Multiple sequence alignment - TraesCS4B01G105200

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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 TraesCS4B01G105200 chr4B 100.000 3892 0 0 505 4396 112919392 112923283 0.000000e+00 7188.0
1 TraesCS4B01G105200 chr4B 100.000 190 0 0 1 190 112918888 112919077 7.000000e-93 351.0
2 TraesCS4B01G105200 chr4D 91.182 2234 87 37 2014 4164 80835814 80838020 0.000000e+00 2933.0
3 TraesCS4B01G105200 chr4D 89.445 1459 87 33 505 1932 80834393 80835815 0.000000e+00 1779.0
4 TraesCS4B01G105200 chr4D 96.842 190 4 1 1 190 80834124 80834311 2.550000e-82 316.0
5 TraesCS4B01G105200 chr4D 95.349 86 4 0 4311 4396 80838019 80838104 2.130000e-28 137.0
6 TraesCS4B01G105200 chr4A 92.738 1859 57 30 2014 3819 504791482 504789649 0.000000e+00 2614.0
7 TraesCS4B01G105200 chr4A 91.021 1459 72 31 505 1932 504792911 504791481 0.000000e+00 1914.0
8 TraesCS4B01G105200 chr4A 93.798 258 14 1 3909 4164 504789651 504789394 1.920000e-103 387.0
9 TraesCS4B01G105200 chr4A 96.373 193 4 1 1 190 504793197 504793005 9.180000e-82 315.0
10 TraesCS4B01G105200 chr4A 95.349 86 3 1 4311 4396 504789395 504789311 7.670000e-28 135.0
11 TraesCS4B01G105200 chr3D 87.143 210 25 2 2739 2947 180470743 180470535 2.040000e-58 237.0
12 TraesCS4B01G105200 chr3D 81.905 210 36 2 2739 2947 546198931 546198723 4.520000e-40 176.0
13 TraesCS4B01G105200 chr3B 86.190 210 27 2 2739 2947 258721283 258721075 4.420000e-55 226.0
14 TraesCS4B01G105200 chr3B 91.613 155 9 1 4159 4309 120617081 120616927 1.240000e-50 211.0
15 TraesCS4B01G105200 chr3B 83.529 85 13 1 1931 2015 34651775 34651692 1.310000e-10 78.7
16 TraesCS4B01G105200 chr3A 86.190 210 27 2 2739 2947 225894568 225894360 4.420000e-55 226.0
17 TraesCS4B01G105200 chr3A 92.105 152 8 1 4162 4309 264047745 264047594 1.240000e-50 211.0
18 TraesCS4B01G105200 chr3A 88.889 171 13 3 4143 4309 596110376 596110544 5.760000e-49 206.0
19 TraesCS4B01G105200 chr7D 92.105 152 8 1 4162 4309 480637704 480637855 1.240000e-50 211.0
20 TraesCS4B01G105200 chr1D 92.105 152 8 1 4162 4309 36612298 36612147 1.240000e-50 211.0
21 TraesCS4B01G105200 chr5A 91.139 158 9 2 4160 4313 640948260 640948104 4.460000e-50 209.0
22 TraesCS4B01G105200 chr2B 91.558 154 9 2 4160 4309 424318676 424318829 4.460000e-50 209.0
23 TraesCS4B01G105200 chr2A 91.558 154 9 1 4160 4309 158458641 158458794 4.460000e-50 209.0
24 TraesCS4B01G105200 chr7B 91.083 157 9 2 4157 4309 562382327 562382172 1.600000e-49 207.0
25 TraesCS4B01G105200 chr6B 85.870 92 12 1 1928 2019 673766287 673766377 3.620000e-16 97.1
26 TraesCS4B01G105200 chr1B 100.000 35 0 0 1928 1962 28450482 28450448 1.020000e-06 65.8
27 TraesCS4B01G105200 chr1B 97.143 35 1 0 1931 1965 595586419 595586385 4.750000e-05 60.2
28 TraesCS4B01G105200 chr1B 94.444 36 2 0 1927 1962 263981302 263981337 6.140000e-04 56.5
29 TraesCS4B01G105200 chr2D 97.222 36 1 0 1984 2019 103466756 103466791 1.320000e-05 62.1
30 TraesCS4B01G105200 chr2D 94.286 35 1 1 1921 1955 584757117 584757084 8.000000e-03 52.8


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 TraesCS4B01G105200 chr4B 112918888 112923283 4395 False 3769.50 7188 100.0000 1 4396 2 chr4B.!!$F1 4395
1 TraesCS4B01G105200 chr4D 80834124 80838104 3980 False 1291.25 2933 93.2045 1 4396 4 chr4D.!!$F1 4395
2 TraesCS4B01G105200 chr4A 504789311 504793197 3886 True 1073.00 2614 93.8558 1 4396 5 chr4A.!!$R1 4395

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
888 897 1.754803 CATACGCCCCTCTGACTTGTA 59.245 52.381 0.0 0.0 0.00 2.41 F
1399 1432 0.523335 CGGGCAGATTGTTTTAGCGC 60.523 55.000 0.0 0.0 35.18 5.92 F
1416 1449 0.742281 CGCTGCTTGTGCCATCTACT 60.742 55.000 0.0 0.0 38.71 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1997 2044 0.105142 GCTACTCCCTCCACCCCATA 60.105 60.000 0.0 0.0 0.0 2.74 R
3329 3442 0.512952 CCTTCGTTTTCAGTGGCTCG 59.487 55.000 0.0 0.0 0.0 5.03 R
3456 3569 3.987868 GCTCTAACAACACAGATCGAACA 59.012 43.478 0.0 0.0 0.0 3.18 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
