Multiple sequence alignment - TraesCS2A01G198800

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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 TraesCS2A01G198800 chr2A 100.000 4082 0 0 1 4082 171078960 171083041 0.000000e+00 7539
1 TraesCS2A01G198800 chr2A 92.614 176 7 4 130 302 171079001 171079173 8.760000e-62 248
2 TraesCS2A01G198800 chr2A 92.614 176 7 4 42 214 171079089 171079261 8.760000e-62 248
3 TraesCS2A01G198800 chr2A 92.045 88 7 0 215 302 171079001 171079088 1.540000e-24 124
4 TraesCS2A01G198800 chr2A 92.045 88 7 0 42 129 171079174 171079261 1.540000e-24 124
5 TraesCS2A01G198800 chr2D 95.090 3849 135 18 130 3962 159851630 159855440 0.000000e+00 6011
6 TraesCS2A01G198800 chr2D 90.826 218 10 4 1 214 159851589 159851800 2.400000e-72 283
7 TraesCS2A01G198800 chr2D 94.318 88 5 0 42 129 159851713 159851800 7.120000e-28 135
8 TraesCS2A01G198800 chr2D 90.789 76 4 3 215 288 159851630 159851704 9.340000e-17 99
9 TraesCS2A01G198800 chr2B 95.548 3639 142 11 130 3756 216941281 216944911 0.000000e+00 5805
10 TraesCS2A01G198800 chr2B 91.705 217 14 3 1 214 216941241 216941456 8.580000e-77 298
11 TraesCS2A01G198800 chr2B 90.367 218 16 2 3747 3962 216946117 216946331 8.640000e-72 281
12 TraesCS2A01G198800 chrUn 97.442 391 10 0 1698 2088 479827048 479827438 0.000000e+00 667
13 TraesCS2A01G198800 chr1B 93.860 114 6 1 3960 4072 181435227 181435340 1.950000e-38 171
14 TraesCS2A01G198800 chr5D 91.000 100 4 1 3983 4082 560185814 560185720 3.310000e-26 130


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 TraesCS2A01G198800 chr2A 171078960 171083041 4081 False 7539 7539 100.00000 1 4082 1 chr2A.!!$F1 4081
1 TraesCS2A01G198800 chr2D 159851589 159855440 3851 False 1632 6011 92.75575 1 3962 4 chr2D.!!$F1 3961
2 TraesCS2A01G198800 chr2B 216941241 216946331 5090 False 2128 5805 92.54000 1 3962 3 chr2B.!!$F1 3961

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
703 709 0.036010 CACCTGTTGGGAAGCTCGAT 60.036 55.0 0.0 0.0 38.76 3.59 F
1199 1214 0.035458 ACCAAGGACGAGCTGAAAGG 59.965 55.0 0.0 0.0 0.00 3.11 F
1503 1518 0.527565 GCCACAATGACACATGGGAC 59.472 55.0 0.0 0.0 32.49 4.46 F
1914 1929 0.752658 GCTTGGTTTGGTGCCTTCTT 59.247 50.0 0.0 0.0 0.00 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1891 1906 0.760189 AGGCACCAAACCAAGCACAT 60.760 50.000 0.00 0.00 0.0 3.21 R
2325 2340 2.100252 CCTCAATGGCCATGTTAGCAAG 59.900 50.000 21.63 8.86 0.0 4.01 R
2373 2388 2.363795 TGGAGGTACAGGAGGGCG 60.364 66.667 0.00 0.00 0.0 6.13 R
3855 5087 0.694771 ATGACATGGTGCCTCTGTGT 59.305 50.000 0.00 0.00 0.0 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
152 154 5.545658 AAAAATATCAGAACGTGCGACAT 57.454 34.783 0.00 0.00 0.00 3.06
153 155 5.545658 AAAATATCAGAACGTGCGACATT 57.454 34.783 0.00 0.00 0.00 2.71
154 156 5.545658 AAATATCAGAACGTGCGACATTT 57.454 34.783 0.00 0.00 0.00 2.32
155 157 5.545658 AATATCAGAACGTGCGACATTTT 57.454 34.783 0.00 0.00 0.00 1.82
156 158 2.661504 TCAGAACGTGCGACATTTTG 57.338 45.000 0.00 0.00 0.00 2.44
157 159 1.937223 TCAGAACGTGCGACATTTTGT 59.063 42.857 0.00 0.00 0.00 2.83
158 160 2.353269 TCAGAACGTGCGACATTTTGTT 59.647 40.909 0.00 0.00 0.00 2.83
159 161 3.105203 CAGAACGTGCGACATTTTGTTT 58.895 40.909 0.00 0.00 0.00 2.83
160 162 3.061928 CAGAACGTGCGACATTTTGTTTG 60.062 43.478 0.00 0.00 0.00 2.93
161 163 1.196200 ACGTGCGACATTTTGTTTGC 58.804 45.000 0.00 0.00 34.15 3.68
162 164 1.202245 ACGTGCGACATTTTGTTTGCT 60.202 42.857 0.00 0.00 34.49 3.91
163 165 1.447938 CGTGCGACATTTTGTTTGCTC 59.552 47.619 0.00 3.82 34.49 4.26
164 166 2.458951 GTGCGACATTTTGTTTGCTCA 58.541 42.857 0.00 0.00 34.49 4.26
165 167 3.052036 GTGCGACATTTTGTTTGCTCAT 58.948 40.909 0.00 0.00 34.49 2.90
166 168 3.051327 TGCGACATTTTGTTTGCTCATG 58.949 40.909 0.00 0.00 34.49 3.07
