Multiple sequence alignment - TraesCS3B01G201300

Loading Multiple Alignment...

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 TraesCS3B01G201300 chr3B 100.000 2371 0 0 1 2371 233223014 233225384 0.000000e+00 4379.0
1 TraesCS3B01G201300 chr3B 94.430 1526 80 3 851 2371 272588668 272587143 0.000000e+00 2342.0
2 TraesCS3B01G201300 chr3B 96.296 567 20 1 223 789 272589232 272588667 0.000000e+00 929.0
3 TraesCS3B01G201300 chr3B 96.847 222 7 0 1 222 233184867 233185088 2.880000e-99 372.0
4 TraesCS3B01G201300 chr3B 96.847 222 6 1 1 222 198224737 198224957 1.040000e-98 370.0
5 TraesCS3B01G201300 chr3B 96.847 222 6 1 1 222 198245433 198245653 1.040000e-98 370.0
6 TraesCS3B01G201300 chr7B 95.452 1517 64 4 845 2359 712762054 712760541 0.000000e+00 2414.0
7 TraesCS3B01G201300 chr7B 95.375 800 34 3 223 1022 613885835 613886631 0.000000e+00 1269.0
8 TraesCS3B01G201300 chr7B 95.375 800 34 3 223 1022 613909562 613910358 0.000000e+00 1269.0
9 TraesCS3B01G201300 chr7B 84.530 181 19 2 1447 1627 459352971 459352800 1.130000e-38 171.0
10 TraesCS3B01G201300 chr5B 94.582 1532 78 3 845 2371 619684431 619682900 0.000000e+00 2364.0
11 TraesCS3B01G201300 chr5B 95.946 222 9 0 1 222 657373137 657373358 6.230000e-96 361.0
12 TraesCS3B01G201300 chr6B 92.649 1374 70 9 1024 2371 664805526 664806894 0.000000e+00 1949.0
13 TraesCS3B01G201300 chr6B 95.006 801 38 2 223 1022 673196116 673195317 0.000000e+00 1256.0
14 TraesCS3B01G201300 chr6B 97.799 318 6 1 2055 2371 103261166 103261483 4.460000e-152 547.0
15 TraesCS3B01G201300 chr6B 97.297 222 6 0 1 222 401433291 401433070 6.190000e-101 377.0
16 TraesCS3B01G201300 chr6B 96.847 222 7 0 1 222 401455287 401455066 2.880000e-99 372.0
17 TraesCS3B01G201300 chr2B 93.284 1206 75 4 232 1435 239998324 239997123 0.000000e+00 1773.0
18 TraesCS3B01G201300 chr2B 96.256 908 33 1 1465 2371 239997118 239996211 0.000000e+00 1487.0
19 TraesCS3B01G201300 chr2B 96.231 398 11 2 1713 2106 216856013 216855616 0.000000e+00 649.0
20 TraesCS3B01G201300 chr2B 96.861 223 6 1 1 222 770701539 770701761 2.880000e-99 372.0
21 TraesCS3B01G201300 chr2B 95.946 222 9 0 1 222 376728207 376727986 6.230000e-96 361.0
22 TraesCS3B01G201300 chr6A 93.382 1088 64 7 845 1927 580784045 580785129 0.000000e+00 1604.0
23 TraesCS3B01G201300 chr6A 92.548 1087 77 2 845 1927 567627364 567628450 0.000000e+00 1555.0
24 TraesCS3B01G201300 chr6A 96.649 567 19 0 223 789 567626805 567627371 0.000000e+00 942.0
25 TraesCS3B01G201300 chr6A 95.414 567 26 0 223 789 580783486 580784052 0.000000e+00 904.0
26 TraesCS3B01G201300 chr6A 92.366 262 19 1 2110 2371 197516 197256 2.880000e-99 372.0
27 TraesCS3B01G201300 chr3A 93.513 1079 67 2 851 1927 54532993 54531916 0.000000e+00 1602.0
28 TraesCS3B01G201300 chr3A 96.473 567 19 1 223 789 54533557 54532992 0.000000e+00 935.0
29 TraesCS3B01G201300 chr1B 95.125 800 37 2 224 1022 512227968 512227170 0.000000e+00 1260.0
30 TraesCS3B01G201300 chr1B 95.495 222 10 0 1 222 592634117 592634338 2.900000e-94 355.0
31 TraesCS3B01G201300 chr7D 98.113 318 5 1 2055 2371 613748545 613748862 9.580000e-154 553.0
32 TraesCS3B01G201300 chr7D 97.799 318 6 1 2055 2371 543342047 543341730 4.460000e-152 547.0
33 TraesCS3B01G201300 chr7D 97.484 318 7 1 2055 2371 26668442 26668125 2.070000e-150 542.0
34 TraesCS3B01G201300 chr7D 97.170 318 8 1 2055 2371 40628949 40628632 9.640000e-149 536.0
35 TraesCS3B01G201300 chr4D 97.799 318 5 2 2055 2371 448037494 448037178 4.460000e-152 547.0
36 TraesCS3B01G201300 chr4D 95.899 317 12 1 2056 2371 359526267 359525951 1.630000e-141 512.0
37 TraesCS3B01G201300 chr4D 95.802 262 10 1 2110 2371 435099714 435099454 2.820000e-114 422.0
38 TraesCS3B01G201300 chr3D 97.799 318 6 1 2055 2371 501321931 501321614 4.460000e-152 547.0
39 TraesCS3B01G201300 chr5D 97.170 318 8 1 2055 2371 551209877 551210194 9.640000e-149 536.0
40 TraesCS3B01G201300 chr5D 93.173 249 17 0 2110 2358 19020289 19020041 1.340000e-97 366.0
41 TraesCS3B01G201300 chr5D 92.405 79 6 0 2293 2371 475523257 475523335 1.930000e-21 113.0
42 TraesCS3B01G201300 chr1D 88.354 395 26 7 1139 1523 467928400 467928016 7.720000e-125 457.0