686 692 9.606631 AAAGAGAGATGTTGAATACTCCATTAC 57.393 33.333 0.00 0.00 0.00 1.89
687 693 8.546083 AGAGAGATGTTGAATACTCCATTACT 57.454 34.615 0.00 0.00 0.00 2.24
888 897 1.754803 CATACGCCCCTCTGACTTGTA 59.245 52.381 0.00 0.00 0.00 2.41
963 978 2.442272 TCTCTAGTCGGCCAGGCC 60.442 66.667 22.33 22.33 46.75 5.19
1032 1047 1.289109 CGTCGACCACCAACACATCC 61.289 60.000 10.58 0.00 0.00 3.51
1355 1372 4.037923 CACCTGTTCAGTTTGCCATACTTT 59.962 41.667 0.00 0.00 0.00 2.66
1398 1431 0.802494 ACGGGCAGATTGTTTTAGCG 59.198 50.000 0.00 0.00 0.00 4.26
1399 1432 0.523335 CGGGCAGATTGTTTTAGCGC 60.523 55.000 0.00 0.00 35.18 5.92
1416 1449 0.742281 CGCTGCTTGTGCCATCTACT 60.742 55.000 0.00 0.00 38.71 2.57
1454 1487 3.674997 GAGGGGAATGATATTTGCGCTA 58.325 45.455 9.73 0.00 39.67 4.26
1550 1593 5.221661 TGTCTCCTTAGTGAGTTTTCCTTCC 60.222 44.000 0.00 0.00 33.93 3.46
1553 1596 3.753797 CCTTAGTGAGTTTTCCTTCCTGC 59.246 47.826 0.00 0.00 0.00 4.85
1621 1665 3.921021 ACGATGACGAGTTGAATCTGTTC 59.079 43.478 0.00 0.00 42.66 3.18
1649 1693 7.160547 GGTACCTATATAGTTCTCTTGCTCC 57.839 44.000 4.06 0.00 0.00 4.70
1652 1696 3.669251 ATATAGTTCTCTTGCTCCGCC 57.331 47.619 0.00 0.00 0.00 6.13
1669 1713 2.161609 CCGCCTGTGGATGTAACTTTTC 59.838 50.000 0.00 0.00 0.00 2.29
1673 1717 4.395231 GCCTGTGGATGTAACTTTTCCTAC 59.605 45.833 0.00 0.00 0.00 3.18
1677 1721 6.235664 TGTGGATGTAACTTTTCCTACCTTC 58.764 40.000 0.00 0.00 0.00 3.46
1724 1768 9.847224 ATACACAATTCTCCTAATATTTTCGGT 57.153 29.630 0.00 0.00 0.00 4.69
1774 1819 7.736893 TCTTAGACCAAAGATAAATCTAGCCC 58.263 38.462 0.00 0.00 35.76 5.19
1776 1821 4.654262 AGACCAAAGATAAATCTAGCCCGA 59.346 41.667 0.00 0.00 35.76 5.14
1777 1822 5.308237 AGACCAAAGATAAATCTAGCCCGAT 59.692 40.000 0.00 0.00 35.76 4.18
1778 1823 5.308825 ACCAAAGATAAATCTAGCCCGATG 58.691 41.667 0.00 0.00 35.76 3.84
1779 1824 4.154918 CCAAAGATAAATCTAGCCCGATGC 59.845 45.833 0.00 0.00 35.76 3.91
1810 1855 7.431084 CCATAAAGGCAAACATGTACGATTAAC 59.569 37.037 0.00 0.00 0.00 2.01
1918 1965 9.480053 AAGAAATTATGAACACAAGGTTTCATG 57.520 29.630 7.01 0.00 40.63 3.07
1930 1977 5.221925 ACAAGGTTTCATGTGGATGACTACT 60.222 40.000 0.00 0.00 38.38 2.57
1931 1978 6.013725 ACAAGGTTTCATGTGGATGACTACTA 60.014 38.462 0.00 0.00 38.38 1.82
1932 1979 5.978814 AGGTTTCATGTGGATGACTACTAC 58.021 41.667 0.00 0.00 38.38 2.73
1933 1980 5.721960 AGGTTTCATGTGGATGACTACTACT 59.278 40.000 0.00 0.00 38.38 2.57
1934 1981 6.043411 GGTTTCATGTGGATGACTACTACTC 58.957 44.000 0.00 0.00 38.38 2.59
1935 1982 5.854010 TTCATGTGGATGACTACTACTCC 57.146 43.478 0.00 0.00 38.38 3.85
1936 1983 4.215908 TCATGTGGATGACTACTACTCCC 58.784 47.826 0.00 0.00 33.40 4.30
1937 1984 4.079154 TCATGTGGATGACTACTACTCCCT 60.079 45.833 0.00 0.00 33.40 4.20
1938 1985 3.899726 TGTGGATGACTACTACTCCCTC 58.100 50.000 0.00 0.00 0.00 4.30
1939 1986 3.224269 GTGGATGACTACTACTCCCTCC 58.776 54.545 0.00 0.00 0.00 4.30
1940 1987 2.158652 TGGATGACTACTACTCCCTCCG 60.159 54.545 0.00 0.00 0.00 4.63
1941 1988 2.158638 GGATGACTACTACTCCCTCCGT 60.159 54.545 0.00 0.00 0.00 4.69
1942 1989 2.706339 TGACTACTACTCCCTCCGTC 57.294 55.000 0.00 0.00 0.00 4.79
1943 1990 1.911357 TGACTACTACTCCCTCCGTCA 59.089 52.381 0.00 0.00 0.00 4.35
1944 1991 2.287769 GACTACTACTCCCTCCGTCAC 58.712 57.143 0.00 0.00 0.00 3.67
1945 1992 1.632409 ACTACTACTCCCTCCGTCACA 59.368 52.381 0.00 0.00 0.00 3.58
1946 1993 2.241685 ACTACTACTCCCTCCGTCACAT 59.758 50.000 0.00 0.00 0.00 3.21
1947 1994 3.457380 ACTACTACTCCCTCCGTCACATA 59.543 47.826 0.00 0.00 0.00 2.29
1948 1995 3.377253 ACTACTCCCTCCGTCACATAA 57.623 47.619 0.00 0.00 0.00 1.90
1949 1996 3.912248 ACTACTCCCTCCGTCACATAAT 58.088 45.455 0.00 0.00 0.00 1.28
1950 1997 5.057843 ACTACTCCCTCCGTCACATAATA 57.942 43.478 0.00 0.00 0.00 0.98
1951 1998 5.642165 ACTACTCCCTCCGTCACATAATAT 58.358 41.667 0.00 0.00 0.00 1.28
1952 1999 6.787170 ACTACTCCCTCCGTCACATAATATA 58.213 40.000 0.00 0.00 0.00 0.86
1953 2000 7.236529 ACTACTCCCTCCGTCACATAATATAA 58.763 38.462 0.00 0.00 0.00 0.98
1954 2001 6.989155 ACTCCCTCCGTCACATAATATAAA 57.011 37.500 0.00 0.00 0.00 1.40
1955 2002 7.369551 ACTCCCTCCGTCACATAATATAAAA 57.630 36.000 0.00 0.00 0.00 1.52
