Multiple sequence alignment - TraesCS3A01G487900

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 TraesCS3A01G487900 chr3A 100.000 2267 0 0 1 2267 715769564 715767298 0.000000e+00 4187
1 TraesCS3A01G487900 chr3A 98.780 246 3 0 1901 2146 528986797 528986552 2.670000e-119 438
2 TraesCS3A01G487900 chr3A 97.571 247 6 0 1901 2147 345981594 345981348 7.490000e-115 424
3 TraesCS3A01G487900 chr7A 97.179 1879 37 5 27 1899 287250724 287248856 0.000000e+00 3162
4 TraesCS3A01G487900 chr7A 97.942 243 5 0 1901 2143 393691862 393692104 2.690000e-114 422
5 TraesCS3A01G487900 chr7A 97.531 243 6 0 1901 2143 663427999 663428241 1.250000e-112 416
6 TraesCS3A01G487900 chr7A 95.312 256 12 0 1892 2147 647907457 647907712 7.540000e-110 407
7 TraesCS3A01G487900 chr5A 97.571 247 6 0 1901 2147 5183039 5182793 7.490000e-115 424
8 TraesCS3A01G487900 chr5A 83.681 288 32 13 1617 1899 415573992 415573715 8.030000e-65 257
9 TraesCS3A01G487900 chr5A 82.154 325 31 11 890 1189 415592784 415592462 1.040000e-63 254
10 TraesCS3A01G487900 chr6A 96.484 256 8 1 1901 2155 258132002 258132257 2.690000e-114 422
11 TraesCS3A01G487900 chr6A 96.047 253 9 1 1901 2152 592470281 592470029 5.830000e-111 411
12 TraesCS3A01G487900 chr4A 97.541 244 6 0 1900 2143 609183851 609184094 3.480000e-113 418
13 TraesCS3A01G487900 chr5D 78.770 683 63 24 1067 1736 321388217 321387604 1.270000e-102 383
14 TraesCS3A01G487900 chr5B 80.000 405 26 11 1338 1736 372170595 372170240 4.840000e-62 248
15 TraesCS3A01G487900 chr5B 83.673 147 12 8 790 936 372171110 372170976 6.570000e-26 128
16 TraesCS3A01G487900 chr7B 83.962 212 25 7 542 746 686131177 686131386 6.390000e-46 195
17 TraesCS3A01G487900 chr7B 81.043 211 35 4 541 746 472495851 472495641 1.800000e-36 163
18 TraesCS3A01G487900 chr3B 83.654 208 27 5 545 746 13329188 13328982 2.970000e-44 189


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 TraesCS3A01G487900 chr3A 715767298 715769564 2266 True 4187 4187 100.000 1 2267 1 chr3A.!!$R3 2266
1 TraesCS3A01G487900 chr7A 287248856 287250724 1868 True 3162 3162 97.179 27 1899 1 chr7A.!!$R1 1872
2 TraesCS3A01G487900 chr5D 321387604 321388217 613 True 383 383 78.770 1067 1736 1 chr5D.!!$R1 669

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
910 915 0.03601 ACACTTGCTGGCGAGCTTAT 60.036 50.0 21.84 3.89 46.39 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2035 2067 0.041926 GGCGAGCGTTAAACGTGTTT 60.042 50.0 3.21 3.21 44.73 2.83 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
