59.550 40.741 20.16 15.29 46.68 2.90
309 310 7.298374 AGGGACTATACACATCTAACAGATGA 58.702 38.462 20.16 1.59 46.68 2.92
311 312 8.554490 AAAGGGACTATACACATCTAACAGAT 57.446 34.615 0.00 0.00 38.49 2.90
312 313 7.973048 AAAGGGACTATACACATCTAACAGA 57.027 36.000 0.00 0.00 38.49 3.41
362 364 6.208644 ACATGTATGTCAAAGTGCAGAAAAC 58.791 36.000 0.00 0.00 35.87 2.43
376 378 8.792830 AAGGCCATTACATATACATGTATGTC 57.207 34.615 25.48 9.78 44.99 3.06
377 379 9.013229 CAAAGGCCATTACATATACATGTATGT 57.987 33.333 25.48 20.69 44.99 2.29
380 382 6.432783 GCCAAAGGCCATTACATATACATGTA 59.567 38.462 8.27 8.27 42.41 2.29
412 414 7.903431 CGTTGGATAAACAGCAACTAGTATTTC 59.097 37.037 0.00 0.00 38.84 2.17
438 440 6.459923 GGAGGAATCTAACATCTGATACCAC 58.540 44.000 0.00 0.00 0.00 4.16
455 457 1.333636 CGTGCAGGAGAGGGAGGAAT 61.334 60.000 0.00 0.00 0.00 3.01
481 483 0.818296 GGAAGAGAGCTAGCACGGAA 59.182 55.000 18.83 0.00 0.00 4.30
497 499 3.845259 CGGAGCGAATCGGGGGAA 61.845 66.667 4.35 0.00 0.00 3.97
585 587 1.138883 CAAATCCGCGACGAGGAGA 59.861 57.895 24.50 3.90 41.66 3.71
625 627 0.249073 CTCGACCGGATTTCTGCGAT 60.249 55.000 9.46 0.00 38.69 4.58
630 632 1.404315 GCAAGTCTCGACCGGATTTCT 60.404 52.381 9.46 0.00 0.00 2.52
631 633 1.000145 GCAAGTCTCGACCGGATTTC 59.000 55.000 9.46 0.00 0.00 2.17
632 634 0.608640 AGCAAGTCTCGACCGGATTT 59.391 50.000 9.46 0.00 0.00 2.17
633 635 0.173708 GAGCAAGTCTCGACCGGATT 59.826 55.000 9.46 0.00 31.20 3.01
662 797 4.312152 AAGGAGGACCCCGGTCGT 62.312 66.667 8.77 8.77 45.41 4.34
669 804 4.475135 GAGCGGCAAGGAGGACCC 62.475 72.222 1.45 0.00 36.73 4.46
691 826 1.784525 CCGGATTCGTGATAAGAGGC 58.215 55.000 0.00 0.00 33.95 4.70
694 829 0.031585 CGGCCGGATTCGTGATAAGA 59.968 55.000 20.10 0.00 33.95 2.10
695 830 0.944311 CCGGCCGGATTCGTGATAAG 60.944 60.000 41.82 6.56 37.50 1.73
696 831 1.068417 CCGGCCGGATTCGTGATAA 59.932 57.895 41.82 0.00 37.50 1.75
697 832 2.732016 CCGGCCGGATTCGTGATA 59.268 61.111 41.82 0.00 37.50 2.15
698 833 4.235762 CCCGGCCGGATTCGTGAT 62.236 66.667 45.44 0.00 37.50 3.06
747 981 2.192979 GGATCCAGCGGATGCCAA 59.807 61.111 6.95 0.00 43.27 4.52
824 1058 2.826777 TAAAGAGCAGCAGCAGCCCC 62.827 60.000 6.10 0.00 45.49 5.80
877 1161 4.140599 CAGCGCTCGAGGAGGCTT 62.141 66.667 15.58 0.00 35.28 4.35
900 1184 4.717629 TCACGAGCAACGCGAGGG 62.718 66.667 15.93 1.96 46.94 4.30
938 1222 1.595093 GAACACAAGGGGCCCGAATG 61.595 60.000 18.95 19.68 0.00 2.67
939 1223 1.304134 GAACACAAGGGGCCCGAAT 60.304 57.895 18.95 4.59 0.00 3.34
1011 1357 1.869754 CGAGGAACATCCACATAGCCG 60.870 57.143 0.00 0.00 39.61 5.52
1101 1447 3.053619 AGAGAACACCCCAAAACAGAAGT 60.054 43.478 0.00 0.00 0.00 3.01
1110 1456 1.761174 GCCAGAGAGAACACCCCAA 59.239 57.895 0.00 0.00 0.00 4.12
1195 1541 0.392729 GCCTGAGAAGCATCAGCAGT 60.393 55.000 7.81 0.00 44.47 4.40
1358 1704 1.005748 CTCGCAGTGAGGACAGCAA 60.006 57.895 2.68 0.00 41.29 3.91
1435 1781 3.004839 TGATAGCGTTGACAGAGATAGGC 59.995 47.826 0.00 0.00 0.00 3.93
1449 1795 1.264749 TGCCAGAGGGTTGATAGCGT 61.265 55.000 0.00 0.00 36.17 5.07
1458 1804 1.516110 ATAGAGCATTGCCAGAGGGT 58.484 50.000 4.70 0.00 36.17 4.34
1468 1816 5.242838 GCACTACAGAGAGGTATAGAGCATT 59.757 44.000 0.00 0.00 33.20 3.56
1517 1865 2.783135 ACTCATCAACAAACGAGCCAT 58.217 42.857 0.00 0.00 0.00 4.40
1520 1868 4.686554 AGTAGAACTCATCAACAAACGAGC 59.313 41.667 0.00 0.00 0.00 5.03
1647 1995 4.404073 AGGCGAGATAAGAACTCATGAACT 59.596 41.667 0.00 0.00 34.47 3.01
1752 2100 3.753434 AGGCGTGTCTCCTCAGCG 61.753 66.667 0.00 0.00 0.00 5.18
1814 2162 1.221293 GCAGAGAGCACAGGAGCAT 59.779 57.895 0.00 0.00 44.79 3.79
1826 2174 0.972134 CAGAAGTGGTGGAGCAGAGA 59.028 55.000 0.00 0.00 0.00 3.10
1827 2175 0.673022 GCAGAAGTGGTGGAGCAGAG 60.673 60.000 0.00 0.00 0.00 3.35
1948 2894 3.060205 GTCTCTTCGCTTCTTGTGACAAC 60.060 47.826 0.00 0.00 34.56 3.32
2362 3382 3.181434 ACCAGAATCAGTAAGTTGGGCAA 60.181 43.478 0.00 0.00 0.00 4.52
2461 3482 3.753434 CCTCAGACTCACGGCGCT 61.753 66.667 6.90 0.00 0.00 5.92
2564 3969 1.064240 TGATGCCACTGCTGGAATGAT 60.064 47.619 0.00 0.00 35.63 2.45
2567 3972 1.688772 GATGATGCCACTGCTGGAAT 58.311 50.000 0.00 0.00 38.79 3.01
2774 4286 0.253044 TCGAATCAAAGGGAGCAGGG 59.747 55.000 0.00 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.