167 169 3.052036 GCGACATTTTGTTTGCTCATGT 58.948 40.909 0.00 0.00 31.90 3.21
168 170 3.490526 GCGACATTTTGTTTGCTCATGTT 59.509 39.130 0.00 0.00 31.90 2.71
169 171 4.025813 GCGACATTTTGTTTGCTCATGTTT 60.026 37.500 0.00 0.00 31.90 2.83
170 172 5.425398 CGACATTTTGTTTGCTCATGTTTG 58.575 37.500 0.00 0.00 0.00 2.93
171 173 5.231779 CGACATTTTGTTTGCTCATGTTTGA 59.768 36.000 0.00 0.00 0.00 2.69
172 174 6.348621 ACATTTTGTTTGCTCATGTTTGAC 57.651 33.333 0.00 0.00 0.00 3.18
173 175 5.873712 ACATTTTGTTTGCTCATGTTTGACA 59.126 32.000 0.00 0.00 0.00 3.58
174 176 6.036300 ACATTTTGTTTGCTCATGTTTGACAG 59.964 34.615 0.00 0.00 0.00 3.51
175 177 4.717233 TTGTTTGCTCATGTTTGACAGT 57.283 36.364 0.00 0.00 0.00 3.55
176 178 4.031418 TGTTTGCTCATGTTTGACAGTG 57.969 40.909 0.00 0.00 0.00 3.66
177 179 2.780065 TTGCTCATGTTTGACAGTGC 57.220 45.000 0.00 0.00 0.00 4.40
178 180 0.953727 TGCTCATGTTTGACAGTGCC 59.046 50.000 0.00 0.00 0.00 5.01
179 181 1.242076 GCTCATGTTTGACAGTGCCT 58.758 50.000 0.00 0.00 0.00 4.75
180 182 1.068748 GCTCATGTTTGACAGTGCCTG 60.069 52.381 0.00 1.16 37.52 4.85
182 184 2.620115 CTCATGTTTGACAGTGCCTGTT 59.380 45.455 8.90 0.00 45.44 3.16
183 185 3.023119 TCATGTTTGACAGTGCCTGTTT 58.977 40.909 8.90 0.00 45.44 2.83
184 186 3.446873 TCATGTTTGACAGTGCCTGTTTT 59.553 39.130 8.90 0.00 45.44 2.43
185 187 3.502191 TGTTTGACAGTGCCTGTTTTC 57.498 42.857 8.90 0.00 45.44 2.29
186 188 3.088532 TGTTTGACAGTGCCTGTTTTCT 58.911 40.909 8.90 0.00 45.44 2.52
187 189 3.128589 TGTTTGACAGTGCCTGTTTTCTC 59.871 43.478 8.90 0.00 45.44 2.87
188 190 3.281727 TTGACAGTGCCTGTTTTCTCT 57.718 42.857 8.90 0.00 45.44 3.10
189 191 4.415881 TTGACAGTGCCTGTTTTCTCTA 57.584 40.909 8.90 0.00 45.44 2.43
190 192 4.623932 TGACAGTGCCTGTTTTCTCTAT 57.376 40.909 8.90 0.00 45.44 1.98
191 193 5.738619 TGACAGTGCCTGTTTTCTCTATA 57.261 39.130 8.90 0.00 45.44 1.31
192 194 5.479306 TGACAGTGCCTGTTTTCTCTATAC 58.521 41.667 8.90 0.00 45.44 1.47
193 195 5.246203 TGACAGTGCCTGTTTTCTCTATACT 59.754 40.000 8.90 0.00 45.44 2.12
194 196 6.436218 TGACAGTGCCTGTTTTCTCTATACTA 59.564 38.462 8.90 0.00 45.44 1.82
195 197 7.039293 TGACAGTGCCTGTTTTCTCTATACTAA 60.039 37.037 8.90 0.00 45.44 2.24
196 198 7.324178 ACAGTGCCTGTTTTCTCTATACTAAG 58.676 38.462 2.38 0.00 42.59 2.18
197 199 7.178628 ACAGTGCCTGTTTTCTCTATACTAAGA 59.821 37.037 2.38 0.00 42.59 2.10
198 200 8.200792 CAGTGCCTGTTTTCTCTATACTAAGAT 58.799 37.037 0.00 0.00 0.00 2.40
199 201 8.763601 AGTGCCTGTTTTCTCTATACTAAGATT 58.236 33.333 0.00 0.00 0.00 2.40
200 202 9.384764 GTGCCTGTTTTCTCTATACTAAGATTT 57.615 33.333 0.00 0.00 0.00 2.17
201 203 9.383519 TGCCTGTTTTCTCTATACTAAGATTTG 57.616 33.333 0.00 0.00 0.00 2.32
202 204 9.384764 GCCTGTTTTCTCTATACTAAGATTTGT 57.615 33.333 0.00 0.00 0.00 2.83
236 238 4.336532 AAAAATATCAGAACGTGCGGAC 57.663 40.909 0.00 0.00 0.00 4.79
247 249 0.502275 CGTGCGGACATTTTGTTTGC 59.498 50.000 8.11 0.00 33.32 3.68
330 332 4.488770 ACTGAACTTCCTTCTCTCTTCCT 58.511 43.478 0.00 0.00 0.00 3.36
476 480 1.275291 GAATGTCTGAACCCAGTCGGA 59.725 52.381 0.00 0.00 41.16 4.55
492 496 1.220749 GGACGAAGCCTGCCACATA 59.779 57.895 0.00 0.00 0.00 2.29
493 497 0.179045 GGACGAAGCCTGCCACATAT 60.179 55.000 0.00 0.00 0.00 1.78
591 597 0.243636 GGAACAACATTTGGGCGGAG 59.756 55.000 0.00 0.00 34.12 4.63
592 598 1.243902 GAACAACATTTGGGCGGAGA 58.756 50.000 0.00 0.00 34.12 3.71
598 604 2.057922 ACATTTGGGCGGAGATATCCT 58.942 47.619 4.57 0.00 0.00 3.24
604 610 1.244697 GGCGGAGATATCCTCGAGCA 61.245 60.000 6.99 0.00 43.40 4.26
606 612 1.529226 CGGAGATATCCTCGAGCACT 58.471 55.000 6.99 0.92 42.89 4.40
618 624 0.886490 CGAGCACTGTGGCCTCTTTT 60.886 55.000 10.21 0.00 0.00 2.27
620 626 0.886490 AGCACTGTGGCCTCTTTTCG 60.886 55.000 10.21 0.00 0.00 3.46