17 18 4.326255 CCTTCCGGCTTGATGCTT 57.674 55.556 0.00 0.00 42.39 3.91
18 19 1.805254 CCTTCCGGCTTGATGCTTG 59.195 57.895 0.00 0.00 42.39 4.01
19 20 0.677731 CCTTCCGGCTTGATGCTTGA 60.678 55.000 0.00 0.00 42.39 3.02
20 21 1.386533 CTTCCGGCTTGATGCTTGAT 58.613 50.000 0.00 0.00 42.39 2.57
21 22 1.065102 CTTCCGGCTTGATGCTTGATG 59.935 52.381 0.00 0.00 42.39 3.07
22 23 1.065273 CCGGCTTGATGCTTGATGC 59.935 57.895 0.00 0.00 42.39 3.91
23 24 1.381928 CCGGCTTGATGCTTGATGCT 61.382 55.000 0.00 0.00 43.37 3.79
24 25 0.248498 CGGCTTGATGCTTGATGCTG 60.248 55.000 0.00 0.00 43.37 4.41
25 26 0.815734 GGCTTGATGCTTGATGCTGT 59.184 50.000 0.00 0.00 43.37 4.40
44 45 0.640495 TCCCCCTACTACCTCCCTTG 59.360 60.000 0.00 0.00 0.00 3.61
58 59 2.233922 CTCCCTTGAACACGATACCTGT 59.766 50.000 0.00 0.00 0.00 4.00
89 90 0.750546 TCATGCCCTCTGCTTGATGC 60.751 55.000 0.00 0.00 45.97 3.91
134 135 9.347934 CATATTAGTTAAGAGCGGACTAGATTG 57.652 37.037 0.00 0.00 0.00 2.67
149 150 6.536941 GGACTAGATTGAAGTTCTTTAGCAGG 59.463 42.308 4.17 0.00 0.00 4.85
157 158 4.009370 AGTTCTTTAGCAGGAGGTCAAC 57.991 45.455 0.00 0.00 0.00 3.18
330 331 4.739137 GCCGGCTTGATTATTGCCATTTTA 60.739 41.667 22.15 0.00 46.39 1.52
400 401 4.970662 TCCATTACTTCTTGCAATGCTC 57.029 40.909 6.82 0.00 30.08 4.26
440 441 9.743057 GTAGCAATGATATATCTGTCCAGTATC 57.257 37.037 13.79 0.00 0.00 2.24
483 484 5.365895 ACCAGTAGAGAGTTTTACTTGTGGT 59.634 40.000 0.00 0.00 28.20 4.16
484 485 5.927115 CCAGTAGAGAGTTTTACTTGTGGTC 59.073 44.000 0.00 0.00 0.00 4.02
485 486 5.629849 CAGTAGAGAGTTTTACTTGTGGTCG 59.370 44.000 0.00 0.00 0.00 4.79
486 487 4.667519 AGAGAGTTTTACTTGTGGTCGT 57.332 40.909 0.00 0.00 0.00 4.34
487 488 5.779529 AGAGAGTTTTACTTGTGGTCGTA 57.220 39.130 0.00 0.00 0.00 3.43
488 489 6.342338 AGAGAGTTTTACTTGTGGTCGTAT 57.658 37.500 0.00 0.00 0.00 3.06
489 490 6.388278 AGAGAGTTTTACTTGTGGTCGTATC 58.612 40.000 0.00 0.00 0.00 2.24
535 536 2.197465 AGTACCCAGTTCATCCTTCCC 58.803 52.381 0.00 0.00 0.00 3.97
595 596 6.779049 TGTACCTGTTAAGTTCCACTCTTAGA 59.221 38.462 0.00 0.00 0.00 2.10
615 620 8.533657 TCTTAGAAAATGTGTTATCCGGAAGTA 58.466 33.333 9.01 0.00 0.00 2.24
739 744 7.669427 TGCAAATAAGAAAGGATGTTGAATGT 58.331 30.769 0.00 0.00 0.00 2.71
806 811 9.851686 AGCTCATATAATTTGTGGTAGATTTGA 57.148 29.630 0.00 0.00 0.00 2.69