43 TraesCS3B01G201300 chr1D 96.512 172 5 1 2200 2371 54470470 54470640 1.390000e-72 283.0
44 TraesCS3B01G201300 chr1D 97.810 137 3 0 2110 2246 54470345 54470481 1.100000e-58 237.0
45 TraesCS3B01G201300 chr1D 92.258 155 7 2 2217 2371 493260501 493260352 5.130000e-52 215.0
46 TraesCS3B01G201300 chr6D 96.198 263 9 1 2110 2371 67660288 67660550 1.680000e-116 429.0
47 TraesCS3B01G201300 chrUn 93.727 271 16 1 689 959 378347301 378347570 2.840000e-109 405.0
48 TraesCS3B01G201300 chr2D 86.301 292 28 9 1812 2092 159689414 159689124 8.230000e-80 307.0
49 TraesCS3B01G201300 chr2D 97.872 47 1 0 1713 1759 159689557 159689511 5.430000e-12 82.4
50 TraesCS3B01G201300 chr2A 85.666 293 28 8 1812 2092 170934811 170934521 1.780000e-76 296.0
51 TraesCS3B01G201300 chr2A 90.141 71 7 0 1713 1783 170934968 170934898 2.510000e-15 93.5
52 TraesCS3B01G201300 chr5A 90.196 51 1 1 1447 1497 102101367 102101321 1.970000e-06 63.9


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 TraesCS3B01G201300 chr3B 233223014 233225384 2370 False 4379.0 4379 100.0000 1 2371 1 chr3B.!!$F4 2370
1 TraesCS3B01G201300 chr3B 272587143 272589232 2089 True 1635.5 2342 95.3630 223 2371 2 chr3B.!!$R1 2148
2 TraesCS3B01G201300 chr7B 712760541 712762054 1513 True 2414.0 2414 95.4520 845 2359 1 chr7B.!!$R2 1514
3 TraesCS3B01G201300 chr7B 613885835 613886631 796 False 1269.0 1269 95.3750 223 1022 1 chr7B.!!$F1 799
4 TraesCS3B01G201300 chr7B 613909562 613910358 796 False 1269.0 1269 95.3750 223 1022 1 chr7B.!!$F2 799
5 TraesCS3B01G201300 chr5B 619682900 619684431 1531 True 2364.0 2364 94.5820 845 2371 1 chr5B.!!$R1 1526
6 TraesCS3B01G201300 chr6B 664805526 664806894 1368 False 1949.0 1949 92.6490 1024 2371 1 chr6B.!!$F2 1347
7 TraesCS3B01G201300 chr6B 673195317 673196116 799 True 1256.0 1256 95.0060 223 1022 1 chr6B.!!$R3 799
8 TraesCS3B01G201300 chr2B 239996211 239998324 2113 True 1630.0 1773 94.7700 232 2371 2 chr2B.!!$R3 2139
9 TraesCS3B01G201300 chr6A 580783486 580785129 1643 False 1254.0 1604 94.3980 223 1927 2 chr6A.!!$F2 1704
10 TraesCS3B01G201300 chr6A 567626805 567628450 1645 False 1248.5 1555 94.5985 223 1927 2 chr6A.!!$F1 1704
11 TraesCS3B01G201300 chr3A 54531916 54533557 1641 True 1268.5 1602 94.9930 223 1927 2 chr3A.!!$R1 1704
12 TraesCS3B01G201300 chr1B 512227170 512227968 798 True 1260.0 1260 95.1250 224 1022 1 chr1B.!!$R1 798

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
815 820 0.039256 CCACACCCGAAGCATTGTTG 60.039 55.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1759 1862 2.188829 GCTGCCAGAGCACAACACA 61.189 57.895 0.0 0.0 46.52 3.72 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
27 28 9.362151 ACATTTTATAAAGACTTGGTTTCTCCA 57.638 29.630 0.00 0.00 45.60 3.86
43 44 8.944138 TGGTTTCTCCACCAATATATCTTATGA 58.056 33.333 0.00 0.00 44.30 2.15
44 45 9.793259 GGTTTCTCCACCAATATATCTTATGAA 57.207 33.333 0.00 0.00 36.73 2.57
106 107 9.921637 TTTGAAAACTTTAATTGTCTGACTTGT 57.078 25.926 9.51 0.00 0.00 3.16
107 108 9.921637 TTGAAAACTTTAATTGTCTGACTTGTT 57.078 25.926 9.51 4.12 0.00 2.83
108 109 9.567848 TGAAAACTTTAATTGTCTGACTTGTTC 57.432 29.630 9.51 1.53 0.00 3.18
109 110 9.788960 GAAAACTTTAATTGTCTGACTTGTTCT 57.211 29.630 9.51 0.00 0.00 3.01
111 112 9.573133 AAACTTTAATTGTCTGACTTGTTCTTG 57.427 29.630 9.51 0.00 0.00 3.02
112 113 8.506168 ACTTTAATTGTCTGACTTGTTCTTGA 57.494 30.769 9.51 0.00 0.00 3.02
113 114 8.956426 ACTTTAATTGTCTGACTTGTTCTTGAA 58.044 29.630 9.51 0.00 0.00 2.69
114 115 9.956720 CTTTAATTGTCTGACTTGTTCTTGAAT 57.043 29.630 9.51 0.00 0.00 2.57
117 118 8.638685 AATTGTCTGACTTGTTCTTGAATTTG 57.361 30.769 9.51 0.00 0.00 2.32
118 119 6.135290 TGTCTGACTTGTTCTTGAATTTGG 57.865 37.500 9.51 0.00 0.00 3.28
119 120 5.885352 TGTCTGACTTGTTCTTGAATTTGGA 59.115 36.000 9.51 0.00 0.00 3.53
120 121 6.547141 TGTCTGACTTGTTCTTGAATTTGGAT 59.453 34.615 9.51 0.00 0.00 3.41
121 122 7.068593 TGTCTGACTTGTTCTTGAATTTGGATT 59.931 33.333 9.51 0.00 0.00 3.01
122 123 7.922811 GTCTGACTTGTTCTTGAATTTGGATTT 59.077 33.333 0.00 0.00 0.00 2.17
123 124 8.477256 TCTGACTTGTTCTTGAATTTGGATTTT 58.523 29.630 0.00 0.00 0.00 1.82
