Multiple sequence alignment - TraesCS6B01G352200

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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 TraesCS6B01G352200 chr6B 100.000 2879 0 0 1 2879 617972926 617975804 0.000000e+00 5317.0
1 TraesCS6B01G352200 chr6B 93.252 1882 126 1 999 2879 706615656 706617537 0.000000e+00 2771.0
2 TraesCS6B01G352200 chr6B 87.251 251 27 4 309 557 387134446 387134693 6.070000e-72 281.0
3 TraesCS6B01G352200 chr6B 93.011 186 8 4 308 490 236409018 236408835 1.700000e-67 267.0
4 TraesCS6B01G352200 chr6B 87.678 211 19 6 309 516 642965352 642965558 3.710000e-59 239.0
5 TraesCS6B01G352200 chr2B 96.813 2573 76 4 308 2879 675532434 675529867 0.000000e+00 4292.0
6 TraesCS6B01G352200 chr2B 91.662 1919 156 4 963 2879 771411040 771409124 0.000000e+00 2654.0
7 TraesCS6B01G352200 chr3B 93.804 2324 111 12 563 2879 727150780 727148483 0.000000e+00 3463.0
8 TraesCS6B01G352200 chr3B 95.000 220 10 1 87 306 201516898 201517116 7.640000e-91 344.0
9 TraesCS6B01G352200 chr2A 93.411 1882 121 3 1000 2879 16072558 16070678 0.000000e+00 2785.0
10 TraesCS6B01G352200 chr2A 87.251 251 26 6 309 557 109577084 109577330 6.070000e-72 281.0
11 TraesCS6B01G352200 chr7B 93.140 1895 129 1 986 2879 145705124 145703230 0.000000e+00 2778.0
12 TraesCS6B01G352200 chr4B 92.320 1888 142 2 995 2879 35246391 35244504 0.000000e+00 2680.0
13 TraesCS6B01G352200 chr1B 92.340 1880 143 1 1001 2879 341520038 341518159 0.000000e+00 2673.0
14 TraesCS6B01G352200 chr5D 91.654 1929 150 8 955 2879 220688343 220686422 0.000000e+00 2660.0
15 TraesCS6B01G352200 chr5D 95.928 221 8 1 87 306 560874687 560874907 9.810000e-95 357.0
16 TraesCS6B01G352200 chr5D 95.455 220 10 0 87 306 6199063 6198844 4.560000e-93 351.0
17 TraesCS6B01G352200 chr5B 93.976 249 14 1 310 557 74663420 74663668 2.710000e-100 375.0
18 TraesCS6B01G352200 chr1D 95.909 220 9 0 87 306 206075146 206074927 9.810000e-95 357.0
19 TraesCS6B01G352200 chr1D 95.455 220 10 0 87 306 254500217 254500436 4.560000e-93 351.0
20 TraesCS6B01G352200 chr1D 93.846 65 4 0 493 557 198884023 198884087 6.570000e-17 99.0
21 TraesCS6B01G352200 chr6A 95.455 220 10 0 87 306 260130553 260130334 4.560000e-93 351.0
22 TraesCS6B01G352200 chr6A 90.674 193 14 4 308 497 79276271 79276462 1.320000e-63 254.0
23 TraesCS6B01G352200 chrUn 95.000 220 10 1 87 306 439559001 439558783 7.640000e-91 344.0
24 TraesCS6B01G352200 chr7A 94.091 220 13 0 87 306 352191808 352191589 4.600000e-88 335.0
25 TraesCS6B01G352200 chr4D 94.091 220 13 0 87 306 19918711 19918930 4.600000e-88 335.0
26 TraesCS6B01G352200 chr3A 88.095 252 22 8 310 557 696251907 696251660 2.810000e-75 292.0
27 TraesCS6B01G352200 chr7D 89.231 65 7 0 493 557 98282633 98282569 6.610000e-12 82.4


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 TraesCS6B01G352200 chr6B 617972926 617975804 2878 False 5317 5317 100.000 1 2879 1 chr6B.!!$F2 2878
1 TraesCS6B01G352200 chr6B 706615656 706617537 1881 False 2771 2771 93.252 999 2879 1 chr6B.!!$F4 1880
2 TraesCS6B01G352200 chr2B 675529867 675532434 2567 True 4292 4292 96.813 308 2879 1 chr2B.!!$R1 2571
3 TraesCS6B01G352200 chr2B 771409124 771411040 1916 True 2654 2654 91.662 963 2879 1 chr2B.!!$R2 1916
4 TraesCS6B01G352200 chr3B 727148483 727150780 2297 True 3463 3463 93.804 563 2879 1 chr3B.!!$R1 2316
5 TraesCS6B01G352200 chr2A 16070678 16072558 1880 True 2785 2785 93.411 1000 2879 1 chr2A.!!$R1 1879
6 TraesCS6B01G352200 chr7B 145703230 145705124 1894 True 2778 2778 93.140 986 2879 1 chr7B.!!$R1 1893
7 TraesCS6B01G352200 chr4B 35244504 35246391 1887 True 2680 2680 92.320 995 2879 1 chr4B.!!$R1 1884
8 TraesCS6B01G352200 chr1B 341518159 341520038 1879 True 2673 2673 92.340 1001 2879 1 chr1B.!!$R1 1878
9 TraesCS6B01G352200 chr5D 220686422 220688343 1921 True 2660 2660 91.654 955 2879 1 chr5D.!!$R2 1924

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
212 213 0.108186 TGCTTGAGCCGTATGAGGTG 60.108 55.0 0.00 0.00 41.18 4.00 F
213 214 0.175760 GCTTGAGCCGTATGAGGTGA 59.824 55.0 0.00 0.00 34.31 4.02 F