910 915 0.036010 ACACTTGCTGGCGAGCTTAT 60.036 50.000 21.84 3.89 46.39 1.73
1024 1029 2.548875 CATCTGCTGTACTCCTGCTTC 58.451 52.381 0.00 0.00 38.70 3.86
1049 1054 0.107017 ATTGATGGGGAGGTCGCAAG 60.107 55.000 0.00 0.00 41.73 4.01
1130 1139 4.442753 GGACTTCTTTTCATGGGTTTTGCA 60.443 41.667 0.00 0.00 0.00 4.08
1307 1329 5.301551 TGTCCAGAAAACATAGCACAACAAT 59.698 36.000 0.00 0.00 0.00 2.71
1308 1330 6.183360 TGTCCAGAAAACATAGCACAACAATT 60.183 34.615 0.00 0.00 0.00 2.32
1441 1472 7.273457 TGGGTTAGTTACCTTGATTTATGGA 57.727 36.000 0.00 0.00 46.86 3.41
1593 1624 6.767902 TGTGCTAGAAAGTATTCCATCATTCC 59.232 38.462 0.00 0.00 36.12 3.01
1905 1937 8.747538 ATTTGTAGAACTTTTTCCACACTAGT 57.252 30.769 0.00 0.00 33.69 2.57
1906 1938 9.841295 ATTTGTAGAACTTTTTCCACACTAGTA 57.159 29.630 0.00 0.00 33.69 1.82
1907 1939 9.669887 TTTGTAGAACTTTTTCCACACTAGTAA 57.330 29.630 0.00 0.00 33.69 2.24
1908 1940 9.669887 TTGTAGAACTTTTTCCACACTAGTAAA 57.330 29.630 0.00 0.00 33.69 2.01
1909 1941 9.841295 TGTAGAACTTTTTCCACACTAGTAAAT 57.159 29.630 0.00 0.00 29.55 1.40
1911 1943 7.649057 AGAACTTTTTCCACACTAGTAAATGC 58.351 34.615 0.00 0.00 31.28 3.56
1912 1944 5.997385 ACTTTTTCCACACTAGTAAATGCG 58.003 37.500 0.00 0.00 0.00 4.73
1913 1945 4.413495 TTTTCCACACTAGTAAATGCGC 57.587 40.909 0.00 0.00 0.00 6.09
1914 1946 2.753055 TCCACACTAGTAAATGCGCA 57.247 45.000 14.96 14.96 0.00 6.09
1915 1947 2.343101 TCCACACTAGTAAATGCGCAC 58.657 47.619 14.90 0.00 0.00 5.34
1916 1948 1.060553 CCACACTAGTAAATGCGCACG 59.939 52.381 14.90 0.00 0.00 5.34
1917 1949 1.724623 CACACTAGTAAATGCGCACGT 59.275 47.619 14.90 5.96 0.00 4.49
1918 1950 1.724623 ACACTAGTAAATGCGCACGTG 59.275 47.619 14.90 12.28 0.00 4.49
1919 1951 0.719465 ACTAGTAAATGCGCACGTGC 59.281 50.000 30.42 30.42 37.78 5.34
1940 1972 5.277825 TGCAATGCACGTTAATATTTAGGC 58.722 37.500 2.72 0.00 31.71 3.93
1941 1973 5.163612 TGCAATGCACGTTAATATTTAGGCA 60.164 36.000 2.72 0.00 31.71 4.75
1942 1974 5.746245 GCAATGCACGTTAATATTTAGGCAA 59.254 36.000 0.00 0.00 33.33 4.52
1943 1975 6.420604 GCAATGCACGTTAATATTTAGGCAAT 59.579 34.615 0.00 0.00 33.33 3.56
1944 1976 7.593273 GCAATGCACGTTAATATTTAGGCAATA 59.407 33.333 0.00 0.00 33.33 1.90
1945 1977 9.624697 CAATGCACGTTAATATTTAGGCAATAT 57.375 29.630 0.00 0.00 39.43 1.28
1968 2000 5.545658 ATTAATTGCACGCGGATATTAGG 57.454 39.130 12.47 0.00 0.00 2.69
1969 2001 2.543777 ATTGCACGCGGATATTAGGT 57.456 45.000 12.47 0.00 0.00 3.08