124 125 8.422973 TGACTTGTTCTTGAATTTGGATTTTG 57.577 30.769 0.00 0.00 0.00 2.44
125 126 8.256605 TGACTTGTTCTTGAATTTGGATTTTGA 58.743 29.630 0.00 0.00 0.00 2.69
126 127 9.097257 GACTTGTTCTTGAATTTGGATTTTGAA 57.903 29.630 0.00 0.00 0.00 2.69
127 128 9.617523 ACTTGTTCTTGAATTTGGATTTTGAAT 57.382 25.926 0.00 0.00 0.00 2.57
129 130 9.610705 TTGTTCTTGAATTTGGATTTTGAATCA 57.389 25.926 3.39 0.00 0.00 2.57
130 131 9.263538 TGTTCTTGAATTTGGATTTTGAATCAG 57.736 29.630 3.39 0.00 0.00 2.90
131 132 9.264719 GTTCTTGAATTTGGATTTTGAATCAGT 57.735 29.630 3.39 0.00 0.00 3.41
132 133 9.835389 TTCTTGAATTTGGATTTTGAATCAGTT 57.165 25.926 3.39 0.00 0.00 3.16
133 134 9.835389 TCTTGAATTTGGATTTTGAATCAGTTT 57.165 25.926 3.39 0.00 0.00 2.66
136 137 9.610705 TGAATTTGGATTTTGAATCAGTTTTGA 57.389 25.926 3.39 0.00 37.81 2.69
139 140 9.617523 ATTTGGATTTTGAATCAGTTTTGAACT 57.382 25.926 3.39 0.00 44.06 3.01
142 143 9.528018 TGGATTTTGAATCAGTTTTGAACTAAC 57.472 29.630 3.39 0.00 40.46 2.34
143 144 8.690840 GGATTTTGAATCAGTTTTGAACTAACG 58.309 33.333 3.39 0.00 40.46 3.18
144 145 7.444558 TTTTGAATCAGTTTTGAACTAACGC 57.555 32.000 0.00 0.00 40.46 4.84
145 146 4.768145 TGAATCAGTTTTGAACTAACGCG 58.232 39.130 3.53 3.53 40.46 6.01
146 147 3.806316 ATCAGTTTTGAACTAACGCGG 57.194 42.857 12.47 0.00 40.46 6.46
147 148 1.868498 TCAGTTTTGAACTAACGCGGG 59.132 47.619 12.47 0.00 40.46 6.13
148 149 1.868498 CAGTTTTGAACTAACGCGGGA 59.132 47.619 12.47 0.00 40.46 5.14
149 150 2.482721 CAGTTTTGAACTAACGCGGGAT 59.517 45.455 12.47 0.00 40.46 3.85
150 151 3.058501 CAGTTTTGAACTAACGCGGGATT 60.059 43.478 12.47 0.00 40.46 3.01
151 152 4.152759 CAGTTTTGAACTAACGCGGGATTA 59.847 41.667 12.47 0.00 40.46 1.75
152 153 4.390909 AGTTTTGAACTAACGCGGGATTAG 59.609 41.667 12.47 12.19 40.69 1.73
153 154 3.598019 TTGAACTAACGCGGGATTAGT 57.402 42.857 12.47 12.89 43.22 2.24
154 155 4.717233 TTGAACTAACGCGGGATTAGTA 57.283 40.909 17.67 4.36 41.07 1.82
155 156 4.717233 TGAACTAACGCGGGATTAGTAA 57.283 40.909 17.67 9.20 41.07 2.24
156 157 4.423732 TGAACTAACGCGGGATTAGTAAC 58.576 43.478 17.67 15.09 41.07 2.50
157 158 4.082300 TGAACTAACGCGGGATTAGTAACA 60.082 41.667 17.67 16.82 41.07 2.41
158 159 4.037858 ACTAACGCGGGATTAGTAACAG 57.962 45.455 16.32 0.00 40.33 3.16
159 160 3.445096 ACTAACGCGGGATTAGTAACAGT 59.555 43.478 16.32 0.00 40.33 3.55
160 161 4.640201 ACTAACGCGGGATTAGTAACAGTA 59.360 41.667 16.32 0.00 40.33 2.74
161 162 4.454728 AACGCGGGATTAGTAACAGTAA 57.545 40.909 12.47 0.00 0.00 2.24
162 163 4.660789 ACGCGGGATTAGTAACAGTAAT 57.339 40.909 12.47 0.00 0.00 1.89
163 164 4.365723 ACGCGGGATTAGTAACAGTAATG 58.634 43.478 12.47 0.00 0.00 1.90
164 165 3.739300 CGCGGGATTAGTAACAGTAATGG 59.261 47.826 0.00 0.00 0.00 3.16
165 166 4.500205 CGCGGGATTAGTAACAGTAATGGA 60.500 45.833 0.00 0.00 0.00 3.41
166 167 4.989168 GCGGGATTAGTAACAGTAATGGAG 59.011 45.833 0.00 0.00 0.00 3.86
167 168 5.539048 CGGGATTAGTAACAGTAATGGAGG 58.461 45.833 0.00 0.00 0.00 4.30
168 169 5.070047 CGGGATTAGTAACAGTAATGGAGGT 59.930 44.000 0.00 0.00 0.00 3.85
169 170 6.289064 GGGATTAGTAACAGTAATGGAGGTG 58.711 44.000 0.00 0.00 0.00 4.00
170 171 6.099269 GGGATTAGTAACAGTAATGGAGGTGA 59.901 42.308 0.00 0.00 0.00 4.02
171 172 6.985059 GGATTAGTAACAGTAATGGAGGTGAC 59.015 42.308 0.00 0.00 0.00 3.67
172 173 6.921486 TTAGTAACAGTAATGGAGGTGACA 57.079 37.500 0.00 0.00 0.00 3.58
173 174 7.490657 TTAGTAACAGTAATGGAGGTGACAT 57.509 36.000 0.00 0.00 0.00 3.06
174 175 5.734720 AGTAACAGTAATGGAGGTGACATG 58.265 41.667 0.00 0.00 0.00 3.21
175 176 3.634397 ACAGTAATGGAGGTGACATGG 57.366 47.619 0.00 0.00 0.00 3.66
176 177 2.292267 CAGTAATGGAGGTGACATGGC 58.708 52.381 0.00 0.00 0.00 4.40
177 178 1.915489 AGTAATGGAGGTGACATGGCA 59.085 47.619 0.00 0.00 0.00 4.92
178 179 2.511218 AGTAATGGAGGTGACATGGCAT 59.489 45.455 3.50 0.00 0.00 4.40
179 180 2.062971 AATGGAGGTGACATGGCATC 57.937 50.000 3.50 3.03 0.00 3.91
180 181 0.921166 ATGGAGGTGACATGGCATCA 59.079 50.000 15.86 6.94 0.00 3.07
181 182 0.921166 TGGAGGTGACATGGCATCAT 59.079 50.000 15.86 0.75 0.00 2.45
182 183 1.285667 TGGAGGTGACATGGCATCATT 59.714 47.619 15.86 0.00 0.00 2.57
183 184 2.509131 TGGAGGTGACATGGCATCATTA 59.491 45.455 15.86 0.00 0.00 1.90