1361 1367 0.530211 GATGATGCTCGAGCTGCTGT 60.530 55.0 35.27 18.73 42.66 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1100 1105 0.396556 AACCCCGCACAAAAGGAGTT 60.397 50.0 0.0 0.0 0.0 3.01 R
1582 1589 0.814457 GTGCCACAAACAACTGTCCA 59.186 50.0 0.0 0.0 0.0 4.02 R
2557 2566 0.901124 AGACGAAGAGGCAGCAAGAT 59.099 50.0 0.0 0.0 0.0 2.40 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
23 24 5.914898 AAAAATAAGCCGATAAACTGCCT 57.085 34.783 0.00 0.00 0.00 4.75
25 26 7.582667 AAAAATAAGCCGATAAACTGCCTAT 57.417 32.000 0.00 0.00 0.00 2.57
26 27 8.685838 AAAAATAAGCCGATAAACTGCCTATA 57.314 30.769 0.00 0.00 0.00 1.31
27 28 7.668525 AAATAAGCCGATAAACTGCCTATAC 57.331 36.000 0.00 0.00 0.00 1.47
28 29 4.682778 AAGCCGATAAACTGCCTATACA 57.317 40.909 0.00 0.00 0.00 2.29
29 30 4.682778 AGCCGATAAACTGCCTATACAA 57.317 40.909 0.00 0.00 0.00 2.41
30 31 5.228945 AGCCGATAAACTGCCTATACAAT 57.771 39.130 0.00 0.00 0.00 2.71
31 32 4.997395 AGCCGATAAACTGCCTATACAATG 59.003 41.667 0.00 0.00 0.00 2.82
32 33 4.994852 GCCGATAAACTGCCTATACAATGA 59.005 41.667 0.00 0.00 0.00 2.57
33 34 5.107065 GCCGATAAACTGCCTATACAATGAC 60.107 44.000 0.00 0.00 0.00 3.06
34 35 5.989168 CCGATAAACTGCCTATACAATGACA 59.011 40.000 0.00 0.00 0.00 3.58
35 36 6.481976 CCGATAAACTGCCTATACAATGACAA 59.518 38.462 0.00 0.00 0.00 3.18
36 37 7.307396 CCGATAAACTGCCTATACAATGACAAG 60.307 40.741 0.00 0.00 0.00 3.16
37 38 7.224753 CGATAAACTGCCTATACAATGACAAGT 59.775 37.037 0.00 0.00 0.00 3.16
38 39 9.542462 GATAAACTGCCTATACAATGACAAGTA 57.458 33.333 0.00 0.00 0.00 2.24
43 44 9.712305 ACTGCCTATACAATGACAAGTATATTC 57.288 33.333 10.02 7.06 33.93 1.75
44 45 9.935241 CTGCCTATACAATGACAAGTATATTCT 57.065 33.333 10.02 0.00 33.93 2.40
45 46 9.929180 TGCCTATACAATGACAAGTATATTCTC 57.071 33.333 10.02 3.86 33.93 2.87
46 47 9.929180 GCCTATACAATGACAAGTATATTCTCA 57.071 33.333 10.02 0.00 33.93 3.27
125 126 9.390795 CTTATTTGATATCTTCAAGGCAAATCG 57.609 33.333 3.98 0.00 44.90 3.34
126 127 7.572523 ATTTGATATCTTCAAGGCAAATCGA 57.427 32.000 3.98 0.00 44.90 3.59
127 128 5.991328 TGATATCTTCAAGGCAAATCGAC 57.009 39.130 3.98 0.00 0.00 4.20
128 129 4.816385 TGATATCTTCAAGGCAAATCGACC 59.184 41.667 3.98 0.00 0.00 4.79
129 130 1.821216 TCTTCAAGGCAAATCGACCC 58.179 50.000 0.00 0.00 0.00 4.46
130 131 1.073125 TCTTCAAGGCAAATCGACCCA 59.927 47.619 0.00 0.00 0.00 4.51
131 132 1.885887 CTTCAAGGCAAATCGACCCAA 59.114 47.619 0.00 0.00 0.00 4.12
132 133 2.214376 TCAAGGCAAATCGACCCAAT 57.786 45.000 0.00 0.00 0.00 3.16
133 134 2.524306 TCAAGGCAAATCGACCCAATT 58.476 42.857 0.00 0.00 0.00 2.32
134 135 2.491693 TCAAGGCAAATCGACCCAATTC 59.508 45.455 0.00 0.00 0.00 2.17
135 136 2.214376 AGGCAAATCGACCCAATTCA 57.786 45.000 0.00 0.00 0.00 2.57
136 137 2.094675 AGGCAAATCGACCCAATTCAG 58.905 47.619 0.00 0.00 0.00 3.02
137 138 1.818674 GGCAAATCGACCCAATTCAGT 59.181 47.619 0.00 0.00 0.00 3.41
138 139 2.415893 GGCAAATCGACCCAATTCAGTG 60.416 50.000 0.00 0.00 0.00 3.66
139 140 2.415893 GCAAATCGACCCAATTCAGTGG 60.416 50.000 0.00 0.00 38.51 4.00
140 141 1.463674 AATCGACCCAATTCAGTGGC 58.536 50.000 0.00 0.00 37.34 5.01
141 142 0.620556 ATCGACCCAATTCAGTGGCT 59.379 50.000 0.00 0.00 37.34 4.75
142 143 0.321564 TCGACCCAATTCAGTGGCTG 60.322 55.000 0.00 0.00 37.34 4.85
143 144 0.321564 CGACCCAATTCAGTGGCTGA 60.322 55.000 0.00 0.00 38.87 4.26
144 145 1.679944 CGACCCAATTCAGTGGCTGAT 60.680 52.381 0.00 0.00 40.39 2.90
145 146 1.747355 GACCCAATTCAGTGGCTGATG 59.253 52.381 0.00 0.00 40.39 3.07
146 147 1.355381 ACCCAATTCAGTGGCTGATGA 59.645 47.619 0.00 0.00 40.39 2.92
147 148 2.225091 ACCCAATTCAGTGGCTGATGAA 60.225 45.455 0.00 2.89 40.39 2.57
148 149 2.426024 CCCAATTCAGTGGCTGATGAAG 59.574 50.000 0.00 0.00 40.39 3.02
149 150 3.087031 CCAATTCAGTGGCTGATGAAGT 58.913 45.455 0.00 1.31 40.39 3.01
150 151 3.508793 CCAATTCAGTGGCTGATGAAGTT 59.491 43.478 0.00 0.00 40.39 2.66
151 152 4.021719 CCAATTCAGTGGCTGATGAAGTTT 60.022 41.667 0.00 0.00 40.39 2.66
152 153 5.510179 CCAATTCAGTGGCTGATGAAGTTTT 60.510 40.000 0.00 0.00 40.39 2.43