1970 2002 3.671008 ATTGCACGCGGATATTAGGTA 57.329 42.857 12.47 0.00 0.00 3.08
1971 2003 3.671008 TTGCACGCGGATATTAGGTAT 57.329 42.857 12.47 0.00 0.00 2.73
1972 2004 2.954316 TGCACGCGGATATTAGGTATG 58.046 47.619 12.47 0.00 0.00 2.39
1973 2005 1.659098 GCACGCGGATATTAGGTATGC 59.341 52.381 12.47 2.06 0.00 3.14
1974 2006 2.674177 GCACGCGGATATTAGGTATGCT 60.674 50.000 12.47 0.00 0.00 3.79
1975 2007 3.428452 GCACGCGGATATTAGGTATGCTA 60.428 47.826 12.47 0.00 0.00 3.49
1976 2008 4.736759 GCACGCGGATATTAGGTATGCTAT 60.737 45.833 12.47 0.00 0.00 2.97
1977 2009 5.348986 CACGCGGATATTAGGTATGCTATT 58.651 41.667 12.47 0.00 0.00 1.73
1978 2010 6.500910 CACGCGGATATTAGGTATGCTATTA 58.499 40.000 12.47 0.00 0.00 0.98
1979 2011 7.145985 CACGCGGATATTAGGTATGCTATTAT 58.854 38.462 12.47 0.00 0.00 1.28
1980 2012 7.652105 CACGCGGATATTAGGTATGCTATTATT 59.348 37.037 12.47 0.00 0.00 1.40
1981 2013 8.202137 ACGCGGATATTAGGTATGCTATTATTT 58.798 33.333 12.47 0.00 0.00 1.40
1982 2014 8.487970 CGCGGATATTAGGTATGCTATTATTTG 58.512 37.037 0.00 0.00 0.00 2.32
1983 2015 9.326413 GCGGATATTAGGTATGCTATTATTTGT 57.674 33.333 0.00 0.00 0.00 2.83
1993 2025 9.893305 GGTATGCTATTATTTGTGTGTTAATCC 57.107 33.333 0.00 0.00 0.00 3.01
1996 2028 8.574251 TGCTATTATTTGTGTGTTAATCCTGT 57.426 30.769 0.00 0.00 0.00 4.00
1997 2029 8.458052 TGCTATTATTTGTGTGTTAATCCTGTG 58.542 33.333 0.00 0.00 0.00 3.66
1998 2030 8.673711 GCTATTATTTGTGTGTTAATCCTGTGA 58.326 33.333 0.00 0.00 0.00 3.58
2003 2035 8.635765 ATTTGTGTGTTAATCCTGTGATTAGT 57.364 30.769 0.00 0.00 42.76 2.24
2004 2036 7.433708 TTGTGTGTTAATCCTGTGATTAGTG 57.566 36.000 0.00 0.00 42.76 2.74
2005 2037 6.530120 TGTGTGTTAATCCTGTGATTAGTGT 58.470 36.000 0.00 0.00 42.76 3.55
2006 2038 7.672240 TGTGTGTTAATCCTGTGATTAGTGTA 58.328 34.615 0.00 0.00 42.76 2.90
2007 2039 8.151596 TGTGTGTTAATCCTGTGATTAGTGTAA 58.848 33.333 0.00 0.00 42.76 2.41
2008 2040 9.162764 GTGTGTTAATCCTGTGATTAGTGTAAT 57.837 33.333 0.00 0.00 42.76 1.89
2015 2047 7.801716 TCCTGTGATTAGTGTAATATTTGGC 57.198 36.000 0.00 0.00 0.00 4.52
2016 2048 7.342581 TCCTGTGATTAGTGTAATATTTGGCA 58.657 34.615 0.00 0.00 0.00 4.92
2017 2049 7.998383 TCCTGTGATTAGTGTAATATTTGGCAT 59.002 33.333 0.00 0.00 0.00 4.40
2018 2050 8.077991 CCTGTGATTAGTGTAATATTTGGCATG 58.922 37.037 0.00 0.00 0.00 4.06
2019 2051 7.424803 TGTGATTAGTGTAATATTTGGCATGC 58.575 34.615 9.90 9.90 0.00 4.06
2020 2052 7.285172 TGTGATTAGTGTAATATTTGGCATGCT 59.715 33.333 18.92 0.00 0.00 3.79