184 185 3.144506 GGAGGTGACATGGCATCATTAG 58.855 50.000 15.86 0.00 0.00 1.73
185 186 2.551459 GAGGTGACATGGCATCATTAGC 59.449 50.000 15.86 0.00 0.00 3.09
186 187 2.092267 AGGTGACATGGCATCATTAGCA 60.092 45.455 15.86 0.00 0.00 3.49
187 188 2.292569 GGTGACATGGCATCATTAGCAG 59.707 50.000 7.03 0.00 0.00 4.24
188 189 3.208594 GTGACATGGCATCATTAGCAGA 58.791 45.455 3.50 0.00 0.00 4.26
189 190 3.250280 GTGACATGGCATCATTAGCAGAG 59.750 47.826 3.50 0.00 0.00 3.35
190 191 2.812591 GACATGGCATCATTAGCAGAGG 59.187 50.000 0.00 0.00 0.00 3.69
191 192 2.174210 ACATGGCATCATTAGCAGAGGT 59.826 45.455 0.00 0.00 0.00 3.85
192 193 3.220110 CATGGCATCATTAGCAGAGGTT 58.780 45.455 0.00 0.00 0.00 3.50
193 194 2.923121 TGGCATCATTAGCAGAGGTTC 58.077 47.619 0.00 0.00 0.00 3.62
194 195 2.239402 TGGCATCATTAGCAGAGGTTCA 59.761 45.455 0.00 0.00 0.00 3.18
195 196 2.615912 GGCATCATTAGCAGAGGTTCAC 59.384 50.000 0.00 0.00 0.00 3.18
196 197 3.539604 GCATCATTAGCAGAGGTTCACT 58.460 45.455 0.00 0.00 0.00 3.41
197 198 3.311871 GCATCATTAGCAGAGGTTCACTG 59.688 47.826 0.00 0.00 38.27 3.66
198 199 4.511527 CATCATTAGCAGAGGTTCACTGT 58.488 43.478 0.00 0.00 37.64 3.55
199 200 5.664457 CATCATTAGCAGAGGTTCACTGTA 58.336 41.667 0.00 0.00 37.64 2.74
200 201 5.330455 TCATTAGCAGAGGTTCACTGTAG 57.670 43.478 0.00 0.00 37.64 2.74
201 202 3.594603 TTAGCAGAGGTTCACTGTAGC 57.405 47.619 0.00 0.00 37.64 3.58
202 203 1.638529 AGCAGAGGTTCACTGTAGCT 58.361 50.000 0.00 0.00 37.64 3.32
203 204 1.974236 AGCAGAGGTTCACTGTAGCTT 59.026 47.619 0.00 0.00 37.64 3.74
204 205 3.165875 AGCAGAGGTTCACTGTAGCTTA 58.834 45.455 0.00 0.00 37.64 3.09
205 206 3.578716 AGCAGAGGTTCACTGTAGCTTAA 59.421 43.478 0.00 0.00 37.64 1.85
206 207 4.223923 AGCAGAGGTTCACTGTAGCTTAAT 59.776 41.667 0.00 0.00 37.64 1.40
207 208 4.938226 GCAGAGGTTCACTGTAGCTTAATT 59.062 41.667 0.00 0.00 37.64 1.40
208 209 6.070767 AGCAGAGGTTCACTGTAGCTTAATTA 60.071 38.462 0.00 0.00 37.64 1.40
209 210 6.763610 GCAGAGGTTCACTGTAGCTTAATTAT 59.236 38.462 0.00 0.00 37.64 1.28
210 211 7.042389 GCAGAGGTTCACTGTAGCTTAATTATC 60.042 40.741 0.00 0.00 37.64 1.75
211 212 7.439655 CAGAGGTTCACTGTAGCTTAATTATCC 59.560 40.741 0.00 0.00 0.00 2.59
212 213 6.281405 AGGTTCACTGTAGCTTAATTATCCG 58.719 40.000 0.00 0.00 0.00 4.18
213 214 5.465724 GGTTCACTGTAGCTTAATTATCCGG 59.534 44.000 0.00 0.00 0.00 5.14
214 215 5.209818 TCACTGTAGCTTAATTATCCGGG 57.790 43.478 0.00 0.00 0.00 5.73
215 216 3.746492 CACTGTAGCTTAATTATCCGGGC 59.254 47.826 0.00 0.00 0.00 6.13
216 217 2.993899 CTGTAGCTTAATTATCCGGGCG 59.006 50.000 0.00 0.00 0.00 6.13
217 218 2.366266 TGTAGCTTAATTATCCGGGCGT 59.634 45.455 0.00 0.00 0.00 5.68
218 219 2.165319 AGCTTAATTATCCGGGCGTC 57.835 50.000 0.00 0.00 0.00 5.19
219 220 1.414919 AGCTTAATTATCCGGGCGTCA 59.585 47.619 0.00 0.00 0.00 4.35
220 221 1.529865 GCTTAATTATCCGGGCGTCAC 59.470 52.381 0.00 0.00 0.00 3.67
221 222 2.828877 CTTAATTATCCGGGCGTCACA 58.171 47.619 0.00 0.00 0.00 3.58
335 336 1.918262 AGCTTCTTGGGGATGTCATCA 59.082 47.619 14.72 0.00 0.00 3.07
360 361 3.374745 CTGCATTGAAGCTTTTTCACGT 58.625 40.909 0.00 0.00 34.99 4.49
591 592 1.600663 GCATCACAGACCGTCGGATAG 60.601 57.143 20.51 9.10 0.00 2.08
781 786 3.637273 GTGTCGGCCACCTCCCTT 61.637 66.667 2.24 0.00 38.18 3.95
782 787 3.319198 TGTCGGCCACCTCCCTTC 61.319 66.667 2.24 0.00 0.00 3.46
783 788 4.452733 GTCGGCCACCTCCCTTCG 62.453 72.222 2.24 0.00 0.00 3.79
789 794 4.148825 CACCTCCCTTCGGCGGAG 62.149 72.222 8.61 8.61 45.65 4.63
790 795 4.698625 ACCTCCCTTCGGCGGAGT 62.699 66.667 15.18 0.00 44.75 3.85
791 796 3.391382 CCTCCCTTCGGCGGAGTT 61.391 66.667 15.18 0.00 44.75 3.01
792 797 2.184579 CTCCCTTCGGCGGAGTTC 59.815 66.667 15.18 0.00 41.81 3.01
793 798 3.701604 CTCCCTTCGGCGGAGTTCG 62.702 68.421 15.18 0.95 41.81 3.95
794 799 3.755628 CCCTTCGGCGGAGTTCGA 61.756 66.667 15.18 0.00 42.43 3.71
795 800 2.506438 CCTTCGGCGGAGTTCGAC 60.506 66.667 15.18 0.00 45.07 4.20
796 801 2.506438 CTTCGGCGGAGTTCGACC 60.506 66.667 7.13 0.00 45.97 4.79
797 802 3.984200 CTTCGGCGGAGTTCGACCC 62.984 68.421 7.13 0.00 45.97 4.46
800 805 3.998672 GGCGGAGTTCGACCCACA 61.999 66.667 0.00 0.00 42.09 4.17