1956 2003 7.442656 ACTCCCTCCGTCACATAATATAAAAG 58.557 38.462 0.00 0.00 0.00 2.27
1957 2004 6.228258 TCCCTCCGTCACATAATATAAAAGC 58.772 40.000 0.00 0.00 0.00 3.51
1958 2005 5.120208 CCCTCCGTCACATAATATAAAAGCG 59.880 44.000 0.00 0.00 0.00 4.68
1959 2006 5.694910 CCTCCGTCACATAATATAAAAGCGT 59.305 40.000 0.00 0.00 0.00 5.07
1960 2007 6.202188 CCTCCGTCACATAATATAAAAGCGTT 59.798 38.462 0.00 0.00 0.00 4.84
1961 2008 7.254658 CCTCCGTCACATAATATAAAAGCGTTT 60.255 37.037 2.53 2.53 0.00 3.60
1962 2009 8.645730 TCCGTCACATAATATAAAAGCGTTTA 57.354 30.769 7.30 7.30 33.76 2.01
1963 2010 9.263538 TCCGTCACATAATATAAAAGCGTTTAT 57.736 29.630 19.27 19.27 41.71 1.40
1964 2011 9.872757 CCGTCACATAATATAAAAGCGTTTATT 57.127 29.630 20.28 9.90 39.93 1.40
1979 2026 8.767478 AAGCGTTTATTATACTAGTGTTGTGT 57.233 30.769 5.39 0.00 0.00 3.72
1980 2027 8.403606 AGCGTTTATTATACTAGTGTTGTGTC 57.596 34.615 5.39 0.00 0.00 3.67
1981 2028 8.030692 AGCGTTTATTATACTAGTGTTGTGTCA 58.969 33.333 5.39 0.00 0.00 3.58
1982 2029 8.318876 GCGTTTATTATACTAGTGTTGTGTCAG 58.681 37.037 5.39 0.00 0.00 3.51
1983 2030 9.563898 CGTTTATTATACTAGTGTTGTGTCAGA 57.436 33.333 5.39 0.00 0.00 3.27
2003 2050 9.184523 TGTCAGAAACACTTTTATATTATGGGG 57.815 33.333 0.00 0.00 31.20 4.96
2004 2051 9.185680 GTCAGAAACACTTTTATATTATGGGGT 57.814 33.333 0.00 0.00 0.00 4.95
2005 2052 9.184523 TCAGAAACACTTTTATATTATGGGGTG 57.815 33.333 0.00 0.00 0.00 4.61
2006 2053 8.413229 CAGAAACACTTTTATATTATGGGGTGG 58.587 37.037 0.00 0.00 0.00 4.61
2007 2054 8.340757 AGAAACACTTTTATATTATGGGGTGGA 58.659 33.333 0.00 0.00 0.00 4.02
2008 2055 8.533569 AAACACTTTTATATTATGGGGTGGAG 57.466 34.615 0.00 0.00 0.00 3.86
2009 2056 6.610830 ACACTTTTATATTATGGGGTGGAGG 58.389 40.000 0.00 0.00 0.00 4.30
2010 2057 6.010219 CACTTTTATATTATGGGGTGGAGGG 58.990 44.000 0.00 0.00 0.00 4.30
2011 2058 5.920664 ACTTTTATATTATGGGGTGGAGGGA 59.079 40.000 0.00 0.00 0.00 4.20
2012 2059 6.045577 ACTTTTATATTATGGGGTGGAGGGAG 59.954 42.308 0.00 0.00 0.00 4.30
2052 2099 3.492421 ACAAGGTGAAATTAGCATGCG 57.508 42.857 13.01 0.00 0.00 4.73
2178 2252 4.810491 TCAAAACCGTGTACAGTTCCTTAC 59.190 41.667 0.00 0.00 0.00 2.34
2260 2344 2.193536 ACCAGGCAAAGCACGGTTC 61.194 57.895 0.00 0.00 32.02 3.62
2489 2582 5.124776 TCGCCCGATTAATTTTTCTCACAAT 59.875 36.000 0.00 0.00 0.00 2.71
2565 2658 7.715249 GCACTACTTAACCATGAATTCTCCATA 59.285 37.037 7.05 0.00 0.00 2.74
2566 2659 9.784531 CACTACTTAACCATGAATTCTCCATAT 57.215 33.333 7.05 0.00 0.00 1.78
2996 3103 1.664321 CCACCTTCCCGTCCTACTCG 61.664 65.000 0.00 0.00 0.00 4.18
3027 3134 4.069232 CCCAGCTCGACTTCGCCA 62.069 66.667 0.00 0.00 39.60 5.69
3134 3241 1.737363 GCGCCTTCTTCTACTCCAGTG 60.737 57.143 0.00 0.00 0.00 3.66
3250 3363 4.148825 CGCCTTCTCCTCCCCACG 62.149 72.222 0.00 0.00 0.00 4.94
3300 3413 4.408821 GCGGCCCTGACCATCACA 62.409 66.667 0.00 0.00 0.00 3.58
3456 3569 1.244019 GCCGCCTCCATCAACTTGTT 61.244 55.000 0.00 0.00 0.00 2.83
3458 3571 1.238439 CGCCTCCATCAACTTGTTGT 58.762 50.000 12.44 0.00 0.00 3.32
3565 3679 3.307762 GCGATCAGGAGGGCCTTAATTAT 60.308 47.826 7.89 0.00 43.90 1.28
3699 3820 3.595173 TGTGTTATGTGCTAATCGCTGT 58.405 40.909 0.00 0.00 40.11 4.40
3799 3921 2.871096 AAAGGCAACAAGATCCCGTA 57.129 45.000 0.00 0.00 41.41 4.02
3826 3958 4.766404 AAGGCAACAAGATCGTAAAAGG 57.234 40.909 0.00 0.00 41.41 3.11
3877 4009 1.860326 GCAGTTTGCCAATGTTGTGAC 59.140 47.619 0.00 0.00 37.42 3.67
3887 4019 3.243501 CCAATGTTGTGACTTGGGACTTG 60.244 47.826 0.00 0.00 36.58 3.16
4021 4153 7.215085 GGACTATATATGGCTAAATTACCCGG 58.785 42.308 0.00 0.00 0.00 5.73
4026 4161 8.943594 ATATATGGCTAAATTACCCGGAAAAA 57.056 30.769 0.73 0.00 0.00 1.94
4105 4242 6.769822 TCAGCCATAAGATCAAGATTTTCTCC 59.230 38.462 0.00 0.00 0.00 3.71
4124 4261 7.916914 TTCTCCTCATATATGTTCATGCATG 57.083 36.000 21.07 21.07 0.00 4.06
4128 4265 7.455891 TCCTCATATATGTTCATGCATGACTT 58.544 34.615 28.72 20.86 36.36 3.01
4129 4266 7.389607 TCCTCATATATGTTCATGCATGACTTG 59.610 37.037 28.72 16.61 36.36 3.16
4168 4305 6.043411 GTCATCAACACTGACTTATACTCCC 58.957 44.000 0.00 0.00 39.90 4.30