2021 2053 8.783093 GTGATTAGTGTAATATTTGGCATGCTA 58.217 33.333 18.92 9.16 0.00 3.49
2022 2054 9.519191 TGATTAGTGTAATATTTGGCATGCTAT 57.481 29.630 18.92 11.19 0.00 2.97
2029 2061 9.421806 TGTAATATTTGGCATGCTATTAATTGC 57.578 29.630 18.92 14.01 0.00 3.56
2030 2062 9.421806 GTAATATTTGGCATGCTATTAATTGCA 57.578 29.630 23.47 23.47 42.25 4.08
2031 2063 7.894376 ATATTTGGCATGCTATTAATTGCAC 57.106 32.000 23.67 13.58 40.99 4.57
2032 2064 3.352554 TGGCATGCTATTAATTGCACG 57.647 42.857 23.67 18.12 40.99 5.34
2033 2065 2.687425 TGGCATGCTATTAATTGCACGT 59.313 40.909 23.67 9.08 40.99 4.49
2034 2066 3.130164 TGGCATGCTATTAATTGCACGTT 59.870 39.130 23.67 8.42 40.99 3.99
2035 2067 4.336713 TGGCATGCTATTAATTGCACGTTA 59.663 37.500 23.67 10.53 40.99 3.18
2036 2068 5.163612 TGGCATGCTATTAATTGCACGTTAA 60.164 36.000 23.67 8.77 40.99 2.01
2037 2069 5.746245 GGCATGCTATTAATTGCACGTTAAA 59.254 36.000 23.67 2.94 40.99 1.52
2038 2070 6.291585 GGCATGCTATTAATTGCACGTTAAAC 60.292 38.462 23.67 10.08 40.99 2.01
2039 2071 6.252441 GCATGCTATTAATTGCACGTTAAACA 59.748 34.615 23.67 1.60 40.99 2.83
2040 2072 7.600039 CATGCTATTAATTGCACGTTAAACAC 58.400 34.615 23.67 2.34 40.99 3.32
2058 2090 2.911198 CGTTTAACGCTCGCCATTG 58.089 52.632 4.11 0.00 33.65 2.82
2059 2091 0.520412 CGTTTAACGCTCGCCATTGG 60.520 55.000 4.11 0.00 33.65 3.16
2060 2092 0.800012 GTTTAACGCTCGCCATTGGA 59.200 50.000 6.95 0.00 0.00 3.53
2061 2093 1.083489 TTTAACGCTCGCCATTGGAG 58.917 50.000 6.95 2.84 34.62 3.86
2066 2098 3.805267 CTCGCCATTGGAGCAGTC 58.195 61.111 6.95 0.00 0.00 3.51
2067 2099 1.220206 CTCGCCATTGGAGCAGTCT 59.780 57.895 6.95 0.00 0.00 3.24
2068 2100 0.461548 CTCGCCATTGGAGCAGTCTA 59.538 55.000 6.95 0.00 0.00 2.59
2069 2101 0.461548 TCGCCATTGGAGCAGTCTAG 59.538 55.000 6.95 0.00 0.00 2.43
2070 2102 0.531532 CGCCATTGGAGCAGTCTAGG 60.532 60.000 6.95 0.00 0.00 3.02
2071 2103 0.543749 GCCATTGGAGCAGTCTAGGT 59.456 55.000 6.95 0.00 0.00 3.08
2072 2104 1.474143 GCCATTGGAGCAGTCTAGGTC 60.474 57.143 6.95 0.00 35.36 3.85
2073 2105 1.202463 CCATTGGAGCAGTCTAGGTCG 60.202 57.143 0.00 0.00 36.90 4.79
2074 2106 1.478510 CATTGGAGCAGTCTAGGTCGT 59.521 52.381 0.00 0.00 36.90 4.34
2075 2107 1.629043 TTGGAGCAGTCTAGGTCGTT 58.371 50.000 0.00 0.00 36.90 3.85
2076 2108 0.888619 TGGAGCAGTCTAGGTCGTTG 59.111 55.000 0.00 0.00 36.90 4.10
2077 2109 0.173708 GGAGCAGTCTAGGTCGTTGG 59.826 60.000 0.00 0.00 36.90 3.77