694 700 2.347490 CCCGTCTCACCTGTTGGG 59.653 66.667 0.00 0.00 41.89 4.12
703 709 0.036010 CACCTGTTGGGAAGCTCGAT 60.036 55.000 0.00 0.00 38.76 3.59
840 847 3.241067 GCAGTATGACAACCCGAGTAA 57.759 47.619 0.00 0.00 39.69 2.24
841 848 3.592059 GCAGTATGACAACCCGAGTAAA 58.408 45.455 0.00 0.00 39.69 2.01
842 849 3.998341 GCAGTATGACAACCCGAGTAAAA 59.002 43.478 0.00 0.00 39.69 1.52
958 966 3.587498 TCTGTTCCTCTTCTTCCTTCCA 58.413 45.455 0.00 0.00 0.00 3.53
959 967 3.580458 TCTGTTCCTCTTCTTCCTTCCAG 59.420 47.826 0.00 0.00 0.00 3.86
960 968 2.639839 TGTTCCTCTTCTTCCTTCCAGG 59.360 50.000 0.00 0.00 36.46 4.45
962 970 1.203364 TCCTCTTCTTCCTTCCAGGCT 60.203 52.381 0.00 0.00 34.61 4.58
963 971 1.632920 CCTCTTCTTCCTTCCAGGCTT 59.367 52.381 0.00 0.00 34.61 4.35
1012 1027 1.685517 CTCCAGCCATGAGATCGAGAA 59.314 52.381 0.00 0.00 31.26 2.87
1052 1067 1.537135 GGCTCTCCAGTTCGTGCTATC 60.537 57.143 0.00 0.00 0.00 2.08
1060 1075 3.182967 CAGTTCGTGCTATCCTTCACTC 58.817 50.000 0.00 0.00 0.00 3.51
1072 1087 4.842531 TCCTTCACTCTCAATATTGCCA 57.157 40.909 10.76 0.00 0.00 4.92
1121 1136 7.519008 GCTGAATTTCACCGAATCCAACTATAG 60.519 40.741 0.00 0.00 0.00 1.31
1179 1194 2.206576 ACAACAAGGGGATCAAGCTC 57.793 50.000 0.00 0.00 0.00 4.09
1194 1209 1.739562 GCTCACCAAGGACGAGCTG 60.740 63.158 20.41 0.00 46.86 4.24
1199 1214 0.035458 ACCAAGGACGAGCTGAAAGG 59.965 55.000 0.00 0.00 0.00 3.11
1237 1252 2.646175 GGCCGAGCAGTCTACACCA 61.646 63.158 0.00 0.00 0.00 4.17
1323 1338 4.164822 CAGGATAACTGCCACAAACTTG 57.835 45.455 0.00 0.00 40.97 3.16
1325 1340 4.074970 AGGATAACTGCCACAAACTTGAG 58.925 43.478 0.00 0.00 0.00 3.02
1333 1348 0.594796 CACAAACTTGAGCGCAACCC 60.595 55.000 11.47 0.00 0.00 4.11
1443 1458 2.408271 TCAGCAATGGGAGTGATCAC 57.592 50.000 18.47 18.47 0.00 3.06
1503 1518 0.527565 GCCACAATGACACATGGGAC 59.472 55.000 0.00 0.00 32.49 4.46
1512 1527 0.856982 ACACATGGGACCCAAAAGGA 59.143 50.000 19.58 0.00 36.95 3.36
1550 1565 4.611355 CGACATCCATTCAATTGTATCCGC 60.611 45.833 5.13 0.00 0.00 5.54
1552 1567 4.644234 ACATCCATTCAATTGTATCCGCAA 59.356 37.500 5.13 0.00 0.00 4.85
1553 1568 4.630894 TCCATTCAATTGTATCCGCAAC 57.369 40.909 5.13 0.00 0.00 4.17
1557 1572 5.350633 CATTCAATTGTATCCGCAACCAAT 58.649 37.500 5.13 0.00 0.00 3.16
1868 1883 4.656112 ACTGGTCATAAGCTTGGCTACTAT 59.344 41.667 9.86 0.00 38.25 2.12
1869 1884 5.839063 ACTGGTCATAAGCTTGGCTACTATA 59.161 40.000 9.86 0.00 38.25 1.31
1871 1886 6.522054 TGGTCATAAGCTTGGCTACTATAAC 58.478 40.000 9.86 0.00 38.25 1.89
1879 1894 4.267928 GCTTGGCTACTATAACAAGTGTCG 59.732 45.833 0.00 0.00 41.65 4.35
1884 1899 4.797349 GCTACTATAACAAGTGTCGTGGTC 59.203 45.833 0.00 0.00 0.00 4.02
1891 1906 2.691526 ACAAGTGTCGTGGTCTGTTCTA 59.308 45.455 0.00 0.00 0.00 2.10
1914 1929 0.752658 GCTTGGTTTGGTGCCTTCTT 59.247 50.000 0.00 0.00 0.00 2.52
1962 1977 7.721399 AGAAATGAGAAACAAAAGAAGCTAGGA 59.279 33.333 0.00 0.00 0.00 2.94
1965 1980 7.907214 TGAGAAACAAAAGAAGCTAGGATAC 57.093 36.000 0.00 0.00 0.00 2.24
2253 2268 2.042831 GGGCTGGTGTCATGAGCAC 61.043 63.158 15.77 15.77 34.20 4.40
2325 2340 7.321153 ACACACACCTCTATGATAACAGTAAC 58.679 38.462 0.00 0.00 0.00 2.50
2799 2814 1.079503 GCTTGATGGTTGTCGGACTC 58.920 55.000 9.88 2.82 0.00 3.36
2835 2850 4.141937 CCAGATTACAATCTCCGACCTTCA 60.142 45.833 1.40 0.00 43.65 3.02
2892 2907 0.835543 CATTGCCAAACCTTCCCCCA 60.836 55.000 0.00 0.00 0.00 4.96
2981 2996 1.673665 GGACACTCAAGCAGCAGGG 60.674 63.158 0.00 0.00 0.00 4.45
3140 3155 2.094234 ACTTTCGCTTTTGTTTGGTGCT 60.094 40.909 0.00 0.00 0.00 4.40
3143 3158 1.680735 TCGCTTTTGTTTGGTGCTGAT 59.319 42.857 0.00 0.00 0.00 2.90
3442 3457 5.014858 CCTACTCTCACAACCTACTAACCA 58.985 45.833 0.00 0.00 0.00 3.67
3445 3460 7.341256 CCTACTCTCACAACCTACTAACCATAA 59.659 40.741 0.00 0.00 0.00 1.90