4169 4306 5.958380 TCATCAACACTGACTTATACTCCCT 59.042 40.000 0.00 0.00 33.30 4.20
4170 4307 5.916661 TCAACACTGACTTATACTCCCTC 57.083 43.478 0.00 0.00 0.00 4.30
4171 4308 4.710375 TCAACACTGACTTATACTCCCTCC 59.290 45.833 0.00 0.00 0.00 4.30
4172 4309 3.288964 ACACTGACTTATACTCCCTCCG 58.711 50.000 0.00 0.00 0.00 4.63
4173 4310 3.288964 CACTGACTTATACTCCCTCCGT 58.711 50.000 0.00 0.00 0.00 4.69
4174 4311 3.700038 CACTGACTTATACTCCCTCCGTT 59.300 47.826 0.00 0.00 0.00 4.44
4175 4312 3.952967 ACTGACTTATACTCCCTCCGTTC 59.047 47.826 0.00 0.00 0.00 3.95
4176 4313 3.294214 TGACTTATACTCCCTCCGTTCC 58.706 50.000 0.00 0.00 0.00 3.62
4177 4314 3.053095 TGACTTATACTCCCTCCGTTCCT 60.053 47.826 0.00 0.00 0.00 3.36
4178 4315 4.166725 TGACTTATACTCCCTCCGTTCCTA 59.833 45.833 0.00 0.00 0.00 2.94
4179 4316 5.163012 TGACTTATACTCCCTCCGTTCCTAT 60.163 44.000 0.00 0.00 0.00 2.57
4180 4317 5.713807 ACTTATACTCCCTCCGTTCCTATT 58.286 41.667 0.00 0.00 0.00 1.73
4181 4318 6.141790 ACTTATACTCCCTCCGTTCCTATTT 58.858 40.000 0.00 0.00 0.00 1.40
4182 4319 4.957684 ATACTCCCTCCGTTCCTATTTG 57.042 45.455 0.00 0.00 0.00 2.32
4183 4320 2.547990 ACTCCCTCCGTTCCTATTTGT 58.452 47.619 0.00 0.00 0.00 2.83
4184 4321 3.716431 ACTCCCTCCGTTCCTATTTGTA 58.284 45.455 0.00 0.00 0.00 2.41
4185 4322 4.296056 ACTCCCTCCGTTCCTATTTGTAT 58.704 43.478 0.00 0.00 0.00 2.29
4186 4323 4.720273 ACTCCCTCCGTTCCTATTTGTATT 59.280 41.667 0.00 0.00 0.00 1.89
4187 4324 5.191124 ACTCCCTCCGTTCCTATTTGTATTT 59.809 40.000 0.00 0.00 0.00 1.40
4188 4325 6.069705 TCCCTCCGTTCCTATTTGTATTTT 57.930 37.500 0.00 0.00 0.00 1.82
4189 4326 6.486941 TCCCTCCGTTCCTATTTGTATTTTT 58.513 36.000 0.00 0.00 0.00 1.94
4190 4327 7.631933 TCCCTCCGTTCCTATTTGTATTTTTA 58.368 34.615 0.00 0.00 0.00 1.52
4191 4328 7.771826 TCCCTCCGTTCCTATTTGTATTTTTAG 59.228 37.037 0.00 0.00 0.00 1.85
4192 4329 7.771826 CCCTCCGTTCCTATTTGTATTTTTAGA 59.228 37.037 0.00 0.00 0.00 2.10
4193 4330 9.169592 CCTCCGTTCCTATTTGTATTTTTAGAA 57.830 33.333 0.00 0.00 0.00 2.10
4213 4350 9.672086 TTTAGAAATTTCAAATGAACTACCACG 57.328 29.630 19.99 0.00 33.13 4.94
4214 4351 7.272037 AGAAATTTCAAATGAACTACCACGT 57.728 32.000 19.99 0.00 33.13 4.49
4215 4352 7.712797 AGAAATTTCAAATGAACTACCACGTT 58.287 30.769 19.99 0.00 33.13 3.99
4216 4353 7.860872 AGAAATTTCAAATGAACTACCACGTTC 59.139 33.333 19.99 0.00 42.73 3.95
4217 4354 4.718858 TTCAAATGAACTACCACGTTCG 57.281 40.909 0.00 0.00 44.76 3.95
4218 4355 3.061322 TCAAATGAACTACCACGTTCGG 58.939 45.455 0.00 0.00 44.76 4.30
4219 4356 3.061322 CAAATGAACTACCACGTTCGGA 58.939 45.455 0.00 0.00 44.76 4.55
4220 4357 3.604875 AATGAACTACCACGTTCGGAT 57.395 42.857 0.00 0.00 44.76 4.18
4221 4358 2.357327 TGAACTACCACGTTCGGATG 57.643 50.000 0.00 0.00 44.76 3.51
4222 4359 1.614903 TGAACTACCACGTTCGGATGT 59.385 47.619 0.00 0.00 44.76 3.06
4223 4360 2.819019 TGAACTACCACGTTCGGATGTA 59.181 45.455 0.00 0.00 44.76 2.29
4224 4361 3.444742 TGAACTACCACGTTCGGATGTAT 59.555 43.478 0.00 0.00 44.76 2.29
4225 4362 4.639755 TGAACTACCACGTTCGGATGTATA 59.360 41.667 0.00 0.00 44.76 1.47
4226 4363 5.300034 TGAACTACCACGTTCGGATGTATAT 59.700 40.000 0.00 0.00 44.76 0.86
4227 4364 6.486320 TGAACTACCACGTTCGGATGTATATA 59.514 38.462 0.00 0.00 44.76 0.86
4228 4365 6.492007 ACTACCACGTTCGGATGTATATAG 57.508 41.667 0.00 0.00 0.00 1.31
4229 4366 6.233434 ACTACCACGTTCGGATGTATATAGA 58.767 40.000 0.00 0.00 0.00 1.98
4230 4367 5.368256 ACCACGTTCGGATGTATATAGAC 57.632 43.478 0.00 0.00 0.00 2.59
4231 4368 4.823442 ACCACGTTCGGATGTATATAGACA 59.177 41.667 2.07 2.07 0.00 3.41
4232 4369 5.475909 ACCACGTTCGGATGTATATAGACAT 59.524 40.000 12.70 12.70 42.82 3.06
4233 4370 6.656270 ACCACGTTCGGATGTATATAGACATA 59.344 38.462 12.82 0.00 40.18 2.29
4234 4371 7.338703 ACCACGTTCGGATGTATATAGACATAT 59.661 37.037 12.82 0.00 40.18 1.78
4235 4372 8.188799 CCACGTTCGGATGTATATAGACATATT 58.811 37.037 12.82 0.00 40.18 1.28
4236 4373 9.569167 CACGTTCGGATGTATATAGACATATTT 57.431 33.333 12.82 0.00 40.18 1.40
4253 4390 9.988815 AGACATATTTTAGAGCGTAGATTCATT 57.011 29.630 0.00 0.00 0.00 2.57
4255 4392 9.764363 ACATATTTTAGAGCGTAGATTCATTCA 57.236 29.630 0.00 0.00 0.00 2.57