801 806 2.737376 GCGGAGTTCGACCCACAC 60.737 66.667 0.00 0.00 42.43 3.82
802 807 2.048503 CGGAGTTCGACCCACACC 60.049 66.667 0.00 0.00 42.43 4.16
803 808 2.346365 GGAGTTCGACCCACACCC 59.654 66.667 0.00 0.00 0.00 4.61
804 809 2.048503 GAGTTCGACCCACACCCG 60.049 66.667 0.00 0.00 0.00 5.28
805 810 2.522436 AGTTCGACCCACACCCGA 60.522 61.111 0.00 0.00 0.00 5.14
806 811 2.091102 GAGTTCGACCCACACCCGAA 62.091 60.000 0.00 0.00 39.58 4.30
807 812 1.666872 GTTCGACCCACACCCGAAG 60.667 63.158 0.00 0.00 42.00 3.79
808 813 3.524648 TTCGACCCACACCCGAAGC 62.525 63.158 0.00 0.00 37.39 3.86
809 814 4.308458 CGACCCACACCCGAAGCA 62.308 66.667 0.00 0.00 0.00 3.91
810 815 2.351276 GACCCACACCCGAAGCAT 59.649 61.111 0.00 0.00 0.00 3.79
811 816 1.303317 GACCCACACCCGAAGCATT 60.303 57.895 0.00 0.00 0.00 3.56
812 817 1.586154 GACCCACACCCGAAGCATTG 61.586 60.000 0.00 0.00 0.00 2.82
813 818 1.603455 CCCACACCCGAAGCATTGT 60.603 57.895 0.00 0.00 0.00 2.71
814 819 1.178534 CCCACACCCGAAGCATTGTT 61.179 55.000 0.00 0.00 0.00 2.83
815 820 0.039256 CCACACCCGAAGCATTGTTG 60.039 55.000 0.00 0.00 0.00 3.33
824 829 4.102113 GCATTGTTGCTCCACCCT 57.898 55.556 0.00 0.00 45.77 4.34
825 830 1.885871 GCATTGTTGCTCCACCCTC 59.114 57.895 0.00 0.00 45.77 4.30
826 831 0.610232 GCATTGTTGCTCCACCCTCT 60.610 55.000 0.00 0.00 45.77 3.69
827 832 1.457346 CATTGTTGCTCCACCCTCTC 58.543 55.000 0.00 0.00 0.00 3.20
828 833 0.329596 ATTGTTGCTCCACCCTCTCC 59.670 55.000 0.00 0.00 0.00 3.71
829 834 1.779061 TTGTTGCTCCACCCTCTCCC 61.779 60.000 0.00 0.00 0.00 4.30
830 835 3.003173 TTGCTCCACCCTCTCCCG 61.003 66.667 0.00 0.00 0.00 5.14
865 934 3.150949 CAGACTGCCTCACCACCA 58.849 61.111 0.00 0.00 0.00 4.17
985 1055 0.253347 ATCCTGGGAAGGAAGGAGCA 60.253 55.000 0.00 0.00 45.63 4.26
998 1068 4.039092 GAGCAAGCTCCCAGGCCA 62.039 66.667 5.01 0.00 37.11 5.36
1155 1228 7.028962 GGTTTCGTGATTGATTGATTGATTGA 58.971 34.615 0.00 0.00 0.00 2.57
1196 1269 3.430862 GCCGGTTCTTGCATGCGA 61.431 61.111 14.09 10.84 0.00 5.10
1286 1360 0.988145 TTGCCTGCCCCTACTGCTAT 60.988 55.000 0.00 0.00 0.00 2.97
1384 1458 1.609555 CGATTAACCTCCTCCTCCTCG 59.390 57.143 0.00 0.00 0.00 4.63
1424 1503 9.781425 ATTGTTATCTAGAGATCCATGGAGTAT 57.219 33.333 21.33 9.80 36.05 2.12
1552 1631 4.778579 CATCTCTTGATGGACATCTTGGT 58.221 43.478 12.97 0.00 44.63 3.67
1578 1657 6.716934 TTCCTAGTGTAAATTTGGTTTGCA 57.283 33.333 0.00 0.00 39.62 4.08
1660 1739 2.095263 TCAATTGCGTTTAGAGCTTGGC 60.095 45.455 0.00 0.00 35.28 4.52
1678 1757 5.741011 CTTGGCCCTGTGTAAGTATTCTTA 58.259 41.667 0.00 0.00 35.36 2.10
1682 1761 6.384595 TGGCCCTGTGTAAGTATTCTTATGTA 59.615 38.462 0.00 0.00 38.25 2.29
1759 1862 1.002857 AGACCTTGCCTGGGCTTTAT 58.997 50.000 13.05 0.00 44.60 1.40
1760 1863 1.106285 GACCTTGCCTGGGCTTTATG 58.894 55.000 13.05 0.35 42.51 1.90
1949 2052 1.238439 ACCGCTTGGTGTTTCATCAG 58.762 50.000 0.00 0.00 46.92 2.90
2012 2115 9.111613 TCAAGAAATGCTTTGTTTGATTGAAAT 57.888 25.926 7.34 0.00 33.60 2.17
2108 2212 1.411246 CTAACTGCCATTGCCATGCAT 59.589 47.619 0.00 0.00 38.76 3.96
2164 2268 5.982356 ACAGAAGCTGCATGTAGAATTCTA 58.018 37.500 22.29 11.24 34.37 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 9.362151 TGGAGAAACCAAGTCTTTATAAAATGT 57.638 29.630 0.00 0.00 46.75 2.71
18 19 9.793259 TTCATAAGATATATTGGTGGAGAAACC 57.207 33.333 0.00 0.00 40.94 3.27
80 81 9.921637 ACAAGTCAGACAATTAAAGTTTTCAAA 57.078 25.926 2.66 0.00 0.00 2.69
81 82 9.921637 AACAAGTCAGACAATTAAAGTTTTCAA 57.078 25.926 2.66 0.00 0.00 2.69
82 83 9.567848 GAACAAGTCAGACAATTAAAGTTTTCA 57.432 29.630 2.66 0.00 0.00 2.69
83 84 9.788960 AGAACAAGTCAGACAATTAAAGTTTTC 57.211 29.630 2.66 0.00 0.00 2.29
85 86 9.573133 CAAGAACAAGTCAGACAATTAAAGTTT 57.427 29.630 2.66 0.00 0.00 2.66
86 87 8.956426 TCAAGAACAAGTCAGACAATTAAAGTT 58.044 29.630 2.66 0.00 0.00 2.66
87 88 8.506168 TCAAGAACAAGTCAGACAATTAAAGT 57.494 30.769 2.66 0.00 0.00 2.66
88 89 9.956720 ATTCAAGAACAAGTCAGACAATTAAAG 57.043 29.630 2.66 0.00 0.00 1.85
91 92 9.734620 CAAATTCAAGAACAAGTCAGACAATTA 57.265 29.630 2.66 0.00 0.00 1.40
92 93 7.707893 CCAAATTCAAGAACAAGTCAGACAATT 59.292 33.333 2.66 0.00 0.00 2.32
93 94 7.068593 TCCAAATTCAAGAACAAGTCAGACAAT 59.931 33.333 2.66 0.00 0.00 2.71