153 154 4.572985 TTCAGTGGCTGATGAAGTTTTG 57.427 40.909 0.00 0.00 40.39 2.44
154 155 3.819368 TCAGTGGCTGATGAAGTTTTGA 58.181 40.909 0.00 0.00 35.39 2.69
155 156 4.206375 TCAGTGGCTGATGAAGTTTTGAA 58.794 39.130 0.00 0.00 35.39 2.69
156 157 4.036734 TCAGTGGCTGATGAAGTTTTGAAC 59.963 41.667 0.00 0.00 35.39 3.18
157 158 3.319122 AGTGGCTGATGAAGTTTTGAACC 59.681 43.478 0.00 0.00 0.00 3.62
158 159 3.319122 GTGGCTGATGAAGTTTTGAACCT 59.681 43.478 0.00 0.00 0.00 3.50
159 160 3.960102 TGGCTGATGAAGTTTTGAACCTT 59.040 39.130 0.00 0.00 0.00 3.50
160 161 4.405358 TGGCTGATGAAGTTTTGAACCTTT 59.595 37.500 0.00 0.00 0.00 3.11
161 162 5.104982 TGGCTGATGAAGTTTTGAACCTTTT 60.105 36.000 0.00 0.00 0.00 2.27
162 163 5.817296 GGCTGATGAAGTTTTGAACCTTTTT 59.183 36.000 0.00 0.00 0.00 1.94
201 202 3.698029 TTTTTGTGTCTCTGCTTGAGC 57.302 42.857 0.00 0.00 42.38 4.26
202 203 1.597742 TTTGTGTCTCTGCTTGAGCC 58.402 50.000 0.00 0.00 42.38 4.70
203 204 0.601046 TTGTGTCTCTGCTTGAGCCG 60.601 55.000 0.00 0.00 42.38 5.52
204 205 1.005630 GTGTCTCTGCTTGAGCCGT 60.006 57.895 0.00 0.00 42.38 5.68
205 206 0.243907 GTGTCTCTGCTTGAGCCGTA 59.756 55.000 0.00 0.00 42.38 4.02
206 207 1.134965 GTGTCTCTGCTTGAGCCGTAT 60.135 52.381 0.00 0.00 42.38 3.06
207 208 1.134995 TGTCTCTGCTTGAGCCGTATG 60.135 52.381 0.00 0.00 42.38 2.39
208 209 1.135139 GTCTCTGCTTGAGCCGTATGA 59.865 52.381 0.00 0.00 42.38 2.15
209 210 1.406898 TCTCTGCTTGAGCCGTATGAG 59.593 52.381 0.00 1.69 42.38 2.90
210 211 0.461548 TCTGCTTGAGCCGTATGAGG 59.538 55.000 0.00 0.00 41.18 3.86
211 212 0.176680 CTGCTTGAGCCGTATGAGGT 59.823 55.000 0.00 0.00 41.18 3.85
212 213 0.108186 TGCTTGAGCCGTATGAGGTG 60.108 55.000 0.00 0.00 41.18 4.00
213 214 0.175760 GCTTGAGCCGTATGAGGTGA 59.824 55.000 0.00 0.00 34.31 4.02
214 215 1.405526 GCTTGAGCCGTATGAGGTGAA 60.406 52.381 0.00 0.00 34.31 3.18
215 216 2.935238 GCTTGAGCCGTATGAGGTGAAA 60.935 50.000 0.00 0.00 34.31 2.69
216 217 3.535561 CTTGAGCCGTATGAGGTGAAAT 58.464 45.455 0.00 0.00 0.00 2.17
217 218 3.627395 TGAGCCGTATGAGGTGAAATT 57.373 42.857 0.00 0.00 0.00 1.82
218 219 3.950397 TGAGCCGTATGAGGTGAAATTT 58.050 40.909 0.00 0.00 0.00 1.82
219 220 4.331968 TGAGCCGTATGAGGTGAAATTTT 58.668 39.130 0.00 0.00 0.00 1.82
220 221 4.394920 TGAGCCGTATGAGGTGAAATTTTC 59.605 41.667 2.05 2.05 0.00 2.29
221 222 4.331968 AGCCGTATGAGGTGAAATTTTCA 58.668 39.130 7.74 7.74 37.33 2.69
222 223 4.949856 AGCCGTATGAGGTGAAATTTTCAT 59.050 37.500 14.54 7.92 42.47 2.57
223 224 6.119536 AGCCGTATGAGGTGAAATTTTCATA 58.880 36.000 14.54 6.31 42.47 2.15
224 225 6.772716 AGCCGTATGAGGTGAAATTTTCATAT 59.227 34.615 14.54 6.89 42.47 1.78
225 226 7.936847 AGCCGTATGAGGTGAAATTTTCATATA 59.063 33.333 14.54 8.86 42.47 0.86
226 227 8.015658 GCCGTATGAGGTGAAATTTTCATATAC 58.984 37.037 14.54 16.51 42.47 1.47
227 228 8.221100 CCGTATGAGGTGAAATTTTCATATACG 58.779 37.037 27.66 27.66 42.47 3.06
228 229 8.221100 CGTATGAGGTGAAATTTTCATATACGG 58.779 37.037 27.36 19.09 42.47 4.02
229 230 6.371809 TGAGGTGAAATTTTCATATACGGC 57.628 37.500 14.54 0.86 42.47 5.68
230 231 6.119536 TGAGGTGAAATTTTCATATACGGCT 58.880 36.000 14.54 0.00 42.47 5.52
231 232 6.260050 TGAGGTGAAATTTTCATATACGGCTC 59.740 38.462 14.54 6.13 42.47 4.70
232 233 6.357367 AGGTGAAATTTTCATATACGGCTCT 58.643 36.000 14.54 0.00 42.47 4.09
233 234 6.828785 AGGTGAAATTTTCATATACGGCTCTT 59.171 34.615 14.54 0.00 42.47 2.85
234 235 7.990886 AGGTGAAATTTTCATATACGGCTCTTA 59.009 33.333 14.54 0.00 42.47 2.10
235 236 8.283291 GGTGAAATTTTCATATACGGCTCTTAG 58.717 37.037 14.54 0.00 42.47 2.18
236 237 9.042008 GTGAAATTTTCATATACGGCTCTTAGA 57.958 33.333 14.54 0.00 42.47 2.10
237 238 9.261180 TGAAATTTTCATATACGGCTCTTAGAG 57.739 33.333 7.74 4.63 34.08 2.43
238 239 9.477484 GAAATTTTCATATACGGCTCTTAGAGA 57.523 33.333 14.14 0.00 0.00 3.10
239 240 9.482627 AAATTTTCATATACGGCTCTTAGAGAG 57.517 33.333 14.14 8.40 45.04 3.20
240 241 6.576662 TTTCATATACGGCTCTTAGAGAGG 57.423 41.667 14.14 5.95 42.54 3.69
241 242 4.590918 TCATATACGGCTCTTAGAGAGGG 58.409 47.826 14.14 3.41 42.54 4.30
242 243 4.288887 TCATATACGGCTCTTAGAGAGGGA 59.711 45.833 14.14 0.12 42.54 4.20