4260 4397 9.773328 TTTTAGAGCGTAGATTCATTCATTTTG 57.227 29.630 0.00 0.00 0.00 2.44
4261 4398 5.814783 AGAGCGTAGATTCATTCATTTTGC 58.185 37.500 0.00 0.00 0.00 3.68
4262 4399 5.587844 AGAGCGTAGATTCATTCATTTTGCT 59.412 36.000 0.00 0.00 0.00 3.91
4263 4400 5.814783 AGCGTAGATTCATTCATTTTGCTC 58.185 37.500 0.00 0.00 0.00 4.26
4264 4401 4.972440 GCGTAGATTCATTCATTTTGCTCC 59.028 41.667 0.00 0.00 0.00 4.70
4265 4402 5.200454 CGTAGATTCATTCATTTTGCTCCG 58.800 41.667 0.00 0.00 0.00 4.63
4266 4403 5.220662 CGTAGATTCATTCATTTTGCTCCGT 60.221 40.000 0.00 0.00 0.00 4.69
4267 4404 6.019075 CGTAGATTCATTCATTTTGCTCCGTA 60.019 38.462 0.00 0.00 0.00 4.02
4268 4405 6.949352 AGATTCATTCATTTTGCTCCGTAT 57.051 33.333 0.00 0.00 0.00 3.06
4269 4406 6.732154 AGATTCATTCATTTTGCTCCGTATG 58.268 36.000 0.00 0.00 0.00 2.39
4270 4407 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
4271 4408 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
4272 4409 6.603237 TCATTCATTTTGCTCCGTATGTAG 57.397 37.500 0.00 0.00 0.00 2.74
4273 4410 6.112734 TCATTCATTTTGCTCCGTATGTAGT 58.887 36.000 0.00 0.00 0.00 2.73
4274 4411 6.257849 TCATTCATTTTGCTCCGTATGTAGTC 59.742 38.462 0.00 0.00 0.00 2.59
4275 4412 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
4276 4413 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
4277 4414 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
4278 4415 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
4279 4416 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
4280 4417 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
4281 4418 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
4282 4419 4.460034 TGCTCCGTATGTAGTCACTTGTTA 59.540 41.667 0.00 0.00 0.00 2.41
4283 4420 5.047872 TGCTCCGTATGTAGTCACTTGTTAA 60.048 40.000 0.00 0.00 0.00 2.01
4284 4421 5.865552 GCTCCGTATGTAGTCACTTGTTAAA 59.134 40.000 0.00 0.00 0.00 1.52
4285 4422 6.366877 GCTCCGTATGTAGTCACTTGTTAAAA 59.633 38.462 0.00 0.00 0.00 1.52
4286 4423 7.064253 GCTCCGTATGTAGTCACTTGTTAAAAT 59.936 37.037 0.00 0.00 0.00 1.82
4287 4424 9.577110 CTCCGTATGTAGTCACTTGTTAAAATA 57.423 33.333 0.00 0.00 0.00 1.40
4372 4509 3.573538 TGCAGCTTTTGTCCACACATAAT 59.426 39.130 0.00 0.00 30.55 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
157 161 0.696501 TCTAAACAACTCCCTGCCCC 59.303 55.000 0.00 0.00 0.00 5.80
686 692 0.670239 TGCACGCTCACATACACCAG 60.670 55.000 0.00 0.00 0.00 4.00
687 693 0.036483 ATGCACGCTCACATACACCA 60.036 50.000 0.00 0.00 0.00 4.17
963 978 2.364002 GGAGAAAAGGAGGAGGATCGAG 59.636 54.545 0.00 0.00 34.37 4.04
1020 1035 1.875963 GCCTTCGGATGTGTTGGTG 59.124 57.895 0.00 0.00 0.00 4.17
1283 1298 2.571212 TCGCATCAACCAAAGTCAACT 58.429 42.857 0.00 0.00 0.00 3.16
1284 1299 3.559238 ATCGCATCAACCAAAGTCAAC 57.441 42.857 0.00 0.00 0.00 3.18
1285 1300 4.202101 ACAAATCGCATCAACCAAAGTCAA 60.202 37.500 0.00 0.00 0.00 3.18
1374 1391 1.981256 AAACAATCTGCCCGTGAAGT 58.019 45.000 0.00 0.00 0.00 3.01
1375 1392 3.670627 GCTAAAACAATCTGCCCGTGAAG 60.671 47.826 0.00 0.00 0.00 3.02
1376 1393 2.227865 GCTAAAACAATCTGCCCGTGAA 59.772 45.455 0.00 0.00 0.00 3.18
1377 1394 1.810151 GCTAAAACAATCTGCCCGTGA 59.190 47.619 0.00 0.00 0.00 4.35
1378 1395 1.465689 CGCTAAAACAATCTGCCCGTG 60.466 52.381 0.00 0.00 0.00 4.94
1379 1396 0.802494 CGCTAAAACAATCTGCCCGT 59.198 50.000 0.00 0.00 0.00 5.28
1380 1397 0.523335 GCGCTAAAACAATCTGCCCG 60.523 55.000 0.00 0.00 0.00 6.13
1381 1398 0.811281 AGCGCTAAAACAATCTGCCC 59.189 50.000 8.99 0.00 0.00 5.36
1382 1399 1.900237 CAGCGCTAAAACAATCTGCC 58.100 50.000 10.99 0.00 0.00 4.85
1416 1449 3.454812 CCCCTCGAGGAAGGATTTTCTTA 59.545 47.826 33.39 0.00 38.87 2.10
1479 1512 8.950007 TTCTATTTCCAAGATACCCAAAAACT 57.050 30.769 0.00 0.00 0.00 2.66
1480 1513 9.020731 TCTTCTATTTCCAAGATACCCAAAAAC 57.979 33.333 0.00 0.00 0.00 2.43
1481 1514 9.768215 ATCTTCTATTTCCAAGATACCCAAAAA 57.232 29.630 0.00 0.00 37.55 1.94
1482 1515 9.768215 AATCTTCTATTTCCAAGATACCCAAAA 57.232 29.630 0.00 0.00 38.22 2.44
1483 1516 9.768215 AAATCTTCTATTTCCAAGATACCCAAA 57.232 29.630 0.00 0.00 38.22 3.28