94 95 6.376864 TCCAAATTCAAGAACAAGTCAGACAA 59.623 34.615 2.66 0.00 0.00 3.18
95 96 5.885352 TCCAAATTCAAGAACAAGTCAGACA 59.115 36.000 2.66 0.00 0.00 3.41
96 97 6.377327 TCCAAATTCAAGAACAAGTCAGAC 57.623 37.500 0.00 0.00 0.00 3.51
97 98 7.587037 AATCCAAATTCAAGAACAAGTCAGA 57.413 32.000 0.00 0.00 0.00 3.27
98 99 8.545420 CAAAATCCAAATTCAAGAACAAGTCAG 58.455 33.333 0.00 0.00 0.00 3.51
99 100 8.256605 TCAAAATCCAAATTCAAGAACAAGTCA 58.743 29.630 0.00 0.00 0.00 3.41
100 101 8.647143 TCAAAATCCAAATTCAAGAACAAGTC 57.353 30.769 0.00 0.00 0.00 3.01
101 102 9.617523 ATTCAAAATCCAAATTCAAGAACAAGT 57.382 25.926 0.00 0.00 0.00 3.16
103 104 9.610705 TGATTCAAAATCCAAATTCAAGAACAA 57.389 25.926 0.00 0.00 0.00 2.83
104 105 9.263538 CTGATTCAAAATCCAAATTCAAGAACA 57.736 29.630 0.00 0.00 0.00 3.18
105 106 9.264719 ACTGATTCAAAATCCAAATTCAAGAAC 57.735 29.630 0.00 0.00 0.00 3.01
106 107 9.835389 AACTGATTCAAAATCCAAATTCAAGAA 57.165 25.926 0.00 0.00 0.00 2.52
107 108 9.835389 AAACTGATTCAAAATCCAAATTCAAGA 57.165 25.926 0.00 0.00 0.00 3.02
110 111 9.610705 TCAAAACTGATTCAAAATCCAAATTCA 57.389 25.926 0.00 0.00 0.00 2.57
113 114 9.617523 AGTTCAAAACTGATTCAAAATCCAAAT 57.382 25.926 0.00 0.00 41.01 2.32
116 117 9.528018 GTTAGTTCAAAACTGATTCAAAATCCA 57.472 29.630 2.65 0.00 42.84 3.41
117 118 8.690840 CGTTAGTTCAAAACTGATTCAAAATCC 58.309 33.333 2.65 0.00 42.84 3.01
118 119 8.207906 GCGTTAGTTCAAAACTGATTCAAAATC 58.792 33.333 2.65 0.00 42.84 2.17
119 120 7.096640 CGCGTTAGTTCAAAACTGATTCAAAAT 60.097 33.333 0.00 0.00 42.84 1.82
120 121 6.195613 CGCGTTAGTTCAAAACTGATTCAAAA 59.804 34.615 0.00 0.00 42.84 2.44
121 122 5.679355 CGCGTTAGTTCAAAACTGATTCAAA 59.321 36.000 0.00 0.00 42.84 2.69
122 123 5.201910 CGCGTTAGTTCAAAACTGATTCAA 58.798 37.500 0.00 0.00 42.84 2.69
123 124 4.319190 CCGCGTTAGTTCAAAACTGATTCA 60.319 41.667 4.92 0.00 42.84 2.57
124 125 4.148891 CCGCGTTAGTTCAAAACTGATTC 58.851 43.478 4.92 0.00 42.84 2.52
125 126 3.058501 CCCGCGTTAGTTCAAAACTGATT 60.059 43.478 4.92 0.00 42.84 2.57
126 127 2.482721 CCCGCGTTAGTTCAAAACTGAT 59.517 45.455 4.92 0.00 42.84 2.90
127 128 1.868498 CCCGCGTTAGTTCAAAACTGA 59.132 47.619 4.92 0.00 42.84 3.41
128 129 1.868498 TCCCGCGTTAGTTCAAAACTG 59.132 47.619 4.92 0.00 42.84 3.16
129 130 2.243602 TCCCGCGTTAGTTCAAAACT 57.756 45.000 4.92 0.00 45.40 2.66
130 131 3.547649 AATCCCGCGTTAGTTCAAAAC 57.452 42.857 4.92 0.00 0.00 2.43
131 132 4.317488 ACTAATCCCGCGTTAGTTCAAAA 58.683 39.130 13.15 0.00 38.82 2.44
132 133 3.929094 ACTAATCCCGCGTTAGTTCAAA 58.071 40.909 13.15 0.00 38.82 2.69
133 134 3.598019 ACTAATCCCGCGTTAGTTCAA 57.402 42.857 13.15 0.00 38.82 2.69
134 135 4.082300 TGTTACTAATCCCGCGTTAGTTCA 60.082 41.667 21.10 17.53 41.33 3.18
135 136 4.423732 TGTTACTAATCCCGCGTTAGTTC 58.576 43.478 21.10 15.84 41.33 3.01
136 137 4.082026 ACTGTTACTAATCCCGCGTTAGTT 60.082 41.667 21.10 7.11 41.33 2.24
137 138 3.445096 ACTGTTACTAATCCCGCGTTAGT 59.555 43.478 20.15 20.15 43.01 2.24
138 139 4.037858 ACTGTTACTAATCCCGCGTTAG 57.962 45.455 4.92 9.40 35.72 2.34
139 140 5.574891 TTACTGTTACTAATCCCGCGTTA 57.425 39.130 4.92 0.00 0.00 3.18
140 141 4.454728 TTACTGTTACTAATCCCGCGTT 57.545 40.909 4.92 0.00 0.00 4.84
141 142 4.365723 CATTACTGTTACTAATCCCGCGT 58.634 43.478 4.92 0.00 0.00 6.01
142 143 3.739300 CCATTACTGTTACTAATCCCGCG 59.261 47.826 0.00 0.00 0.00 6.46
143 144 4.952460 TCCATTACTGTTACTAATCCCGC 58.048 43.478 0.00 0.00 0.00 6.13
144 145 5.070047 ACCTCCATTACTGTTACTAATCCCG 59.930 44.000 0.00 0.00 0.00 5.14
145 146 6.099269 TCACCTCCATTACTGTTACTAATCCC 59.901 42.308 0.00 0.00 0.00 3.85
146 147 6.985059 GTCACCTCCATTACTGTTACTAATCC 59.015 42.308 0.00 0.00 0.00 3.01
147 148 7.553334 TGTCACCTCCATTACTGTTACTAATC 58.447 38.462 0.00 0.00 0.00 1.75
148 149 7.490657 TGTCACCTCCATTACTGTTACTAAT 57.509 36.000 0.00 0.00 0.00 1.73
149 150 6.921486 TGTCACCTCCATTACTGTTACTAA 57.079 37.500 0.00 0.00 0.00 2.24
150 151 6.127168 CCATGTCACCTCCATTACTGTTACTA 60.127 42.308 0.00 0.00 0.00 1.82
151 152 5.338381 CCATGTCACCTCCATTACTGTTACT 60.338 44.000 0.00 0.00 0.00 2.24
152 153 4.876107 CCATGTCACCTCCATTACTGTTAC 59.124 45.833 0.00 0.00 0.00 2.50
153 154 4.625324 GCCATGTCACCTCCATTACTGTTA 60.625 45.833 0.00 0.00 0.00 2.41