243 244 2.345124 TACGGCTCTTAGAGAGGGAC 57.655 55.000 14.14 0.00 42.54 4.46
244 245 0.626916 ACGGCTCTTAGAGAGGGACT 59.373 55.000 14.14 0.00 42.54 3.85
245 246 1.006162 ACGGCTCTTAGAGAGGGACTT 59.994 52.381 14.14 0.00 42.54 3.01
246 247 1.407258 CGGCTCTTAGAGAGGGACTTG 59.593 57.143 14.14 0.00 42.54 3.16
247 248 1.760029 GGCTCTTAGAGAGGGACTTGG 59.240 57.143 14.14 0.00 42.54 3.61
248 249 1.760029 GCTCTTAGAGAGGGACTTGGG 59.240 57.143 14.14 0.00 42.54 4.12
249 250 2.890602 GCTCTTAGAGAGGGACTTGGGT 60.891 54.545 14.14 0.00 42.54 4.51
250 251 3.445987 CTCTTAGAGAGGGACTTGGGTT 58.554 50.000 2.53 0.00 41.55 4.11
251 252 4.611367 CTCTTAGAGAGGGACTTGGGTTA 58.389 47.826 2.53 0.00 41.55 2.85
252 253 4.611367 TCTTAGAGAGGGACTTGGGTTAG 58.389 47.826 0.00 0.00 41.55 2.34
253 254 4.045590 TCTTAGAGAGGGACTTGGGTTAGT 59.954 45.833 0.00 0.00 41.55 2.24
254 255 3.277416 AGAGAGGGACTTGGGTTAGTT 57.723 47.619 0.00 0.00 41.55 2.24
255 256 4.415224 AGAGAGGGACTTGGGTTAGTTA 57.585 45.455 0.00 0.00 41.55 2.24
256 257 4.095211 AGAGAGGGACTTGGGTTAGTTAC 58.905 47.826 0.00 0.00 41.55 2.50
257 258 3.179685 AGAGGGACTTGGGTTAGTTACC 58.820 50.000 0.00 0.00 43.41 2.85
258 259 3.179685 GAGGGACTTGGGTTAGTTACCT 58.820 50.000 0.00 0.00 43.60 3.08
259 260 4.046360 AGAGGGACTTGGGTTAGTTACCTA 59.954 45.833 0.00 0.00 43.60 3.08
260 261 4.967442 GAGGGACTTGGGTTAGTTACCTAT 59.033 45.833 0.00 0.00 43.60 2.57
261 262 5.356575 AGGGACTTGGGTTAGTTACCTATT 58.643 41.667 0.00 0.00 41.57 1.73
262 263 5.794289 AGGGACTTGGGTTAGTTACCTATTT 59.206 40.000 0.00 0.00 41.57 1.40
263 264 6.069789 AGGGACTTGGGTTAGTTACCTATTTC 60.070 42.308 0.00 0.00 41.57 2.17
264 265 6.296605 GGGACTTGGGTTAGTTACCTATTTCA 60.297 42.308 0.00 0.00 46.86 2.69
265 266 7.170277 GGACTTGGGTTAGTTACCTATTTCAA 58.830 38.462 0.00 0.00 46.86 2.69
266 267 7.832685 GGACTTGGGTTAGTTACCTATTTCAAT 59.167 37.037 0.00 0.00 46.86 2.57
267 268 9.895138 GACTTGGGTTAGTTACCTATTTCAATA 57.105 33.333 0.00 0.00 46.86 1.90
292 293 8.877864 AAAGTATATGATTGGTTTGAGGAACA 57.122 30.769 0.00 0.00 40.13 3.18
293 294 9.479549 AAAGTATATGATTGGTTTGAGGAACAT 57.520 29.630 0.00 0.00 40.13 2.71
294 295 8.682936 AGTATATGATTGGTTTGAGGAACATC 57.317 34.615 0.00 0.00 40.13 3.06
295 296 8.497745 AGTATATGATTGGTTTGAGGAACATCT 58.502 33.333 0.00 0.00 40.13 2.90
296 297 9.125026 GTATATGATTGGTTTGAGGAACATCTT 57.875 33.333 0.00 0.00 40.13 2.40
297 298 5.710513 TGATTGGTTTGAGGAACATCTTG 57.289 39.130 0.00 0.00 40.13 3.02
298 299 5.384336 TGATTGGTTTGAGGAACATCTTGA 58.616 37.500 0.00 0.00 40.13 3.02
299 300 5.474532 TGATTGGTTTGAGGAACATCTTGAG 59.525 40.000 0.00 0.00 40.13 3.02
300 301 4.705110 TGGTTTGAGGAACATCTTGAGA 57.295 40.909 0.00 0.00 40.13 3.27
301 302 5.246981 TGGTTTGAGGAACATCTTGAGAT 57.753 39.130 0.00 0.00 40.13 2.75
302 303 5.634118 TGGTTTGAGGAACATCTTGAGATT 58.366 37.500 0.00 0.00 40.13 2.40
303 304 5.707298 TGGTTTGAGGAACATCTTGAGATTC 59.293 40.000 0.00 0.00 40.13 2.52
304 305 5.707298 GGTTTGAGGAACATCTTGAGATTCA 59.293 40.000 0.00 0.00 40.13 2.57
305 306 6.128063 GGTTTGAGGAACATCTTGAGATTCAG 60.128 42.308 0.00 0.00 40.13 3.02
306 307 4.511527 TGAGGAACATCTTGAGATTCAGC 58.488 43.478 0.00 0.00 31.21 4.26
325 326 5.592054 TCAGCACTGTTAGATGTGTATAGC 58.408 41.667 0.00 0.00 36.63 2.97
490 491 3.114616 CTGCAACTCCGTGCTCCG 61.115 66.667 0.00 0.00 45.17 4.63
491 492 3.865929 CTGCAACTCCGTGCTCCGT 62.866 63.158 0.00 0.00 45.17 4.69
531 532 1.076533 CGTCACTTTCATCCCGTCCG 61.077 60.000 0.00 0.00 0.00 4.79
632 633 2.434884 GCTTGACTGCTGCCGCTA 60.435 61.111 0.70 0.00 36.97 4.26
669 671 1.764054 CTCCCCCGCTCATCTCCTT 60.764 63.158 0.00 0.00 0.00 3.36
713 715 2.676121 CCCATTCGGTTGCTGCCA 60.676 61.111 0.00 0.00 0.00 4.92
885 887 2.037367 CCCCTCTGGTCCTCGTCA 59.963 66.667 0.00 0.00 0.00 4.35
895 897 2.741985 CCTCGTCATTGCCGTGCA 60.742 61.111 0.00 0.00 36.47 4.57
913 915 1.152312 ACACGAGGAGGGGTGAAGT 60.152 57.895 0.00 0.00 37.58 3.01
1014 1019 2.231716 TTCTCATGTCCTCTTCGGGA 57.768 50.000 0.00 0.00 0.00 5.14
1022 1027 1.955080 GTCCTCTTCGGGATATGTCGT 59.045 52.381 0.00 0.00 37.73 4.34