1484 1517 9.768215 AAAATCTTCTATTTCCAAGATACCCAA 57.232 29.630 0.00 0.00 38.22 4.12
1485 1518 9.768215 AAAAATCTTCTATTTCCAAGATACCCA 57.232 29.630 0.00 0.00 38.22 4.51
1532 1575 4.646572 AGCAGGAAGGAAAACTCACTAAG 58.353 43.478 0.00 0.00 0.00 2.18
1545 1588 4.340617 TGTTTTTGGGTATAGCAGGAAGG 58.659 43.478 4.02 0.00 0.00 3.46
1550 1593 5.741011 TCCTACTGTTTTTGGGTATAGCAG 58.259 41.667 4.02 0.00 0.00 4.24
1589 1633 2.094700 ACTCGTCATCGTGCACACTAAT 60.095 45.455 18.64 1.33 38.33 1.73
1621 1665 6.071278 GCAAGAGAACTATATAGGTACCCCAG 60.071 46.154 8.74 1.31 0.00 4.45
1648 1692 1.821216 AAAGTTACATCCACAGGCGG 58.179 50.000 0.00 0.00 0.00 6.13
1649 1693 2.161609 GGAAAAGTTACATCCACAGGCG 59.838 50.000 0.00 0.00 33.30 5.52
1652 1696 5.805728 AGGTAGGAAAAGTTACATCCACAG 58.194 41.667 5.04 0.00 35.62 3.66
1677 1721 0.819582 ATTCCATTGAAGCGCCTTGG 59.180 50.000 2.29 4.44 33.05 3.61
1772 1817 0.599558 CTTTATGGCCATGCATCGGG 59.400 55.000 29.04 7.30 0.00 5.14
1810 1855 7.927048 TGATGCATCAATTAGACAAAGATCAG 58.073 34.615 26.87 0.00 33.08 2.90
1830 1875 7.867445 TTCCGAACTTCTAAATTTTTGATGC 57.133 32.000 0.00 0.00 0.00 3.91
1865 1912 7.733773 TCAATCTAGAACAAGTATTCCAGGA 57.266 36.000 0.00 0.00 0.00 3.86
1918 1965 3.224269 GGAGGGAGTAGTAGTCATCCAC 58.776 54.545 17.59 6.45 33.24 4.02
1921 1968 3.140623 GACGGAGGGAGTAGTAGTCATC 58.859 54.545 7.30 4.50 0.00 2.92
1930 1977 8.481492 TTTTATATTATGTGACGGAGGGAGTA 57.519 34.615 0.00 0.00 0.00 2.59
1931 1978 6.989155 TTTATATTATGTGACGGAGGGAGT 57.011 37.500 0.00 0.00 0.00 3.85
1932 1979 6.369065 GCTTTTATATTATGTGACGGAGGGAG 59.631 42.308 0.00 0.00 0.00 4.30
1933 1980 6.228258 GCTTTTATATTATGTGACGGAGGGA 58.772 40.000 0.00 0.00 0.00 4.20
1934 1981 5.120208 CGCTTTTATATTATGTGACGGAGGG 59.880 44.000 0.00 0.00 0.00 4.30
1935 1982 5.694910 ACGCTTTTATATTATGTGACGGAGG 59.305 40.000 0.00 0.00 0.00 4.30
1936 1983 6.764877 ACGCTTTTATATTATGTGACGGAG 57.235 37.500 0.00 0.00 0.00 4.63
1937 1984 7.542534 AAACGCTTTTATATTATGTGACGGA 57.457 32.000 0.00 0.00 0.00 4.69
1938 1985 9.872757 AATAAACGCTTTTATATTATGTGACGG 57.127 29.630 8.46 0.00 36.98 4.79
1953 2000 9.211485 ACACAACACTAGTATAATAAACGCTTT 57.789 29.630 0.00 0.00 0.00 3.51
1954 2001 8.767478 ACACAACACTAGTATAATAAACGCTT 57.233 30.769 0.00 0.00 0.00 4.68
1955 2002 8.030692 TGACACAACACTAGTATAATAAACGCT 58.969 33.333 0.00 0.00 0.00 5.07
1956 2003 8.176814 TGACACAACACTAGTATAATAAACGC 57.823 34.615 0.00 0.00 0.00 4.84
1957 2004 9.563898 TCTGACACAACACTAGTATAATAAACG 57.436 33.333 0.00 0.00 0.00 3.60
1977 2024 9.184523 CCCCATAATATAAAAGTGTTTCTGACA 57.815 33.333 0.00 0.00 35.42 3.58
1978 2025 9.185680 ACCCCATAATATAAAAGTGTTTCTGAC 57.814 33.333 0.00 0.00 0.00 3.51
1979 2026 9.184523 CACCCCATAATATAAAAGTGTTTCTGA 57.815 33.333 0.00 0.00 0.00 3.27
1980 2027 8.413229 CCACCCCATAATATAAAAGTGTTTCTG 58.587 37.037 0.00 0.00 0.00 3.02
1981 2028 8.340757 TCCACCCCATAATATAAAAGTGTTTCT 58.659 33.333 0.00 0.00 0.00 2.52
1982 2029 8.528044 TCCACCCCATAATATAAAAGTGTTTC 57.472 34.615 0.00 0.00 0.00 2.78
1983 2030 7.563556 CCTCCACCCCATAATATAAAAGTGTTT 59.436 37.037 0.00 0.00 0.00 2.83
1984 2031 7.066781 CCTCCACCCCATAATATAAAAGTGTT 58.933 38.462 0.00 0.00 0.00 3.32
1985 2032 6.411554 CCCTCCACCCCATAATATAAAAGTGT 60.412 42.308 0.00 0.00 0.00 3.55
1986 2033 6.010219 CCCTCCACCCCATAATATAAAAGTG 58.990 44.000 0.00 0.00 0.00 3.16
1987 2034 5.920664 TCCCTCCACCCCATAATATAAAAGT 59.079 40.000 0.00 0.00 0.00 2.66
1988 2035 6.045577 ACTCCCTCCACCCCATAATATAAAAG 59.954 42.308 0.00 0.00 0.00 2.27
1989 2036 5.920664 ACTCCCTCCACCCCATAATATAAAA 59.079 40.000 0.00 0.00 0.00 1.52
1990 2037 5.491992 ACTCCCTCCACCCCATAATATAAA 58.508 41.667 0.00 0.00 0.00 1.40
1991 2038 5.114743 ACTCCCTCCACCCCATAATATAA 57.885 43.478 0.00 0.00 0.00 0.98
1992 2039 4.796185 ACTCCCTCCACCCCATAATATA 57.204 45.455 0.00 0.00 0.00 0.86
1993 2040 3.674358 ACTCCCTCCACCCCATAATAT 57.326 47.619 0.00 0.00 0.00 1.28
1994 2041 3.760787 GCTACTCCCTCCACCCCATAATA 60.761 52.174 0.00 0.00 0.00 0.98
1995 2042 2.991580 CTACTCCCTCCACCCCATAAT 58.008 52.381 0.00 0.00 0.00 1.28