2078 2110 1.174783 GAGCAGTCTAGGTCGTTGGA 58.825 55.000 0.00 0.00 0.00 3.53
2079 2111 1.751924 GAGCAGTCTAGGTCGTTGGAT 59.248 52.381 0.00 0.00 0.00 3.41
2080 2112 2.166664 GAGCAGTCTAGGTCGTTGGATT 59.833 50.000 0.00 0.00 0.00 3.01
2081 2113 2.093973 AGCAGTCTAGGTCGTTGGATTG 60.094 50.000 0.00 0.00 0.00 2.67
2082 2114 2.094182 GCAGTCTAGGTCGTTGGATTGA 60.094 50.000 0.00 0.00 0.00 2.57
2083 2115 3.512680 CAGTCTAGGTCGTTGGATTGAC 58.487 50.000 0.00 0.00 0.00 3.18
2084 2116 3.193691 CAGTCTAGGTCGTTGGATTGACT 59.806 47.826 0.00 0.00 35.45 3.41
2085 2117 3.833070 AGTCTAGGTCGTTGGATTGACTT 59.167 43.478 0.00 0.00 35.45 3.01
2086 2118 3.927142 GTCTAGGTCGTTGGATTGACTTG 59.073 47.826 0.00 0.00 35.45 3.16
2087 2119 2.185004 AGGTCGTTGGATTGACTTGG 57.815 50.000 0.00 0.00 35.45 3.61
2088 2120 1.420138 AGGTCGTTGGATTGACTTGGT 59.580 47.619 0.00 0.00 35.45 3.67
2089 2121 2.158667 AGGTCGTTGGATTGACTTGGTT 60.159 45.455 0.00 0.00 35.45 3.67
2090 2122 2.225727 GGTCGTTGGATTGACTTGGTTC 59.774 50.000 0.00 0.00 35.45 3.62
2091 2123 2.096417 GTCGTTGGATTGACTTGGTTCG 60.096 50.000 0.00 0.00 32.37 3.95
2092 2124 2.139917 CGTTGGATTGACTTGGTTCGA 58.860 47.619 0.00 0.00 0.00 3.71
2093 2125 2.742053 CGTTGGATTGACTTGGTTCGAT 59.258 45.455 0.00 0.00 0.00 3.59
2094 2126 3.930229 CGTTGGATTGACTTGGTTCGATA 59.070 43.478 0.00 0.00 0.00 2.92
2095 2127 4.032900 CGTTGGATTGACTTGGTTCGATAG 59.967 45.833 0.00 0.00 0.00 2.08
2096 2128 3.531538 TGGATTGACTTGGTTCGATAGC 58.468 45.455 0.00 0.00 0.00 2.97
2097 2129 2.872858 GGATTGACTTGGTTCGATAGCC 59.127 50.000 0.00 0.00 0.00 3.93
2098 2130 2.004583 TTGACTTGGTTCGATAGCCG 57.995 50.000 0.00 0.00 40.25 5.52
2099 2131 1.179152 TGACTTGGTTCGATAGCCGA 58.821 50.000 0.00 0.00 46.94 5.54
2109 2141 1.609072 TCGATAGCCGAGATCAGTTGG 59.391 52.381 0.00 0.00 43.23 3.77
2110 2142 1.609072 CGATAGCCGAGATCAGTTGGA 59.391 52.381 0.00 0.00 41.76 3.53
2111 2143 2.230025 CGATAGCCGAGATCAGTTGGAT 59.770 50.000 0.00 0.00 41.76 3.41
2112 2144 5.869667 TCGATAGCCGAGATCAGTTGGATC 61.870 50.000 0.00 0.00 43.00 3.36
2122 2154 3.063510 TCAGTTGGATCTGCCTCTTTG 57.936 47.619 0.00 0.00 37.63 2.77
2123 2155 2.089980 CAGTTGGATCTGCCTCTTTGG 58.910 52.381 0.00 0.00 37.63 3.28
2124 2156 1.005215 AGTTGGATCTGCCTCTTTGGG 59.995 52.381 0.00 0.00 37.63 4.12
2125 2157 1.075601 TTGGATCTGCCTCTTTGGGT 58.924 50.000 0.00 0.00 37.63 4.51
2126 2158 0.620556 TGGATCTGCCTCTTTGGGTC 59.379 55.000 0.00 0.00 37.63 4.46