154 155 3.873801 GCCATGTCACCTCCATTACTGTT 60.874 47.826 0.00 0.00 0.00 3.16
155 156 2.356125 GCCATGTCACCTCCATTACTGT 60.356 50.000 0.00 0.00 0.00 3.55
156 157 2.292267 GCCATGTCACCTCCATTACTG 58.708 52.381 0.00 0.00 0.00 2.74
157 158 1.915489 TGCCATGTCACCTCCATTACT 59.085 47.619 0.00 0.00 0.00 2.24
158 159 2.418368 TGCCATGTCACCTCCATTAC 57.582 50.000 0.00 0.00 0.00 1.89
159 160 2.509131 TGATGCCATGTCACCTCCATTA 59.491 45.455 0.00 0.00 0.00 1.90
160 161 1.285667 TGATGCCATGTCACCTCCATT 59.714 47.619 0.00 0.00 0.00 3.16
161 162 0.921166 TGATGCCATGTCACCTCCAT 59.079 50.000 0.00 0.00 0.00 3.41
162 163 0.921166 ATGATGCCATGTCACCTCCA 59.079 50.000 0.00 0.00 0.00 3.86
163 164 2.062971 AATGATGCCATGTCACCTCC 57.937 50.000 0.00 0.00 32.36 4.30
164 165 2.551459 GCTAATGATGCCATGTCACCTC 59.449 50.000 0.00 0.00 32.36 3.85
165 166 2.092267 TGCTAATGATGCCATGTCACCT 60.092 45.455 0.00 0.00 32.36 4.00
166 167 2.292569 CTGCTAATGATGCCATGTCACC 59.707 50.000 0.00 0.00 32.36 4.02
167 168 3.208594 TCTGCTAATGATGCCATGTCAC 58.791 45.455 0.00 0.00 32.36 3.67
168 169 3.473625 CTCTGCTAATGATGCCATGTCA 58.526 45.455 0.00 0.00 32.36 3.58
169 170 2.812591 CCTCTGCTAATGATGCCATGTC 59.187 50.000 0.00 0.00 32.36 3.06
170 171 2.174210 ACCTCTGCTAATGATGCCATGT 59.826 45.455 0.00 0.00 32.36 3.21
171 172 2.860009 ACCTCTGCTAATGATGCCATG 58.140 47.619 0.00 0.00 32.36 3.66
172 173 3.117776 TGAACCTCTGCTAATGATGCCAT 60.118 43.478 0.00 0.00 33.66 4.40
173 174 2.239402 TGAACCTCTGCTAATGATGCCA 59.761 45.455 0.00 0.00 0.00 4.92
174 175 2.615912 GTGAACCTCTGCTAATGATGCC 59.384 50.000 0.00 0.00 0.00 4.40
175 176 3.311871 CAGTGAACCTCTGCTAATGATGC 59.688 47.826 0.00 0.00 0.00 3.91
176 177 4.511527 ACAGTGAACCTCTGCTAATGATG 58.488 43.478 0.00 0.00 36.50 3.07
177 178 4.833478 ACAGTGAACCTCTGCTAATGAT 57.167 40.909 0.00 0.00 36.50 2.45
178 179 4.382040 GCTACAGTGAACCTCTGCTAATGA 60.382 45.833 0.00 0.00 36.50 2.57
179 180 3.868077 GCTACAGTGAACCTCTGCTAATG 59.132 47.826 0.00 0.00 36.50 1.90
180 181 3.772025 AGCTACAGTGAACCTCTGCTAAT 59.228 43.478 0.00 0.00 36.50 1.73
181 182 3.165875 AGCTACAGTGAACCTCTGCTAA 58.834 45.455 0.00 0.00 36.50 3.09
182 183 2.808919 AGCTACAGTGAACCTCTGCTA 58.191 47.619 0.00 0.00 36.50 3.49
183 184 1.638529 AGCTACAGTGAACCTCTGCT 58.361 50.000 0.00 0.00 36.50 4.24
184 185 2.464157 AAGCTACAGTGAACCTCTGC 57.536 50.000 0.00 0.00 36.50 4.26
185 186 7.439655 GGATAATTAAGCTACAGTGAACCTCTG 59.560 40.741 0.00 0.00 38.68 3.35
186 187 7.501844 GGATAATTAAGCTACAGTGAACCTCT 58.498 38.462 0.00 0.00 0.00 3.69
187 188 6.421202 CGGATAATTAAGCTACAGTGAACCTC 59.579 42.308 0.00 0.00 0.00 3.85
188 189 6.281405 CGGATAATTAAGCTACAGTGAACCT 58.719 40.000 0.00 0.00 0.00 3.50
189 190 5.465724 CCGGATAATTAAGCTACAGTGAACC 59.534 44.000 0.00 0.00 0.00 3.62
190 191 5.465724 CCCGGATAATTAAGCTACAGTGAAC 59.534 44.000 0.73 0.00 0.00 3.18
191 192 5.607477 CCCGGATAATTAAGCTACAGTGAA 58.393 41.667 0.73 0.00 0.00 3.18
192 193 4.502604 GCCCGGATAATTAAGCTACAGTGA 60.503 45.833 0.73 0.00 0.00 3.41
193 194 3.746492 GCCCGGATAATTAAGCTACAGTG 59.254 47.826 0.73 0.00 0.00 3.66
194 195 3.554337 CGCCCGGATAATTAAGCTACAGT 60.554 47.826 0.73 0.00 0.00 3.55
195 196 2.993899 CGCCCGGATAATTAAGCTACAG 59.006 50.000 0.73 0.00 0.00 2.74
196 197 2.366266 ACGCCCGGATAATTAAGCTACA 59.634 45.455 0.73 0.00 0.00 2.74
197 198 2.991866 GACGCCCGGATAATTAAGCTAC 59.008 50.000 0.73 0.00 0.00 3.58
198 199 2.629137 TGACGCCCGGATAATTAAGCTA 59.371 45.455 0.73 0.00 0.00 3.32
199 200 1.414919 TGACGCCCGGATAATTAAGCT 59.585 47.619 0.73 0.00 0.00 3.74
200 201 1.529865 GTGACGCCCGGATAATTAAGC 59.470 52.381 0.73 0.00 0.00 3.09
201 202 2.542595 GTGTGACGCCCGGATAATTAAG 59.457 50.000 0.73 0.00 0.00 1.85
202 203 2.168936 AGTGTGACGCCCGGATAATTAA 59.831 45.455 0.73 0.00 0.00 1.40
203 204 1.758280 AGTGTGACGCCCGGATAATTA 59.242 47.619 0.73 0.00 0.00 1.40
204 205 0.539986 AGTGTGACGCCCGGATAATT 59.460 50.000 0.73 0.00 0.00 1.40
205 206 0.179084 CAGTGTGACGCCCGGATAAT 60.179 55.000 0.73 0.00 0.00 1.28
206 207 1.216977 CAGTGTGACGCCCGGATAA 59.783 57.895 0.73 0.00 0.00 1.75
207 208 2.889617 CAGTGTGACGCCCGGATA 59.110 61.111 0.73 0.00 0.00 2.59