1996 2043 1.694693 GCTACTCCCTCCACCCCATAA 60.695 57.143 0.00 0.00 0.00 1.90
1997 2044 0.105142 GCTACTCCCTCCACCCCATA 60.105 60.000 0.00 0.00 0.00 2.74
1998 2045 1.384643 GCTACTCCCTCCACCCCAT 60.385 63.158 0.00 0.00 0.00 4.00
1999 2046 2.040606 GCTACTCCCTCCACCCCA 59.959 66.667 0.00 0.00 0.00 4.96
2000 2047 1.307084 AAGCTACTCCCTCCACCCC 60.307 63.158 0.00 0.00 0.00 4.95
2001 2048 1.908483 CAAGCTACTCCCTCCACCC 59.092 63.158 0.00 0.00 0.00 4.61
2002 2049 1.222113 GCAAGCTACTCCCTCCACC 59.778 63.158 0.00 0.00 0.00 4.61
2003 2050 0.324943 TTGCAAGCTACTCCCTCCAC 59.675 55.000 0.00 0.00 0.00 4.02
2004 2051 1.064003 TTTGCAAGCTACTCCCTCCA 58.936 50.000 0.00 0.00 0.00 3.86
2005 2052 2.200373 TTTTGCAAGCTACTCCCTCC 57.800 50.000 0.00 0.00 0.00 4.30
2006 2053 3.758554 TGAATTTTGCAAGCTACTCCCTC 59.241 43.478 0.00 0.00 0.00 4.30
2007 2054 3.766545 TGAATTTTGCAAGCTACTCCCT 58.233 40.909 0.00 0.00 0.00 4.20
2008 2055 4.218417 TCTTGAATTTTGCAAGCTACTCCC 59.782 41.667 0.00 0.00 41.83 4.30
2009 2056 5.376854 TCTTGAATTTTGCAAGCTACTCC 57.623 39.130 0.00 0.00 41.83 3.85
2010 2057 6.208644 TGTTCTTGAATTTTGCAAGCTACTC 58.791 36.000 0.00 0.00 41.83 2.59
2011 2058 6.147864 TGTTCTTGAATTTTGCAAGCTACT 57.852 33.333 0.00 0.00 41.83 2.57
2012 2059 6.074142 CCTTGTTCTTGAATTTTGCAAGCTAC 60.074 38.462 0.00 0.00 41.83 3.58
2052 2099 8.900983 AGAGGAGATTTAGAATAAAGATGCAC 57.099 34.615 0.00 0.00 0.00 4.57
2142 2191 6.752168 ACACGGTTTTGAGTACTATGTAACT 58.248 36.000 0.00 0.00 0.00 2.24
2154 2203 3.463944 AGGAACTGTACACGGTTTTGAG 58.536 45.455 7.94 0.00 44.81 3.02
2155 2204 3.547054 AGGAACTGTACACGGTTTTGA 57.453 42.857 7.94 0.00 44.81 2.69
2156 2205 4.812626 AGTAAGGAACTGTACACGGTTTTG 59.187 41.667 7.94 0.00 44.81 2.44
2178 2252 3.260884 ACACCCTACCACATCTGTTACAG 59.739 47.826 5.94 5.94 0.00 2.74
2190 2264 3.512724 GCTAGTAAGAACACACCCTACCA 59.487 47.826 0.00 0.00 0.00 3.25
2569 2662 9.972106 ATTTTGGCCAATTAATATGGAGAAAAA 57.028 25.926 21.26 4.70 40.56 1.94
2605 2699 5.294306 TCATTGGCGAATGAAGAAGTCATAC 59.706 40.000 20.26 0.00 46.80 2.39
2608 2702 3.673902 TCATTGGCGAATGAAGAAGTCA 58.326 40.909 20.26 0.00 44.11 3.41
3134 3241 1.429423 GCCGTAGCCATTGAACAGC 59.571 57.895 0.00 0.00 0.00 4.40
3250 3363 2.678324 ACGCTAGTGCTTCTCTTGAAC 58.322 47.619 2.40 0.00 36.97 3.18
3300 3413 3.517901 TCGACATGGTAATCCTTCCTGTT 59.482 43.478 0.00 0.00 34.23 3.16
3329 3442 0.512952 CCTTCGTTTTCAGTGGCTCG 59.487 55.000 0.00 0.00 0.00 5.03
3456 3569 3.987868 GCTCTAACAACACAGATCGAACA 59.012 43.478 0.00 0.00 0.00 3.18
3458 3571 4.251543 TGCTCTAACAACACAGATCGAA 57.748 40.909 0.00 0.00 0.00 3.71
3565 3679 6.936335 AGTTCAACACATGATCATCACAGTTA 59.064 34.615 4.86 0.00 38.03 2.24
3699 3820 7.042321 CGTCTCAACAATCGGCCTTTATATAAA 60.042 37.037 0.00 7.66 0.00 1.40
3807 3929 4.759516 TTCCTTTTACGATCTTGTTGCC 57.240 40.909 0.00 0.00 0.00 4.52
3809 3931 8.574196 ACAAATTTCCTTTTACGATCTTGTTG 57.426 30.769 0.00 0.00 0.00 3.33
3810 3932 9.594478 AAACAAATTTCCTTTTACGATCTTGTT 57.406 25.926 0.00 0.00 35.43 2.83
3815 3937 9.952341 GCATTAAACAAATTTCCTTTTACGATC 57.048 29.630 0.00 0.00 0.00 3.69
3817 3939 8.973378 CAGCATTAAACAAATTTCCTTTTACGA 58.027 29.630 0.00 0.00 0.00 3.43
3826 3958 7.378461 TCGACTTGACAGCATTAAACAAATTTC 59.622 33.333 0.00 0.00 0.00 2.17
3839 3971 1.487452 GCACGTTCGACTTGACAGCA 61.487 55.000 0.00 0.00 0.00 4.41
3877 4009 1.685820 GGGTCTCCCAAGTCCCAAG 59.314 63.158 0.00 0.00 46.73 3.61
3887 4019 2.149973 TAGTAACGGAAGGGTCTCCC 57.850 55.000 0.00 0.00 45.90 4.30
3926 4058 4.749598 CACCCTTTAGTTTGGAAAATGTGC 59.250 41.667 0.00 0.00 0.00 4.57
3935 4067 5.006358 CGACGATATTCACCCTTTAGTTTGG 59.994 44.000 0.00 0.00 0.00 3.28
4058 4193 7.009723 GCTGAGTAGTTGTCTAGAAATAACTGC 59.990 40.741 20.25 19.12 36.44 4.40
4105 4242 8.015658 CACAAGTCATGCATGAACATATATGAG 58.984 37.037 30.24 14.93 38.75 2.90
4124 4261 3.321497 ACTGCTCGATCTTTCACAAGTC 58.679 45.455 0.00 0.00 0.00 3.01
4128 4265 3.056607 TGATGACTGCTCGATCTTTCACA 60.057 43.478 0.00 0.00 0.00 3.58
4129 4266 3.515630 TGATGACTGCTCGATCTTTCAC 58.484 45.455 0.00 0.00 0.00 3.18
4164 4301 4.957684 ATACAAATAGGAACGGAGGGAG 57.042 45.455 0.00 0.00 0.00 4.30