1096 1101 1.538512 GCTTCATGCGCATCCATATGT 59.461 47.619 22.51 0.00 35.38 2.29
1100 1105 1.874872 CATGCGCATCCATATGTGTGA 59.125 47.619 22.51 0.00 44.04 3.58
1113 1118 3.715628 ATGTGTGAACTCCTTTTGTGC 57.284 42.857 0.00 0.00 0.00 4.57
1279 1285 3.647590 TGCTTATGATCAGCAGGTATCCA 59.352 43.478 0.09 0.00 42.49 3.41
1286 1292 6.252599 TGATCAGCAGGTATCCACTTATTT 57.747 37.500 0.00 0.00 0.00 1.40
1321 1327 3.220110 GTGTACCGGGATGATCTGTCTA 58.780 50.000 6.32 0.00 0.00 2.59
1361 1367 0.530211 GATGATGCTCGAGCTGCTGT 60.530 55.000 35.27 18.73 42.66 4.40
1582 1589 0.603975 GCGTCAGCTTGACTCCCTTT 60.604 55.000 12.45 0.00 44.85 3.11
1718 1725 2.979676 CTTGCTTGCTCGTGGCCA 60.980 61.111 0.00 0.00 40.92 5.36
1796 1803 1.687612 CTGGATTGCTGGTGGTCCT 59.312 57.895 0.00 0.00 34.23 3.85
1911 1920 2.681778 CTGAGAGGGGCCAGTCGT 60.682 66.667 4.39 0.00 0.00 4.34
2029 2038 3.044894 GGACTCCTGGATCTTCCTTGAT 58.955 50.000 0.00 0.00 37.46 2.57
2031 2040 4.080072 GGACTCCTGGATCTTCCTTGATTT 60.080 45.833 0.00 0.00 37.46 2.17
2061 2070 1.625315 CTGACCAGGACATTGTGAGGA 59.375 52.381 0.00 0.00 0.00 3.71
2084 2093 0.539051 AATGTCTCTTGGCCTCCTCG 59.461 55.000 3.32 0.00 0.00 4.63
2170 2179 6.634805 CATCTACACAGTCAGGTACATCTTT 58.365 40.000 0.00 0.00 0.00 2.52
2249 2258 4.767409 TCTTCTCTTCGACCTCTTGATTCA 59.233 41.667 0.00 0.00 0.00 2.57
2328 2337 2.893215 TTCCACTCCGTCCTTCTCTA 57.107 50.000 0.00 0.00 0.00 2.43
2338 2347 2.033550 CGTCCTTCTCTATTCCGAGTGG 59.966 54.545 0.00 0.00 32.83 4.00
2421 2430 4.529109 TGTCGTGTCATTCTTGATACCA 57.471 40.909 0.00 0.00 39.95 3.25
2557 2566 1.203441 ACTTCTGCCAGCTCCCATGA 61.203 55.000 0.00 0.00 0.00 3.07
2577 2586 1.545841 TCTTGCTGCCTCTTCGTCTA 58.454 50.000 0.00 0.00 0.00 2.59
2611 2620 3.017323 GCATCATCGCCTTGGTCG 58.983 61.111 0.00 0.00 0.00 4.79
2617 2626 1.091771 CATCGCCTTGGTCGCATCTT 61.092 55.000 0.00 0.00 0.00 2.40
2729 2738 6.403878 TGGCAAATAGACTCAGTTACCTTAC 58.596 40.000 0.00 0.00 0.00 2.34
2743 2752 6.662663 CAGTTACCTTACCCTACTAGTGAGTT 59.337 42.308 5.39 0.00 37.10 3.01
2758 2767 7.287061 ACTAGTGAGTTAGTATCTCAGCATCT 58.713 38.462 10.58 7.46 41.66 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.914898 AGGCAGTTTATCGGCTTATTTTT 57.085 34.783 0.00 0.00 37.40 1.94
2 3 7.717875 TGTATAGGCAGTTTATCGGCTTATTTT 59.282 33.333 0.00 0.00 39.33 1.82
3 4 7.221450 TGTATAGGCAGTTTATCGGCTTATTT 58.779 34.615 0.00 0.00 39.33 1.40
4 5 6.765403 TGTATAGGCAGTTTATCGGCTTATT 58.235 36.000 0.00 0.00 39.33 1.40
5 6 6.354794 TGTATAGGCAGTTTATCGGCTTAT 57.645 37.500 0.00 0.00 40.86 1.73
6 7 5.794726 TGTATAGGCAGTTTATCGGCTTA 57.205 39.130 0.00 0.00 39.09 3.09
7 8 4.682778 TGTATAGGCAGTTTATCGGCTT 57.317 40.909 0.00 0.00 39.09 4.35
8 9 4.682778 TTGTATAGGCAGTTTATCGGCT 57.317 40.909 0.00 0.00 41.51 5.52
9 10 4.994852 TCATTGTATAGGCAGTTTATCGGC 59.005 41.667 0.00 0.00 36.55 5.54
10 11 5.989168 TGTCATTGTATAGGCAGTTTATCGG 59.011 40.000 0.00 0.00 0.00 4.18
11 12 7.224753 ACTTGTCATTGTATAGGCAGTTTATCG 59.775 37.037 0.00 0.00 0.00 2.92
12 13 8.438676 ACTTGTCATTGTATAGGCAGTTTATC 57.561 34.615 0.00 0.00 0.00 1.75
17 18 9.712305 GAATATACTTGTCATTGTATAGGCAGT 57.288 33.333 10.18 0.00 35.79 4.40
18 19 9.935241 AGAATATACTTGTCATTGTATAGGCAG 57.065 33.333 10.18 0.00 35.79 4.85
19 20 9.929180 GAGAATATACTTGTCATTGTATAGGCA 57.071 33.333 10.18 0.00 35.79 4.75
20 21 9.929180 TGAGAATATACTTGTCATTGTATAGGC 57.071 33.333 10.18 6.45 35.79 3.93
104 105 5.296780 GGTCGATTTGCCTTGAAGATATCAA 59.703 40.000 5.32 0.00 45.71 2.57
105 106 4.816385 GGTCGATTTGCCTTGAAGATATCA 59.184 41.667 5.32 0.00 35.85 2.15
106 107 4.214332 GGGTCGATTTGCCTTGAAGATATC 59.786 45.833 0.00 0.00 0.00 1.63
107 108 4.137543 GGGTCGATTTGCCTTGAAGATAT 58.862 43.478 0.00 0.00 0.00 1.63
108 109 3.054728 TGGGTCGATTTGCCTTGAAGATA 60.055 43.478 0.00 0.00 0.00 1.98
109 110 2.290896 TGGGTCGATTTGCCTTGAAGAT 60.291 45.455 0.00 0.00 0.00 2.40
110 111 1.073125 TGGGTCGATTTGCCTTGAAGA 59.927 47.619 0.00 0.00 0.00 2.87
111 112 1.533625 TGGGTCGATTTGCCTTGAAG 58.466 50.000 0.00 0.00 0.00 3.02