2127 2159 0.915364 GGATCTGCCTCTTTGGGTCT 59.085 55.000 0.00 0.00 36.00 3.85
2128 2160 1.283321 GGATCTGCCTCTTTGGGTCTT 59.717 52.381 0.00 0.00 36.00 3.01
2129 2161 2.291217 GGATCTGCCTCTTTGGGTCTTT 60.291 50.000 0.00 0.00 36.00 2.52
2130 2162 3.425659 GATCTGCCTCTTTGGGTCTTTT 58.574 45.455 0.00 0.00 36.00 2.27
2131 2163 3.312736 TCTGCCTCTTTGGGTCTTTTT 57.687 42.857 0.00 0.00 36.00 1.94
2132 2164 4.447138 TCTGCCTCTTTGGGTCTTTTTA 57.553 40.909 0.00 0.00 36.00 1.52
2133 2165 4.998051 TCTGCCTCTTTGGGTCTTTTTAT 58.002 39.130 0.00 0.00 36.00 1.40
2134 2166 6.134535 TCTGCCTCTTTGGGTCTTTTTATA 57.865 37.500 0.00 0.00 36.00 0.98
2135 2167 6.731467 TCTGCCTCTTTGGGTCTTTTTATAT 58.269 36.000 0.00 0.00 36.00 0.86
2136 2168 7.182060 TCTGCCTCTTTGGGTCTTTTTATATT 58.818 34.615 0.00 0.00 36.00 1.28
2137 2169 7.122650 TCTGCCTCTTTGGGTCTTTTTATATTG 59.877 37.037 0.00 0.00 36.00 1.90
2138 2170 6.154363 TGCCTCTTTGGGTCTTTTTATATTGG 59.846 38.462 0.00 0.00 36.00 3.16
2139 2171 6.154534 GCCTCTTTGGGTCTTTTTATATTGGT 59.845 38.462 0.00 0.00 36.00 3.67
2140 2172 7.340999 GCCTCTTTGGGTCTTTTTATATTGGTA 59.659 37.037 0.00 0.00 36.00 3.25
2141 2173 9.421399 CCTCTTTGGGTCTTTTTATATTGGTAT 57.579 33.333 0.00 0.00 0.00 2.73
2172 2204 5.934935 ATTATTAAAATAGACGGGTGCGG 57.065 39.130 0.00 0.00 0.00 5.69
2173 2205 1.371595 TTAAAATAGACGGGTGCGGC 58.628 50.000 0.00 0.00 0.00 6.53
2174 2206 0.249676 TAAAATAGACGGGTGCGGCA 59.750 50.000 0.00 0.00 0.00 5.69
2175 2207 0.606944 AAAATAGACGGGTGCGGCAA 60.607 50.000 3.23 0.00 0.00 4.52
2176 2208 1.303091 AAATAGACGGGTGCGGCAAC 61.303 55.000 10.14 10.14 0.00 4.17
2188 2220 3.038280 GGCAACGCACACCATCAA 58.962 55.556 0.00 0.00 0.00 2.57
2189 2221 1.586028 GGCAACGCACACCATCAAT 59.414 52.632 0.00 0.00 0.00 2.57
2190 2222 0.733566 GGCAACGCACACCATCAATG 60.734 55.000 0.00 0.00 0.00 2.82
2191 2223 0.240678 GCAACGCACACCATCAATGA 59.759 50.000 0.00 0.00 0.00 2.57
2192 2224 1.135315 GCAACGCACACCATCAATGAT 60.135 47.619 0.00 0.00 0.00 2.45
2193 2225 2.789208 CAACGCACACCATCAATGATC 58.211 47.619 0.00 0.00 0.00 2.92
2194 2226 2.408271 ACGCACACCATCAATGATCT 57.592 45.000 0.00 0.00 0.00 2.75
2195 2227 3.541996 ACGCACACCATCAATGATCTA 57.458 42.857 0.00 0.00 0.00 1.98
2196 2228 3.461061 ACGCACACCATCAATGATCTAG 58.539 45.455 0.00 0.00 0.00 2.43
2197 2229 3.118629 ACGCACACCATCAATGATCTAGT 60.119 43.478 0.00 0.00 0.00 2.57
2198 2230 4.099419 ACGCACACCATCAATGATCTAGTA 59.901 41.667 0.00 0.00 0.00 1.82