3530 3545 5.825593 TGAACTATGTTCCCTTTCACTCT 57.174 39.130 7.81 0.00 0.00 3.24
3631 3646 6.035843 GGACTGTTACCATAATGCAAACATG 58.964 40.000 0.00 0.00 36.36 3.21
3652 3667 7.064229 ACATGTTTATACCCCCATAACGAAAT 58.936 34.615 0.00 0.00 0.00 2.17
3849 5081 7.004555 AGATCTTACATGCCCATATTCGTTA 57.995 36.000 0.00 0.00 0.00 3.18
3850 5082 7.624549 AGATCTTACATGCCCATATTCGTTAT 58.375 34.615 0.00 0.00 0.00 1.89
3908 5140 4.723789 ACTGGAGGTCCATCATATTGAAGT 59.276 41.667 0.00 0.00 46.46 3.01
3909 5141 5.905331 ACTGGAGGTCCATCATATTGAAGTA 59.095 40.000 0.00 0.00 46.46 2.24
3910 5142 6.386927 ACTGGAGGTCCATCATATTGAAGTAA 59.613 38.462 0.00 0.00 46.46 2.24
3962 5194 3.457610 AAACAAACTTGACATGCCCAG 57.542 42.857 0.00 0.00 0.00 4.45
3963 5195 1.331214 ACAAACTTGACATGCCCAGG 58.669 50.000 0.00 0.00 0.00 4.45
3964 5196 0.604578 CAAACTTGACATGCCCAGGG 59.395 55.000 0.00 0.00 0.00 4.45
3965 5197 0.542702 AAACTTGACATGCCCAGGGG 60.543 55.000 7.91 3.48 38.57 4.79
3966 5198 1.729267 AACTTGACATGCCCAGGGGT 61.729 55.000 7.91 0.00 37.65 4.95
3967 5199 1.679977 CTTGACATGCCCAGGGGTG 60.680 63.158 7.91 0.45 37.65 4.61
3968 5200 3.222599 TTGACATGCCCAGGGGTGG 62.223 63.158 7.91 0.00 37.65 4.61
3969 5201 3.338250 GACATGCCCAGGGGTGGA 61.338 66.667 7.91 0.00 37.65 4.02
3970 5202 3.341629 ACATGCCCAGGGGTGGAG 61.342 66.667 7.91 0.00 37.65 3.86
3971 5203 3.016971 CATGCCCAGGGGTGGAGA 61.017 66.667 7.91 0.00 37.65 3.71
3972 5204 3.017581 ATGCCCAGGGGTGGAGAC 61.018 66.667 7.91 0.00 37.65 3.36
3973 5205 3.889525 ATGCCCAGGGGTGGAGACA 62.890 63.158 7.91 0.00 37.65 3.41
3974 5206 3.721706 GCCCAGGGGTGGAGACAG 61.722 72.222 7.91 0.00 44.46 3.51
3975 5207 3.011517 CCCAGGGGTGGAGACAGG 61.012 72.222 0.00 0.00 44.46 4.00
3976 5208 2.122729 CCAGGGGTGGAGACAGGA 59.877 66.667 0.00 0.00 44.46 3.86
3977 5209 2.294078 CCAGGGGTGGAGACAGGAC 61.294 68.421 0.00 0.00 44.46 3.85
3978 5210 2.122954 AGGGGTGGAGACAGGACC 59.877 66.667 0.00 0.00 44.46 4.46
3979 5211 3.009714 GGGGTGGAGACAGGACCC 61.010 72.222 0.00 0.00 44.46 4.46
3980 5212 3.391382 GGGTGGAGACAGGACCCG 61.391 72.222 0.00 0.00 44.46 5.28
3981 5213 3.391382 GGTGGAGACAGGACCCGG 61.391 72.222 0.00 0.00 44.46 5.73
3982 5214 3.391382 GTGGAGACAGGACCCGGG 61.391 72.222 22.25 22.25 44.46 5.73
3985 5217 4.083862 GAGACAGGACCCGGGCAC 62.084 72.222 24.08 14.53 0.00 5.01
4016 5248 3.361174 CCGGTGCGTGGGAAATTT 58.639 55.556 0.00 0.00 0.00 1.82
4017 5249 1.080839 CCGGTGCGTGGGAAATTTG 60.081 57.895 0.00 0.00 0.00 2.32
4018 5250 1.657556 CGGTGCGTGGGAAATTTGT 59.342 52.632 0.00 0.00 0.00 2.83
4019 5251 0.031449 CGGTGCGTGGGAAATTTGTT 59.969 50.000 0.00 0.00 0.00 2.83
4020 5252 1.537135 CGGTGCGTGGGAAATTTGTTT 60.537 47.619 0.00 0.00 0.00 2.83
4021 5253 2.556257 GGTGCGTGGGAAATTTGTTTT 58.444 42.857 0.00 0.00 0.00 2.43
4022 5254 3.718815 GGTGCGTGGGAAATTTGTTTTA 58.281 40.909 0.00 0.00 0.00 1.52
4023 5255 3.491639 GGTGCGTGGGAAATTTGTTTTAC 59.508 43.478 0.00 0.00 0.00 2.01
4024 5256 3.180782 GTGCGTGGGAAATTTGTTTTACG 59.819 43.478 0.00 0.86 0.00 3.18
4025 5257 2.154198 GCGTGGGAAATTTGTTTTACGC 59.846 45.455 14.71 14.71 46.59 4.42
4026 5258 2.727278 CGTGGGAAATTTGTTTTACGCC 59.273 45.455 0.00 0.00 0.00 5.68
4027 5259 3.061322 GTGGGAAATTTGTTTTACGCCC 58.939 45.455 0.00 0.00 32.08 6.13
4028 5260 2.698797 TGGGAAATTTGTTTTACGCCCA 59.301 40.909 6.03 6.03 36.83 5.36
4029 5261 3.134081 TGGGAAATTTGTTTTACGCCCAA 59.866 39.130 7.39 0.00 36.45 4.12
4030 5262 3.495377 GGGAAATTTGTTTTACGCCCAAC 59.505 43.478 0.00 0.00 31.86 3.77
4031 5263 4.373527 GGAAATTTGTTTTACGCCCAACT 58.626 39.130 0.00 0.00 0.00 3.16
4032 5264 5.509332 GGGAAATTTGTTTTACGCCCAACTA 60.509 40.000 0.00 0.00 31.86 2.24
4033 5265 5.403166 GGAAATTTGTTTTACGCCCAACTAC 59.597 40.000 0.00 0.00 0.00 2.73