112 113 1.988293 TTGGGTCGATTTGCCTTGAA 58.012 45.000 0.00 0.00 0.00 2.69
113 114 2.214376 ATTGGGTCGATTTGCCTTGA 57.786 45.000 0.00 0.00 0.00 3.02
114 115 2.230992 TGAATTGGGTCGATTTGCCTTG 59.769 45.455 0.00 0.00 0.00 3.61
115 116 2.493278 CTGAATTGGGTCGATTTGCCTT 59.507 45.455 0.00 0.00 0.00 4.35
116 117 2.094675 CTGAATTGGGTCGATTTGCCT 58.905 47.619 0.00 0.00 0.00 4.75
117 118 1.818674 ACTGAATTGGGTCGATTTGCC 59.181 47.619 0.00 0.00 0.00 4.52
118 119 2.415893 CCACTGAATTGGGTCGATTTGC 60.416 50.000 0.00 0.00 32.35 3.68
119 120 2.415893 GCCACTGAATTGGGTCGATTTG 60.416 50.000 0.00 0.00 37.10 2.32
120 121 1.818674 GCCACTGAATTGGGTCGATTT 59.181 47.619 0.00 0.00 37.10 2.17
121 122 1.004745 AGCCACTGAATTGGGTCGATT 59.995 47.619 0.00 0.00 44.30 3.34
122 123 0.620556 AGCCACTGAATTGGGTCGAT 59.379 50.000 0.00 0.00 44.30 3.59
123 124 0.321564 CAGCCACTGAATTGGGTCGA 60.322 55.000 0.00 0.00 44.30 4.20
124 125 0.321564 TCAGCCACTGAATTGGGTCG 60.322 55.000 0.00 0.00 44.30 4.79
125 126 1.747355 CATCAGCCACTGAATTGGGTC 59.253 52.381 0.74 0.00 44.30 4.46
127 128 2.133281 TCATCAGCCACTGAATTGGG 57.867 50.000 0.74 0.00 44.04 4.12
128 129 3.087031 ACTTCATCAGCCACTGAATTGG 58.913 45.455 0.74 0.00 44.04 3.16
129 130 4.778534 AACTTCATCAGCCACTGAATTG 57.221 40.909 0.74 0.00 44.04 2.32
130 131 5.302568 TCAAAACTTCATCAGCCACTGAATT 59.697 36.000 0.74 0.00 44.04 2.17
131 132 4.828939 TCAAAACTTCATCAGCCACTGAAT 59.171 37.500 0.74 0.00 44.04 2.57
132 133 4.206375 TCAAAACTTCATCAGCCACTGAA 58.794 39.130 0.74 0.00 44.04 3.02
133 134 3.819368 TCAAAACTTCATCAGCCACTGA 58.181 40.909 0.00 0.00 44.99 3.41
134 135 4.293415 GTTCAAAACTTCATCAGCCACTG 58.707 43.478 0.00 0.00 0.00 3.66
135 136 3.319122 GGTTCAAAACTTCATCAGCCACT 59.681 43.478 0.00 0.00 0.00 4.00
136 137 3.319122 AGGTTCAAAACTTCATCAGCCAC 59.681 43.478 0.00 0.00 0.00 5.01
137 138 3.565307 AGGTTCAAAACTTCATCAGCCA 58.435 40.909 0.00 0.00 0.00 4.75
138 139 4.590850 AAGGTTCAAAACTTCATCAGCC 57.409 40.909 0.00 0.00 0.00 4.85
139 140 6.908870 AAAAAGGTTCAAAACTTCATCAGC 57.091 33.333 0.00 0.00 0.00 4.26
191 192 0.461548 CCTCATACGGCTCAAGCAGA 59.538 55.000 9.15 0.00 44.36 4.26
192 193 0.176680 ACCTCATACGGCTCAAGCAG 59.823 55.000 4.13 2.21 44.36 4.24
193 194 0.108186 CACCTCATACGGCTCAAGCA 60.108 55.000 4.13 0.00 44.36 3.91
194 195 0.175760 TCACCTCATACGGCTCAAGC 59.824 55.000 0.00 0.00 41.14 4.01
195 196 2.672961 TTCACCTCATACGGCTCAAG 57.327 50.000 0.00 0.00 0.00 3.02
196 197 3.627395 ATTTCACCTCATACGGCTCAA 57.373 42.857 0.00 0.00 0.00 3.02
197 198 3.627395 AATTTCACCTCATACGGCTCA 57.373 42.857 0.00 0.00 0.00 4.26
198 199 4.394920 TGAAAATTTCACCTCATACGGCTC 59.605 41.667 4.03 0.00 34.08 4.70
199 200 4.331968 TGAAAATTTCACCTCATACGGCT 58.668 39.130 4.03 0.00 34.08 5.52
200 201 4.695217 TGAAAATTTCACCTCATACGGC 57.305 40.909 4.03 0.00 34.08 5.68
201 202 8.221100 CGTATATGAAAATTTCACCTCATACGG 58.779 37.037 25.80 16.77 43.48 4.02
202 203 8.221100 CCGTATATGAAAATTTCACCTCATACG 58.779 37.037 26.14 26.14 43.48 3.06
203 204 8.015658 GCCGTATATGAAAATTTCACCTCATAC 58.984 37.037 10.91 13.48 43.48 2.39
204 205 7.936847 AGCCGTATATGAAAATTTCACCTCATA 59.063 33.333 10.91 11.03 43.48 2.15
205 206 6.772716 AGCCGTATATGAAAATTTCACCTCAT 59.227 34.615 10.91 7.92 43.48 2.90
206 207 6.119536 AGCCGTATATGAAAATTTCACCTCA 58.880 36.000 10.91 0.00 43.48 3.86
207 208 6.483640 AGAGCCGTATATGAAAATTTCACCTC 59.516 38.462 10.91 8.04 43.48 3.85
208 209 6.357367 AGAGCCGTATATGAAAATTTCACCT 58.643 36.000 10.91 4.04 43.48 4.00
209 210 6.619801 AGAGCCGTATATGAAAATTTCACC 57.380 37.500 10.91 0.00 43.48 4.02
210 211 9.042008 TCTAAGAGCCGTATATGAAAATTTCAC 57.958 33.333 10.91 0.00 43.48 3.18
211 212 9.261180 CTCTAAGAGCCGTATATGAAAATTTCA 57.739 33.333 11.10 11.10 45.01 2.69
212 213 9.477484 TCTCTAAGAGCCGTATATGAAAATTTC 57.523 33.333 0.00 0.00 0.00 2.17
213 214 9.482627 CTCTCTAAGAGCCGTATATGAAAATTT 57.517 33.333 0.00 0.00 35.30 1.82
214 215 8.091449 CCTCTCTAAGAGCCGTATATGAAAATT 58.909 37.037 0.00 0.00 40.98 1.82
215 216 7.310113 CCCTCTCTAAGAGCCGTATATGAAAAT 60.310 40.741 0.00 0.00 40.98 1.82