4166 4303 6.769134 AAAAATACAAATAGGAACGGAGGG 57.231 37.500 0.00 0.00 0.00 4.30
4167 4304 8.726870 TCTAAAAATACAAATAGGAACGGAGG 57.273 34.615 0.00 0.00 0.00 4.30
4187 4324 9.672086 CGTGGTAGTTCATTTGAAATTTCTAAA 57.328 29.630 18.64 15.99 35.58 1.85
4188 4325 8.842280 ACGTGGTAGTTCATTTGAAATTTCTAA 58.158 29.630 18.64 17.10 35.58 2.10
4189 4326 8.385898 ACGTGGTAGTTCATTTGAAATTTCTA 57.614 30.769 18.64 8.95 35.58 2.10
4190 4327 7.272037 ACGTGGTAGTTCATTTGAAATTTCT 57.728 32.000 18.64 0.00 35.58 2.52
4191 4328 7.924103 AACGTGGTAGTTCATTTGAAATTTC 57.076 32.000 11.41 11.41 35.58 2.17
4203 4340 2.358939 ACATCCGAACGTGGTAGTTC 57.641 50.000 0.00 0.21 45.05 3.01
4204 4341 5.779529 ATATACATCCGAACGTGGTAGTT 57.220 39.130 0.00 0.00 36.99 2.24
4205 4342 6.148480 GTCTATATACATCCGAACGTGGTAGT 59.852 42.308 0.00 0.00 0.00 2.73
4206 4343 6.148315 TGTCTATATACATCCGAACGTGGTAG 59.852 42.308 0.00 0.00 0.00 3.18
4207 4344 5.997129 TGTCTATATACATCCGAACGTGGTA 59.003 40.000 0.00 0.00 0.00 3.25
4208 4345 4.823442 TGTCTATATACATCCGAACGTGGT 59.177 41.667 0.00 0.00 0.00 4.16
4209 4346 5.366829 TGTCTATATACATCCGAACGTGG 57.633 43.478 0.00 0.00 0.00 4.94
4210 4347 9.569167 AAATATGTCTATATACATCCGAACGTG 57.431 33.333 7.00 0.00 40.52 4.49
4227 4364 9.988815 AATGAATCTACGCTCTAAAATATGTCT 57.011 29.630 0.00 0.00 0.00 3.41
4229 4366 9.764363 TGAATGAATCTACGCTCTAAAATATGT 57.236 29.630 0.00 0.00 0.00 2.29
4234 4371 9.773328 CAAAATGAATGAATCTACGCTCTAAAA 57.227 29.630 0.00 0.00 0.00 1.52
4235 4372 7.910162 GCAAAATGAATGAATCTACGCTCTAAA 59.090 33.333 0.00 0.00 0.00 1.85
4236 4373 7.280876 AGCAAAATGAATGAATCTACGCTCTAA 59.719 33.333 0.00 0.00 0.00 2.10
4237 4374 6.763135 AGCAAAATGAATGAATCTACGCTCTA 59.237 34.615 0.00 0.00 0.00 2.43
4238 4375 5.587844 AGCAAAATGAATGAATCTACGCTCT 59.412 36.000 0.00 0.00 0.00 4.09
4239 4376 5.814783 AGCAAAATGAATGAATCTACGCTC 58.185 37.500 0.00 0.00 0.00 5.03
4240 4377 5.220931 GGAGCAAAATGAATGAATCTACGCT 60.221 40.000 0.00 0.00 0.00 5.07
4241 4378 4.972440 GGAGCAAAATGAATGAATCTACGC 59.028 41.667 0.00 0.00 0.00 4.42
4242 4379 5.200454 CGGAGCAAAATGAATGAATCTACG 58.800 41.667 0.00 0.00 0.00 3.51
4243 4380 6.124088 ACGGAGCAAAATGAATGAATCTAC 57.876 37.500 0.00 0.00 0.00 2.59
4244 4381 7.498900 ACATACGGAGCAAAATGAATGAATCTA 59.501 33.333 0.00 0.00 0.00 1.98
4245 4382 6.319658 ACATACGGAGCAAAATGAATGAATCT 59.680 34.615 0.00 0.00 0.00 2.40
4246 4383 6.498304 ACATACGGAGCAAAATGAATGAATC 58.502 36.000 0.00 0.00 0.00 2.52
4247 4384 6.455360 ACATACGGAGCAAAATGAATGAAT 57.545 33.333 0.00 0.00 0.00 2.57
4248 4385 5.895636 ACATACGGAGCAAAATGAATGAA 57.104 34.783 0.00 0.00 0.00 2.57
4249 4386 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
4250 4387 6.037062 TGACTACATACGGAGCAAAATGAATG 59.963 38.462 0.00 0.00 0.00 2.67
4251 4388 6.037172 GTGACTACATACGGAGCAAAATGAAT 59.963 38.462 0.00 0.00 0.00 2.57
4252 4389 5.350365 GTGACTACATACGGAGCAAAATGAA 59.650 40.000 0.00 0.00 0.00 2.57
4253 4390 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
4254 4391 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
4255 4392 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
4256 4393 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
4257 4394 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
4258 4395 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
4259 4396 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
4260 4397 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
4261 4398 7.878477 TTTTAACAAGTGACTACATACGGAG 57.122 36.000 0.00 0.00 0.00 4.63
4304 4441 9.997482 CAAAAAGGCGACTATTTATTAGCTAAA 57.003 29.630 10.85 0.00 42.68 1.85
4305 4442 9.386010 TCAAAAAGGCGACTATTTATTAGCTAA 57.614 29.630 8.99 8.99 42.68 3.09
4306 4443 8.951787 TCAAAAAGGCGACTATTTATTAGCTA 57.048 30.769 0.00 0.00 42.68 3.32
4307 4444 7.859325 TCAAAAAGGCGACTATTTATTAGCT 57.141 32.000 0.00 0.00 42.68 3.32
4308 4445 8.905103 TTTCAAAAAGGCGACTATTTATTAGC 57.095 30.769 0.00 0.00 42.68 3.09


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

AutoCloner maintained by Alex Coulton.