4034 5266 3.986442 TTTGTTTTACGCCCAACTACC 57.014 42.857 0.00 0.00 0.00 3.18
4035 5267 2.934886 TGTTTTACGCCCAACTACCT 57.065 45.000 0.00 0.00 0.00 3.08
4036 5268 4.348863 TTGTTTTACGCCCAACTACCTA 57.651 40.909 0.00 0.00 0.00 3.08
4037 5269 3.929094 TGTTTTACGCCCAACTACCTAG 58.071 45.455 0.00 0.00 0.00 3.02
4038 5270 3.577848 TGTTTTACGCCCAACTACCTAGA 59.422 43.478 0.00 0.00 0.00 2.43
4039 5271 4.223477 TGTTTTACGCCCAACTACCTAGAT 59.777 41.667 0.00 0.00 0.00 1.98
4040 5272 5.181009 GTTTTACGCCCAACTACCTAGATT 58.819 41.667 0.00 0.00 0.00 2.40
4041 5273 5.425196 TTTACGCCCAACTACCTAGATTT 57.575 39.130 0.00 0.00 0.00 2.17
4042 5274 3.538634 ACGCCCAACTACCTAGATTTC 57.461 47.619 0.00 0.00 0.00 2.17
4043 5275 2.835764 ACGCCCAACTACCTAGATTTCA 59.164 45.455 0.00 0.00 0.00 2.69
4044 5276 3.262405 ACGCCCAACTACCTAGATTTCAA 59.738 43.478 0.00 0.00 0.00 2.69
4045 5277 3.871594 CGCCCAACTACCTAGATTTCAAG 59.128 47.826 0.00 0.00 0.00 3.02
4046 5278 4.623171 CGCCCAACTACCTAGATTTCAAGT 60.623 45.833 0.00 0.00 0.00 3.16
4047 5279 5.254115 GCCCAACTACCTAGATTTCAAGTT 58.746 41.667 0.00 0.00 0.00 2.66
4048 5280 5.123979 GCCCAACTACCTAGATTTCAAGTTG 59.876 44.000 0.00 0.00 42.05 3.16
4050 5282 6.743575 CAACTACCTAGATTTCAAGTTGGG 57.256 41.667 2.34 0.00 39.90 4.12
4051 5283 4.844884 ACTACCTAGATTTCAAGTTGGGC 58.155 43.478 2.34 0.00 0.00 5.36
4052 5284 3.087370 ACCTAGATTTCAAGTTGGGCC 57.913 47.619 2.34 0.00 0.00 5.80
4053 5285 2.291605 ACCTAGATTTCAAGTTGGGCCC 60.292 50.000 17.59 17.59 0.00 5.80
4054 5286 2.017049 CTAGATTTCAAGTTGGGCCCG 58.983 52.381 19.37 1.40 0.00 6.13
4055 5287 0.611896 AGATTTCAAGTTGGGCCCGG 60.612 55.000 19.37 3.92 0.00 5.73
4056 5288 1.604147 GATTTCAAGTTGGGCCCGGG 61.604 60.000 19.09 19.09 0.00 5.73
4057 5289 3.819016 TTTCAAGTTGGGCCCGGGG 62.819 63.158 25.28 9.31 0.00 5.73
4061 5293 3.876255 AAGTTGGGCCCGGGGTCTA 62.876 63.158 25.28 9.12 0.00 2.59
4062 5294 3.793888 GTTGGGCCCGGGGTCTAG 61.794 72.222 25.28 0.00 0.00 2.43
4073 5305 2.671070 GGTCTAGCCCAGCAAGCA 59.329 61.111 0.00 0.00 0.00 3.91
4074 5306 1.746991 GGTCTAGCCCAGCAAGCAC 60.747 63.158 0.00 0.00 0.00 4.40
4075 5307 1.298014 GTCTAGCCCAGCAAGCACT 59.702 57.895 0.00 0.00 0.00 4.40
4076 5308 1.023513 GTCTAGCCCAGCAAGCACTG 61.024 60.000 0.00 0.00 37.42 3.66
4077 5309 1.002868 CTAGCCCAGCAAGCACTGT 60.003 57.895 0.00 0.00 35.83 3.55
4078 5310 0.250234 CTAGCCCAGCAAGCACTGTA 59.750 55.000 0.00 0.00 35.83 2.74
4079 5311 0.036388 TAGCCCAGCAAGCACTGTAC 60.036 55.000 0.00 0.00 35.83 2.90
4080 5312 2.680913 GCCCAGCAAGCACTGTACG 61.681 63.158 0.00 0.00 35.83 3.67
4081 5313 2.680913 CCCAGCAAGCACTGTACGC 61.681 63.158 0.00 0.00 35.83 4.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 54 7.889745 TGAACAAACAAAATTATCACACGTTG 58.110 30.769 0.00 0.00 0.00 4.10
147 149 5.231779 TCAAACATGAGCAAACAAAATGTCG 59.768 36.000 0.00 0.00 31.29 4.35
150 152 6.036300 ACTGTCAAACATGAGCAAACAAAATG 59.964 34.615 0.00 0.00 0.00 2.32
152 154 5.348179 CACTGTCAAACATGAGCAAACAAAA 59.652 36.000 0.00 0.00 0.00 2.44
153 155 4.863689 CACTGTCAAACATGAGCAAACAAA 59.136 37.500 0.00 0.00 0.00 2.83
154 156 4.422840 CACTGTCAAACATGAGCAAACAA 58.577 39.130 0.00 0.00 0.00 2.83
155 157 3.734597 GCACTGTCAAACATGAGCAAACA 60.735 43.478 0.00 0.00 0.00 2.83
156 158 2.791004 GCACTGTCAAACATGAGCAAAC 59.209 45.455 0.00 0.00 0.00 2.93
157 159 2.223782 GGCACTGTCAAACATGAGCAAA 60.224 45.455 0.00 0.00 0.00 3.68
158 160 1.337703 GGCACTGTCAAACATGAGCAA 59.662 47.619 0.00 0.00 0.00 3.91
159 161 0.953727 GGCACTGTCAAACATGAGCA 59.046 50.000 0.00 0.00 0.00 4.26
160 162 1.242076 AGGCACTGTCAAACATGAGC 58.758 50.000 0.00 0.00 37.18 4.26
173 175 7.719871 TCTTAGTATAGAGAAAACAGGCACT 57.280 36.000 0.00 0.00 43.88 4.40
174 176 8.950208 AATCTTAGTATAGAGAAAACAGGCAC 57.050 34.615 0.00 0.00 0.00 5.01