216 217 6.015350 CCCTCTCTAAGAGCCGTATATGAAAA 60.015 42.308 0.00 0.00 40.98 2.29
217 218 5.477291 CCCTCTCTAAGAGCCGTATATGAAA 59.523 44.000 0.00 0.00 40.98 2.69
218 219 5.010933 CCCTCTCTAAGAGCCGTATATGAA 58.989 45.833 0.00 0.00 40.98 2.57
219 220 4.288887 TCCCTCTCTAAGAGCCGTATATGA 59.711 45.833 0.00 0.00 40.98 2.15
220 221 4.396790 GTCCCTCTCTAAGAGCCGTATATG 59.603 50.000 0.00 0.00 40.98 1.78
221 222 4.290196 AGTCCCTCTCTAAGAGCCGTATAT 59.710 45.833 0.00 0.00 40.98 0.86
222 223 3.651904 AGTCCCTCTCTAAGAGCCGTATA 59.348 47.826 0.00 0.00 40.98 1.47
223 224 2.444010 AGTCCCTCTCTAAGAGCCGTAT 59.556 50.000 0.00 0.00 40.98 3.06
224 225 1.845143 AGTCCCTCTCTAAGAGCCGTA 59.155 52.381 0.00 0.00 40.98 4.02
225 226 0.626916 AGTCCCTCTCTAAGAGCCGT 59.373 55.000 0.00 0.00 40.98 5.68
226 227 1.407258 CAAGTCCCTCTCTAAGAGCCG 59.593 57.143 0.00 0.00 40.98 5.52
227 228 1.760029 CCAAGTCCCTCTCTAAGAGCC 59.240 57.143 0.00 0.00 40.98 4.70
228 229 1.760029 CCCAAGTCCCTCTCTAAGAGC 59.240 57.143 0.00 0.00 40.98 4.09
229 230 3.108847 ACCCAAGTCCCTCTCTAAGAG 57.891 52.381 0.00 0.00 41.96 2.85
230 231 3.562108 AACCCAAGTCCCTCTCTAAGA 57.438 47.619 0.00 0.00 0.00 2.10
231 232 4.354662 ACTAACCCAAGTCCCTCTCTAAG 58.645 47.826 0.00 0.00 0.00 2.18
232 233 4.415224 ACTAACCCAAGTCCCTCTCTAA 57.585 45.455 0.00 0.00 0.00 2.10
233 234 4.415224 AACTAACCCAAGTCCCTCTCTA 57.585 45.455 0.00 0.00 0.00 2.43
234 235 3.277416 AACTAACCCAAGTCCCTCTCT 57.723 47.619 0.00 0.00 0.00 3.10
235 236 3.197333 GGTAACTAACCCAAGTCCCTCTC 59.803 52.174 0.00 0.00 43.16 3.20
236 237 3.179685 GGTAACTAACCCAAGTCCCTCT 58.820 50.000 0.00 0.00 43.16 3.69
237 238 3.623906 GGTAACTAACCCAAGTCCCTC 57.376 52.381 0.00 0.00 43.16 4.30
266 267 9.967451 TGTTCCTCAAACCAATCATATACTTTA 57.033 29.630 0.00 0.00 37.03 1.85
267 268 8.877864 TGTTCCTCAAACCAATCATATACTTT 57.122 30.769 0.00 0.00 37.03 2.66
268 269 9.125026 GATGTTCCTCAAACCAATCATATACTT 57.875 33.333 0.00 0.00 37.03 2.24
269 270 8.497745 AGATGTTCCTCAAACCAATCATATACT 58.502 33.333 0.00 0.00 37.03 2.12
270 271 8.682936 AGATGTTCCTCAAACCAATCATATAC 57.317 34.615 0.00 0.00 37.03 1.47
271 272 9.123902 CAAGATGTTCCTCAAACCAATCATATA 57.876 33.333 0.00 0.00 37.03 0.86
272 273 7.835682 TCAAGATGTTCCTCAAACCAATCATAT 59.164 33.333 0.00 0.00 37.03 1.78
273 274 7.174413 TCAAGATGTTCCTCAAACCAATCATA 58.826 34.615 0.00 0.00 37.03 2.15
274 275 6.012113 TCAAGATGTTCCTCAAACCAATCAT 58.988 36.000 0.00 0.00 37.03 2.45
275 276 5.384336 TCAAGATGTTCCTCAAACCAATCA 58.616 37.500 0.00 0.00 37.03 2.57
276 277 5.707298 TCTCAAGATGTTCCTCAAACCAATC 59.293 40.000 0.00 0.00 37.03 2.67
277 278 5.634118 TCTCAAGATGTTCCTCAAACCAAT 58.366 37.500 0.00 0.00 37.03 3.16
278 279 5.047566 TCTCAAGATGTTCCTCAAACCAA 57.952 39.130 0.00 0.00 37.03 3.67
279 280 4.705110 TCTCAAGATGTTCCTCAAACCA 57.295 40.909 0.00 0.00 37.03 3.67
280 281 5.707298 TGAATCTCAAGATGTTCCTCAAACC 59.293 40.000 0.00 0.00 37.03 3.27
281 282 6.622462 GCTGAATCTCAAGATGTTCCTCAAAC 60.622 42.308 0.00 0.00 38.43 2.93
282 283 5.413833 GCTGAATCTCAAGATGTTCCTCAAA 59.586 40.000 0.00 0.00 34.49 2.69
283 284 4.940046 GCTGAATCTCAAGATGTTCCTCAA 59.060 41.667 0.00 0.00 34.49 3.02
284 285 4.019950 TGCTGAATCTCAAGATGTTCCTCA 60.020 41.667 0.00 0.00 34.49 3.86
285 286 4.332268 GTGCTGAATCTCAAGATGTTCCTC 59.668 45.833 0.00 0.00 34.49 3.71
286 287 4.019501 AGTGCTGAATCTCAAGATGTTCCT 60.020 41.667 0.00 0.00 34.49 3.36
287 288 4.094590 CAGTGCTGAATCTCAAGATGTTCC 59.905 45.833 0.00 0.00 34.49 3.62
288 289 4.694509 ACAGTGCTGAATCTCAAGATGTTC 59.305 41.667 6.17 0.00 34.49 3.18
289 290 4.649692 ACAGTGCTGAATCTCAAGATGTT 58.350 39.130 6.17 0.00 34.49 2.71
290 291 4.283363 ACAGTGCTGAATCTCAAGATGT 57.717 40.909 6.17 0.00 34.49 3.06
291 292 6.104665 TCTAACAGTGCTGAATCTCAAGATG 58.895 40.000 6.17 0.00 34.49 2.90
292 293 6.291648 TCTAACAGTGCTGAATCTCAAGAT 57.708 37.500 6.17 0.00 36.07 2.40
293 294 5.728637 TCTAACAGTGCTGAATCTCAAGA 57.271 39.130 6.17 0.00 0.00 3.02
294 295 5.873712 ACATCTAACAGTGCTGAATCTCAAG 59.126 40.000 6.17 0.00 0.00 3.02
295 296 5.640783 CACATCTAACAGTGCTGAATCTCAA 59.359 40.000 6.17 0.00 0.00 3.02