208 209 4.760047 GCAGTGTGACGCCCGGAT 62.760 66.667 0.73 0.00 0.00 4.18
212 213 4.012895 CAACGCAGTGTGACGCCC 62.013 66.667 11.43 0.00 45.00 6.13
213 214 4.012895 CCAACGCAGTGTGACGCC 62.013 66.667 11.43 0.00 45.00 5.68
214 215 2.227968 GATCCAACGCAGTGTGACGC 62.228 60.000 11.43 0.00 45.00 5.19
215 216 0.667487 AGATCCAACGCAGTGTGACG 60.667 55.000 11.43 0.00 45.00 4.35
216 217 1.071605 GAGATCCAACGCAGTGTGAC 58.928 55.000 11.43 0.00 45.00 3.67
217 218 0.037326 GGAGATCCAACGCAGTGTGA 60.037 55.000 11.43 0.00 45.00 3.58
218 219 1.021390 GGGAGATCCAACGCAGTGTG 61.021 60.000 1.11 1.11 45.00 3.82
219 220 1.296715 GGGAGATCCAACGCAGTGT 59.703 57.895 0.47 0.00 45.00 3.55
220 221 1.450312 GGGGAGATCCAACGCAGTG 60.450 63.158 0.47 0.00 45.00 3.66
321 322 0.994247 AGCACTGATGACATCCCCAA 59.006 50.000 12.90 0.00 0.00 4.12
335 336 3.181473 TGAAAAAGCTTCAATGCAGCACT 60.181 39.130 7.72 0.00 39.99 4.40
360 361 0.599060 TATGTCACGACAGCACCGAA 59.401 50.000 6.01 0.00 45.48 4.30
591 592 2.124695 GGCCGTTGGATCTGGGAC 60.125 66.667 0.00 0.00 0.00 4.46
783 788 3.998672 TGTGGGTCGAACTCCGCC 61.999 66.667 0.00 0.00 38.37 6.13
784 789 2.737376 GTGTGGGTCGAACTCCGC 60.737 66.667 0.00 3.85 38.37 5.54
785 790 2.048503 GGTGTGGGTCGAACTCCG 60.049 66.667 0.00 0.00 40.25 4.63
786 791 2.346365 GGGTGTGGGTCGAACTCC 59.654 66.667 0.00 0.00 0.00 3.85
787 792 2.048503 CGGGTGTGGGTCGAACTC 60.049 66.667 0.00 0.00 0.00 3.01
788 793 2.095978 CTTCGGGTGTGGGTCGAACT 62.096 60.000 0.00 0.00 37.88 3.01
789 794 1.666872 CTTCGGGTGTGGGTCGAAC 60.667 63.158 0.00 0.00 37.88 3.95
790 795 2.738480 CTTCGGGTGTGGGTCGAA 59.262 61.111 0.00 0.00 40.03 3.71
791 796 3.998672 GCTTCGGGTGTGGGTCGA 61.999 66.667 0.00 0.00 0.00 4.20
792 797 3.605749 ATGCTTCGGGTGTGGGTCG 62.606 63.158 0.00 0.00 0.00 4.79
793 798 1.303317 AATGCTTCGGGTGTGGGTC 60.303 57.895 0.00 0.00 0.00 4.46
794 799 1.603455 CAATGCTTCGGGTGTGGGT 60.603 57.895 0.00 0.00 0.00 4.51
795 800 1.178534 AACAATGCTTCGGGTGTGGG 61.179 55.000 0.00 0.00 0.00 4.61
796 801 0.039256 CAACAATGCTTCGGGTGTGG 60.039 55.000 0.00 0.00 0.00 4.17
797 802 3.477504 CAACAATGCTTCGGGTGTG 57.522 52.632 0.00 0.00 0.00 3.82
808 813 1.457346 GAGAGGGTGGAGCAACAATG 58.543 55.000 0.00 0.00 0.00 2.82
809 814 0.329596 GGAGAGGGTGGAGCAACAAT 59.670 55.000 0.00 0.00 0.00 2.71
810 815 1.761174 GGAGAGGGTGGAGCAACAA 59.239 57.895 0.00 0.00 0.00 2.83
811 816 2.224159 GGGAGAGGGTGGAGCAACA 61.224 63.158 0.00 0.00 0.00 3.33
812 817 2.671682 GGGAGAGGGTGGAGCAAC 59.328 66.667 0.00 0.00 0.00 4.17
813 818 3.003173 CGGGAGAGGGTGGAGCAA 61.003 66.667 0.00 0.00 0.00 3.91
833 838 4.802051 CTGCCGGTGTGGGATGGG 62.802 72.222 1.90 0.00 37.50 4.00
834 839 3.716195 TCTGCCGGTGTGGGATGG 61.716 66.667 1.90 0.00 37.50 3.51
835 840 2.436646 GTCTGCCGGTGTGGGATG 60.437 66.667 1.90 0.00 37.50 3.51
836 841 2.607750 AGTCTGCCGGTGTGGGAT 60.608 61.111 1.90 0.00 37.50 3.85
837 842 3.625897 CAGTCTGCCGGTGTGGGA 61.626 66.667 1.90 0.00 38.63 4.37
985 1055 1.927527 ACATCTGGCCTGGGAGCTT 60.928 57.895 10.07 0.00 0.00 3.74
1155 1228 2.607499 TCAATCAGCCAACCAACCAAT 58.393 42.857 0.00 0.00 0.00 3.16
1196 1269 4.996434 GCCCGATATGCGCCTGCT 62.996 66.667 4.18 0.00 43.34 4.24
1206 1279 2.207229 CGTCCATCCCTGCCCGATA 61.207 63.158 0.00 0.00 0.00 2.92
1214 1288 2.060980 GTCCAGCTCGTCCATCCCT 61.061 63.158 0.00 0.00 0.00 4.20
1286 1360 2.571757 GCGATGTCGTGGTCCTCA 59.428 61.111 4.20 0.00 42.22 3.86
1424 1503 4.038763 CCACCCGCTCAAAGATATACTACA 59.961 45.833 0.00 0.00 0.00 2.74
1546 1625 9.238368 CCAAATTTACACTAGGAATTACCAAGA 57.762 33.333 0.00 0.00 42.04 3.02
1552 1631 8.861086 TGCAAACCAAATTTACACTAGGAATTA 58.139 29.630 0.00 0.00 0.00 1.40
1578 1657 3.323403 GCCAGACCTCACTAGAGCATTAT 59.677 47.826 0.00 0.00 40.68 1.28
1678 1757 5.527582 GGTTCTTGCGTTCCATAATCTACAT 59.472 40.000 0.00 0.00 0.00 2.29
1682 1761 2.936498 CGGTTCTTGCGTTCCATAATCT 59.064 45.455 0.00 0.00 0.00 2.40
1759 1862 2.188829 GCTGCCAGAGCACAACACA 61.189 57.895 0.00 0.00 46.52 3.72
1760 1863 2.641559 GCTGCCAGAGCACAACAC 59.358 61.111 0.00 0.00 46.52 3.32
2012 2115 3.475566 AGCACAGCAGACTTGAAACTA 57.524 42.857 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.