175 177 9.383519 CAAATCTTAGTATAGAGAAAACAGGCA 57.616 33.333 0.00 0.00 0.00 4.75
176 178 9.384764 ACAAATCTTAGTATAGAGAAAACAGGC 57.615 33.333 0.00 0.00 0.00 4.85
215 217 3.749088 TGTCCGCACGTTCTGATATTTTT 59.251 39.130 0.00 0.00 0.00 1.94
216 218 3.331150 TGTCCGCACGTTCTGATATTTT 58.669 40.909 0.00 0.00 0.00 1.82
217 219 2.967362 TGTCCGCACGTTCTGATATTT 58.033 42.857 0.00 0.00 0.00 1.40
218 220 2.665649 TGTCCGCACGTTCTGATATT 57.334 45.000 0.00 0.00 0.00 1.28
219 221 2.890808 ATGTCCGCACGTTCTGATAT 57.109 45.000 0.00 0.00 0.00 1.63
220 222 2.665649 AATGTCCGCACGTTCTGATA 57.334 45.000 0.00 0.00 0.00 2.15
221 223 1.808411 AAATGTCCGCACGTTCTGAT 58.192 45.000 0.00 0.00 29.81 2.90
222 224 1.262950 CAAAATGTCCGCACGTTCTGA 59.737 47.619 0.00 0.00 29.81 3.27
223 225 1.002900 ACAAAATGTCCGCACGTTCTG 60.003 47.619 0.00 0.00 29.81 3.02
224 226 1.305201 ACAAAATGTCCGCACGTTCT 58.695 45.000 0.00 0.00 29.81 3.01
225 227 2.113910 AACAAAATGTCCGCACGTTC 57.886 45.000 0.00 0.00 29.81 3.95
226 228 2.189342 CAAACAAAATGTCCGCACGTT 58.811 42.857 0.00 0.00 32.72 3.99
227 229 1.833860 CAAACAAAATGTCCGCACGT 58.166 45.000 0.00 0.00 0.00 4.49
228 230 0.502275 GCAAACAAAATGTCCGCACG 59.498 50.000 0.00 0.00 30.57 5.34
229 231 1.786579 GAGCAAACAAAATGTCCGCAC 59.213 47.619 6.80 0.00 32.02 5.34
230 232 1.406898 TGAGCAAACAAAATGTCCGCA 59.593 42.857 6.80 0.00 32.02 5.69
231 233 2.132740 TGAGCAAACAAAATGTCCGC 57.867 45.000 0.00 0.00 0.00 5.54
232 234 3.641648 ACATGAGCAAACAAAATGTCCG 58.358 40.909 0.00 0.00 0.00 4.79
233 235 5.523188 TCAAACATGAGCAAACAAAATGTCC 59.477 36.000 0.00 0.00 31.29 4.02
234 236 6.035866 TGTCAAACATGAGCAAACAAAATGTC 59.964 34.615 0.00 0.00 31.29 3.06
235 237 5.873712 TGTCAAACATGAGCAAACAAAATGT 59.126 32.000 0.00 0.00 32.99 2.71
236 238 6.036300 ACTGTCAAACATGAGCAAACAAAATG 59.964 34.615 0.00 0.00 0.00 2.32
247 249 2.031420 CAGGCACACTGTCAAACATGAG 60.031 50.000 0.00 0.00 42.42 2.90
292 294 3.410631 TCAGTAAACCCGAATGCTCAA 57.589 42.857 0.00 0.00 0.00 3.02
339 341 1.001764 TGCTGTGCATCCCCAAGAG 60.002 57.895 0.00 0.00 31.71 2.85
476 480 1.762957 AGTATATGTGGCAGGCTTCGT 59.237 47.619 0.00 0.00 0.00 3.85
591 597 1.604185 GCCACAGTGCTCGAGGATATC 60.604 57.143 15.58 0.00 0.00 1.63
592 598 0.390860 GCCACAGTGCTCGAGGATAT 59.609 55.000 15.58 1.25 0.00 1.63
598 604 1.758440 AAAGAGGCCACAGTGCTCGA 61.758 55.000 5.01 0.00 0.00 4.04
604 610 0.535102 CCACGAAAAGAGGCCACAGT 60.535 55.000 5.01 0.00 0.00 3.55
606 612 0.817634 CACCACGAAAAGAGGCCACA 60.818 55.000 5.01 0.00 33.55 4.17
618 624 2.902423 AAAAGCAGGCACCACCACGA 62.902 55.000 0.00 0.00 43.14 4.35
620 626 1.067916 CAAAAGCAGGCACCACCAC 59.932 57.895 0.00 0.00 43.14 4.16
694 700 8.847444 AAATAATGAACAATGAATCGAGCTTC 57.153 30.769 0.00 0.00 0.00 3.86
840 847 1.340405 ACTCTCGATGGCCTTGCATTT 60.340 47.619 3.32 0.00 0.00 2.32
841 848 0.254178 ACTCTCGATGGCCTTGCATT 59.746 50.000 3.32 0.00 0.00 3.56
842 849 0.254178 AACTCTCGATGGCCTTGCAT 59.746 50.000 3.32 0.00 0.00 3.96
978 993 0.676151 CTGGAGAAAGAGCAGTGGCC 60.676 60.000 0.00 0.00 42.56 5.36
982 997 0.990374 ATGGCTGGAGAAAGAGCAGT 59.010 50.000 0.00 0.00 36.90 4.40
984 999 0.986527 TCATGGCTGGAGAAAGAGCA 59.013 50.000 0.00 0.00 36.90 4.26
1012 1027 4.475527 GAAGCAAGTTCCCGTGGT 57.524 55.556 0.00 0.00 32.02 4.16
1045 1060 6.073331 GCAATATTGAGAGTGAAGGATAGCAC 60.073 42.308 19.73 0.00 35.30 4.40
1047 1062 5.411053 GGCAATATTGAGAGTGAAGGATAGC 59.589 44.000 19.73 0.00 0.00 2.97
1052 1067 3.314635 GCTGGCAATATTGAGAGTGAAGG 59.685 47.826 19.73 0.01 0.00 3.46
1060 1075 2.283298 ACTGACGCTGGCAATATTGAG 58.717 47.619 19.73 9.48 0.00 3.02
1072 1087 0.540830 AAGGACAGAGGACTGACGCT 60.541 55.000 0.00 0.00 46.03 5.07
1179 1194 1.151668 CTTTCAGCTCGTCCTTGGTG 58.848 55.000 0.00 0.00 0.00 4.17