296 297 5.173664 CACATCTAACAGTGCTGAATCTCA 58.826 41.667 6.17 0.00 0.00 3.27
297 298 5.174395 ACACATCTAACAGTGCTGAATCTC 58.826 41.667 6.17 0.00 39.30 2.75
298 299 5.157940 ACACATCTAACAGTGCTGAATCT 57.842 39.130 6.17 0.00 39.30 2.40
299 300 7.095857 GCTATACACATCTAACAGTGCTGAATC 60.096 40.741 6.17 0.00 39.30 2.52
300 301 6.703607 GCTATACACATCTAACAGTGCTGAAT 59.296 38.462 6.17 0.00 39.30 2.57
301 302 6.042777 GCTATACACATCTAACAGTGCTGAA 58.957 40.000 6.17 0.00 39.30 3.02
302 303 5.451937 GGCTATACACATCTAACAGTGCTGA 60.452 44.000 6.17 0.00 39.30 4.26
303 304 4.747108 GGCTATACACATCTAACAGTGCTG 59.253 45.833 0.00 0.00 39.30 4.41
304 305 4.202264 GGGCTATACACATCTAACAGTGCT 60.202 45.833 0.00 0.00 39.30 4.40
305 306 4.058817 GGGCTATACACATCTAACAGTGC 58.941 47.826 0.00 0.00 39.30 4.40
306 307 5.537300 AGGGCTATACACATCTAACAGTG 57.463 43.478 0.00 0.00 41.40 3.66
325 326 2.517998 TGGGGATAAACCGAAAAGGG 57.482 50.000 0.00 0.00 46.96 3.95
490 491 1.427020 GCAGCCAGAATCGAGCAAC 59.573 57.895 0.00 0.00 0.00 4.17
491 492 1.746615 GGCAGCCAGAATCGAGCAA 60.747 57.895 6.55 0.00 0.00 3.91
516 517 4.123571 TCCGGACGGGATGAAAGT 57.876 55.556 11.27 0.00 40.94 2.66
545 546 3.499737 CGATGCAACGGGACAGCC 61.500 66.667 8.71 0.00 0.00 4.85
699 701 2.629656 GCAGTGGCAGCAACCGAAT 61.630 57.895 0.00 0.00 40.72 3.34
705 707 3.286751 GTTCGGCAGTGGCAGCAA 61.287 61.111 17.80 3.10 43.71 3.91
743 745 2.352805 GACCAGGGCAACAGAGGG 59.647 66.667 0.00 0.00 39.74 4.30
895 897 1.152312 ACTTCACCCCTCCTCGTGT 60.152 57.895 0.00 0.00 0.00 4.49
946 949 2.575455 TTTGTGGTCAACGGGCCCTT 62.575 55.000 22.43 7.92 32.93 3.95
970 975 2.612672 CACTCTGCTGCTATTGTCCATG 59.387 50.000 0.00 0.00 0.00 3.66
971 976 2.502947 TCACTCTGCTGCTATTGTCCAT 59.497 45.455 0.00 0.00 0.00 3.41
972 977 1.901833 TCACTCTGCTGCTATTGTCCA 59.098 47.619 0.00 0.00 0.00 4.02
979 984 2.893489 TGAGAAAGTCACTCTGCTGCTA 59.107 45.455 0.00 0.00 35.66 3.49
1014 1019 1.136305 CACCGAGGAACCACGACATAT 59.864 52.381 11.77 0.00 0.00 1.78
1022 1027 3.691342 CCGAGCACCGAGGAACCA 61.691 66.667 0.00 0.00 41.76 3.67
1096 1101 1.021202 CCGCACAAAAGGAGTTCACA 58.979 50.000 0.00 0.00 0.00 3.58
1100 1105 0.396556 AACCCCGCACAAAAGGAGTT 60.397 50.000 0.00 0.00 0.00 3.01
1113 1118 3.068691 TCGCCAGAGAGAACCCCG 61.069 66.667 0.00 0.00 0.00 5.73
1279 1285 5.105554 ACACAGAGAGAGCATCGAAATAAGT 60.106 40.000 0.00 0.00 42.67 2.24
1286 1292 2.017782 GGTACACAGAGAGAGCATCGA 58.982 52.381 0.00 0.00 42.67 3.59
1321 1327 3.141398 CATTGCACCACTGAGTGTAAGT 58.859 45.455 12.15 0.00 43.97 2.24
1582 1589 0.814457 GTGCCACAAACAACTGTCCA 59.186 50.000 0.00 0.00 0.00 4.02
1718 1725 1.689273 GCACCTCCGAGATAGGAACAT 59.311 52.381 0.00 0.00 40.25 2.71
1796 1803 1.595109 CGAGCAGCCAACACAGACA 60.595 57.895 0.00 0.00 0.00 3.41
1879 1888 3.244215 CCTCTCAGTGTAAGCAGGTCAAA 60.244 47.826 0.00 0.00 0.00 2.69
1881 1890 1.895798 CCTCTCAGTGTAAGCAGGTCA 59.104 52.381 0.00 0.00 0.00 4.02
1911 1920 1.227527 CACAGAAGGTGTCACGGCA 60.228 57.895 0.00 0.00 42.75 5.69
2061 2070 2.579860 AGGAGGCCAAGAGACATTTGAT 59.420 45.455 5.01 0.00 0.00 2.57
2067 2076 1.984570 CCGAGGAGGCCAAGAGACA 60.985 63.158 5.01 0.00 0.00 3.41
2084 2093 2.156051 AACCAGTCGACGAAGAGCCC 62.156 60.000 10.46 0.00 0.00 5.19
2170 2179 2.875296 CTCCAGAATCCAAAACCCACA 58.125 47.619 0.00 0.00 0.00 4.17
2249 2258 6.229936 TCGGCAGTAAGAACATTAATAGGT 57.770 37.500 0.00 0.00 0.00 3.08
2278 2287 4.096532 CACGACTAGCAACAGGAAGAGATA 59.903 45.833 0.00 0.00 0.00 1.98
2328 2337 2.859165 ACATGTGAACCACTCGGAAT 57.141 45.000 0.00 0.00 35.11 3.01
2338 2347 3.678548 GGTAAGACGAGGAACATGTGAAC 59.321 47.826 0.00 0.00 0.00 3.18
2557 2566 0.901124 AGACGAAGAGGCAGCAAGAT 59.099 50.000 0.00 0.00 0.00 2.40
2577 2586 2.743718 CCACTGCTGGAAGGACGT 59.256 61.111 0.00 0.00 40.55 4.34
2729 2738 6.428771 GCTGAGATACTAACTCACTAGTAGGG 59.571 46.154 1.45 0.00 37.70 3.53
2743 2752 6.782082 AGTCAAACAGATGCTGAGATACTA 57.218 37.500 0.82 0.00 35.18 1.82


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

AutoCloner maintained by Alex Coulton.