1323 1338 3.195698 GGATCGTGGGTTGCGCTC 61.196 66.667 9.73 1.18 0.00 5.03
1325 1340 1.522806 TATGGATCGTGGGTTGCGC 60.523 57.895 0.00 0.00 0.00 6.09
1333 1348 0.032130 CCCTCACCGTATGGATCGTG 59.968 60.000 8.33 0.00 39.21 4.35
1443 1458 2.621998 GAGCTCATTGGATGGGTCATTG 59.378 50.000 9.40 0.00 31.83 2.82
1503 1518 1.549203 CCACATGGTCTCCTTTTGGG 58.451 55.000 0.00 0.00 40.87 4.12
1512 1527 1.221840 GTCGATGCCCACATGGTCT 59.778 57.895 0.00 0.00 36.35 3.85
1552 1567 4.700213 GCTACTATTCCACAACACATTGGT 59.300 41.667 0.00 0.00 40.42 3.67
1553 1568 4.699735 TGCTACTATTCCACAACACATTGG 59.300 41.667 0.00 0.00 40.42 3.16
1557 1572 7.826744 TCATTAATGCTACTATTCCACAACACA 59.173 33.333 10.76 0.00 0.00 3.72
1749 1764 1.349688 TCAACAAATCTACCCGTGGCT 59.650 47.619 0.00 0.00 0.00 4.75
1868 1883 3.131577 AGAACAGACCACGACACTTGTTA 59.868 43.478 0.00 0.00 0.00 2.41
1869 1884 2.093658 AGAACAGACCACGACACTTGTT 60.094 45.455 0.00 0.00 0.00 2.83
1871 1886 2.225068 AGAACAGACCACGACACTTG 57.775 50.000 0.00 0.00 0.00 3.16
1879 1894 2.744202 CCAAGCACATAGAACAGACCAC 59.256 50.000 0.00 0.00 0.00 4.16
1884 1899 3.569701 ACCAAACCAAGCACATAGAACAG 59.430 43.478 0.00 0.00 0.00 3.16
1891 1906 0.760189 AGGCACCAAACCAAGCACAT 60.760 50.000 0.00 0.00 0.00 3.21
1914 1929 8.609617 TTCTTGATCTCCTAGTCCTAAAATGA 57.390 34.615 0.00 0.00 0.00 2.57
2253 2268 2.447244 AGACAAGCAAGAACTCTCCG 57.553 50.000 0.00 0.00 0.00 4.63
2325 2340 2.100252 CCTCAATGGCCATGTTAGCAAG 59.900 50.000 21.63 8.86 0.00 4.01
2373 2388 2.363795 TGGAGGTACAGGAGGGCG 60.364 66.667 0.00 0.00 0.00 6.13
2835 2850 6.071560 TCAGTACACTTATGACCTGACGAATT 60.072 38.462 0.00 0.00 33.87 2.17
3140 3155 9.461312 AACTTTAGTGCCATTCTAATACAATCA 57.539 29.630 0.00 0.00 0.00 2.57
3171 3186 6.820656 CCAGAGTTAATAACAACATCTCTGCT 59.179 38.462 5.89 0.00 43.11 4.24
3317 3332 7.621832 TTGTCTTGCTGAATAAAAATGAACG 57.378 32.000 0.00 0.00 0.00 3.95
3384 3399 8.801299 TGATGTAGTGCCAGAATTGATTTTAAA 58.199 29.630 0.00 0.00 0.00 1.52
3442 3457 7.817418 AGTGGTGTTTGTTCACTGTATTTAT 57.183 32.000 0.00 0.00 39.89 1.40
3631 3646 7.283807 ACTTCATTTCGTTATGGGGGTATAAAC 59.716 37.037 0.00 0.00 0.00 2.01
3849 5081 5.116084 ACATGGTGCCTCTGTGTATTAAT 57.884 39.130 0.00 0.00 0.00 1.40
3850 5082 4.019771 TGACATGGTGCCTCTGTGTATTAA 60.020 41.667 0.00 0.00 0.00 1.40
3855 5087 0.694771 ATGACATGGTGCCTCTGTGT 59.305 50.000 0.00 0.00 0.00 3.72
3908 5140 9.081997 CGTTACCGTGGTTTAATACTGTTATTA 57.918 33.333 0.00 0.00 0.00 0.98
3909 5141 7.412891 GCGTTACCGTGGTTTAATACTGTTATT 60.413 37.037 0.00 0.00 36.15 1.40
3910 5142 6.035975 GCGTTACCGTGGTTTAATACTGTTAT 59.964 38.462 0.00 0.00 36.15 1.89
3962 5194 3.009714 GGGTCCTGTCTCCACCCC 61.010 72.222 0.00 0.00 43.79 4.95
3963 5195 3.391382 CGGGTCCTGTCTCCACCC 61.391 72.222 0.00 0.00 45.82 4.61
3964 5196 3.391382 CCGGGTCCTGTCTCCACC 61.391 72.222 0.00 0.00 0.00 4.61
3965 5197 3.391382 CCCGGGTCCTGTCTCCAC 61.391 72.222 14.18 0.00 0.00 4.02
3968 5200 4.083862 GTGCCCGGGTCCTGTCTC 62.084 72.222 24.63 2.41 0.00 3.36
3971 5203 4.326227 TAGGTGCCCGGGTCCTGT 62.326 66.667 34.18 20.33 33.34 4.00
3972 5204 3.470888 CTAGGTGCCCGGGTCCTG 61.471 72.222 34.18 24.35 33.34 3.86
3973 5205 4.798682 CCTAGGTGCCCGGGTCCT 62.799 72.222 31.44 31.44 35.60 3.85
3998 5230 2.272447 AAATTTCCCACGCACCGGG 61.272 57.895 6.32 0.00 46.03 5.73
3999 5231 1.080839 CAAATTTCCCACGCACCGG 60.081 57.895 0.00 0.00 0.00 5.28
4000 5232 0.031449 AACAAATTTCCCACGCACCG 59.969 50.000 0.00 0.00 0.00 4.94
4001 5233 2.232756 AAACAAATTTCCCACGCACC 57.767 45.000 0.00 0.00 0.00 5.01
4002 5234 3.180782 CGTAAAACAAATTTCCCACGCAC 59.819 43.478 0.00 0.00 32.27 5.34
4003 5235 3.372954 CGTAAAACAAATTTCCCACGCA 58.627 40.909 0.00 0.00 32.27 5.24
4004 5236 2.154198 GCGTAAAACAAATTTCCCACGC 59.846 45.455 13.18 13.18 41.72 5.34
4005 5237 2.727278 GGCGTAAAACAAATTTCCCACG 59.273 45.455 0.00 0.00 33.73 4.94
4006 5238 3.061322 GGGCGTAAAACAAATTTCCCAC 58.939 45.455 3.13 0.00 34.28 4.61
4007 5239 2.698797 TGGGCGTAAAACAAATTTCCCA 59.301 40.909 6.03 6.03 39.20 4.37
4008 5240 3.388345 TGGGCGTAAAACAAATTTCCC 57.612 42.857 1.29 1.29 34.56 3.97
4009 5241 4.373527 AGTTGGGCGTAAAACAAATTTCC 58.626 39.130 0.00 0.00 32.27 3.13
4010 5242 5.403166 GGTAGTTGGGCGTAAAACAAATTTC 59.597 40.000 0.00 0.00 32.27 2.17
4011 5243 5.069383 AGGTAGTTGGGCGTAAAACAAATTT 59.931 36.000 0.00 0.00 34.92 1.82
4012 5244 4.585581 AGGTAGTTGGGCGTAAAACAAATT 59.414 37.500 0.00 0.00 0.00 1.82
4013 5245 4.146564 AGGTAGTTGGGCGTAAAACAAAT 58.853 39.130 0.00 0.00 0.00 2.32
4014 5246 3.553904 AGGTAGTTGGGCGTAAAACAAA 58.446 40.909 0.00 0.00 0.00 2.83
4015 5247 3.211718 AGGTAGTTGGGCGTAAAACAA 57.788 42.857 0.00 0.00 0.00 2.83
4016 5248 2.934886 AGGTAGTTGGGCGTAAAACA 57.065 45.000 0.00 0.00 0.00 2.83
4017 5249 4.192429 TCTAGGTAGTTGGGCGTAAAAC 57.808 45.455 0.00 0.00 0.00 2.43
4018 5250 5.425196 AATCTAGGTAGTTGGGCGTAAAA 57.575 39.130 0.00 0.00 0.00 1.52
4019 5251 5.046448 TGAAATCTAGGTAGTTGGGCGTAAA 60.046 40.000 0.00 0.00 0.00 2.01
4020 5252 4.467082 TGAAATCTAGGTAGTTGGGCGTAA 59.533 41.667 0.00 0.00 0.00 3.18
4021 5253 4.025360 TGAAATCTAGGTAGTTGGGCGTA 58.975 43.478 0.00 0.00 0.00 4.42
4022 5254 2.835764 TGAAATCTAGGTAGTTGGGCGT 59.164 45.455 0.00 0.00 0.00 5.68
4023 5255 3.536956 TGAAATCTAGGTAGTTGGGCG 57.463 47.619 0.00 0.00 0.00 6.13
4024 5256 4.844884 ACTTGAAATCTAGGTAGTTGGGC 58.155 43.478 0.00 0.00 0.00 5.36
4025 5257 6.743575 CAACTTGAAATCTAGGTAGTTGGG 57.256 41.667 8.07 0.00 39.00 4.12
4027 5259 5.123979 GCCCAACTTGAAATCTAGGTAGTTG 59.876 44.000 8.76 8.76 41.12 3.16
4028 5260 5.254115 GCCCAACTTGAAATCTAGGTAGTT 58.746 41.667 0.00 0.00 0.00 2.24
4029 5261 4.324331 GGCCCAACTTGAAATCTAGGTAGT 60.324 45.833 0.00 0.00 0.00 2.73
4030 5262 4.200092 GGCCCAACTTGAAATCTAGGTAG 58.800 47.826 0.00 0.00 0.00 3.18
4031 5263 3.053917 GGGCCCAACTTGAAATCTAGGTA 60.054 47.826 19.95 0.00 0.00 3.08
4032 5264 2.291605 GGGCCCAACTTGAAATCTAGGT 60.292 50.000 19.95 0.00 0.00 3.08
4033 5265 2.379005 GGGCCCAACTTGAAATCTAGG 58.621 52.381 19.95 0.00 0.00 3.02
4034 5266 2.017049 CGGGCCCAACTTGAAATCTAG 58.983 52.381 24.92 0.00 0.00 2.43
4035 5267 1.340600 CCGGGCCCAACTTGAAATCTA 60.341 52.381 24.92 0.00 0.00 1.98
4036 5268 0.611896 CCGGGCCCAACTTGAAATCT 60.612 55.000 24.92 0.00 0.00 2.40
4037 5269 1.604147 CCCGGGCCCAACTTGAAATC 61.604 60.000 24.92 0.00 0.00 2.17
4038 5270 1.609210 CCCGGGCCCAACTTGAAAT 60.609 57.895 24.92 0.00 0.00 2.17
4039 5271 2.203567 CCCGGGCCCAACTTGAAA 60.204 61.111 24.92 0.00 0.00 2.69
4040 5272 4.293671 CCCCGGGCCCAACTTGAA 62.294 66.667 24.92 0.00 0.00 2.69
4043 5275 3.876255 TAGACCCCGGGCCCAACTT 62.876 63.158 24.92 1.81 0.00 2.66
4044 5276 4.342086 TAGACCCCGGGCCCAACT 62.342 66.667 24.92 14.71 0.00 3.16
4045 5277 3.793888 CTAGACCCCGGGCCCAAC 61.794 72.222 24.92 7.58 0.00 3.77
4056 5288 1.746991 GTGCTTGCTGGGCTAGACC 60.747 63.158 8.06 8.06 33.57 3.85
4057 5289 1.023513 CAGTGCTTGCTGGGCTAGAC 61.024 60.000 0.43 0.00 33.57 2.59
4058 5290 1.297689 CAGTGCTTGCTGGGCTAGA 59.702 57.895 0.43 0.00 33.57 2.43
4059 5291 0.250234 TACAGTGCTTGCTGGGCTAG 59.750 55.000 0.00 0.00 40.59 3.42
4060 5292 0.036388 GTACAGTGCTTGCTGGGCTA 60.036 55.000 8.03 0.00 40.59 3.93
4061 5293 1.302832 GTACAGTGCTTGCTGGGCT 60.303 57.895 8.03 0.00 40.59 5.19
4062 5294 2.680913 CGTACAGTGCTTGCTGGGC 61.681 63.158 8.03 0.00 40.59 5.36
4063 5295 2.680913 GCGTACAGTGCTTGCTGGG 61.681 63.158 8.03 0.28 40.59 4.45
4064 5296 2.863153 GCGTACAGTGCTTGCTGG 59.137 61.111 8.03 0.00 40.59 4.85


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

AutoCloner maintained by Alex Coulton.