2199 2231 4.445718 CGCACACCATCAATGATCTAGTAC 59.554 45.833 0.00 0.00 0.00 2.73
2200 2232 5.605534 GCACACCATCAATGATCTAGTACT 58.394 41.667 0.00 0.00 0.00 2.73
2201 2233 5.694006 GCACACCATCAATGATCTAGTACTC 59.306 44.000 0.00 0.00 0.00 2.59
2202 2234 6.462207 GCACACCATCAATGATCTAGTACTCT 60.462 42.308 0.00 0.00 0.00 3.24
2203 2235 7.255625 GCACACCATCAATGATCTAGTACTCTA 60.256 40.741 0.00 0.00 0.00 2.43
2204 2236 8.801299 CACACCATCAATGATCTAGTACTCTAT 58.199 37.037 0.00 0.00 0.00 1.98
2205 2237 9.373450 ACACCATCAATGATCTAGTACTCTATT 57.627 33.333 0.00 0.00 0.00 1.73
2232 2264 6.987403 GGATACTTGGTCTTATCCTTCTCT 57.013 41.667 0.00 0.00 40.46 3.10
2234 2266 8.480133 GGATACTTGGTCTTATCCTTCTCTAA 57.520 38.462 0.00 0.00 40.46 2.10
2235 2267 8.925338 GGATACTTGGTCTTATCCTTCTCTAAA 58.075 37.037 0.00 0.00 40.46 1.85
2239 2271 8.826765 ACTTGGTCTTATCCTTCTCTAAATTCA 58.173 33.333 0.00 0.00 0.00 2.57
2240 2272 9.323985 CTTGGTCTTATCCTTCTCTAAATTCAG 57.676 37.037 0.00 0.00 0.00 3.02
2241 2273 7.796054 TGGTCTTATCCTTCTCTAAATTCAGG 58.204 38.462 0.00 0.00 0.00 3.86
2242 2274 7.623677 TGGTCTTATCCTTCTCTAAATTCAGGA 59.376 37.037 0.00 0.00 38.04 3.86
2243 2275 8.655901 GGTCTTATCCTTCTCTAAATTCAGGAT 58.344 37.037 4.49 4.49 44.87 3.24
2246 2278 9.282569 CTTATCCTTCTCTAAATTCAGGATTGG 57.717 37.037 4.38 0.00 40.84 3.16
2247 2279 6.642733 TCCTTCTCTAAATTCAGGATTGGT 57.357 37.500 0.00 0.00 0.00 3.67
2248 2280 6.653989 TCCTTCTCTAAATTCAGGATTGGTC 58.346 40.000 0.00 0.00 0.00 4.02
2249 2281 6.215431 TCCTTCTCTAAATTCAGGATTGGTCA 59.785 38.462 0.00 0.00 0.00 4.02
2250 2282 6.541641 CCTTCTCTAAATTCAGGATTGGTCAG 59.458 42.308 0.00 0.00 0.00 3.51
2251 2283 6.874278 TCTCTAAATTCAGGATTGGTCAGA 57.126 37.500 0.00 0.00 0.00 3.27
2252 2284 6.882656 TCTCTAAATTCAGGATTGGTCAGAG 58.117 40.000 0.00 0.00 0.00 3.35
2253 2285 6.669591 TCTCTAAATTCAGGATTGGTCAGAGA 59.330 38.462 0.00 0.00 32.55 3.10
2254 2286 7.346698 TCTCTAAATTCAGGATTGGTCAGAGAT 59.653 37.037 0.00 0.00 31.39 2.75
2255 2287 8.553085 TCTAAATTCAGGATTGGTCAGAGATA 57.447 34.615 0.00 0.00 0.00 1.98
2256 2288 8.424918 TCTAAATTCAGGATTGGTCAGAGATAC 58.575 37.037 0.00 0.00 0.00 2.24
2257 2289 6.821616 AATTCAGGATTGGTCAGAGATACT 57.178 37.500 0.00 0.00 0.00 2.12
2258 2290 5.860941 TTCAGGATTGGTCAGAGATACTC 57.139 43.478 0.00 0.00 0.00 2.59
2259 2291 5.136068 TCAGGATTGGTCAGAGATACTCT 57.864 43.478 0.00 0.00 42.11 3.24
2260 2292 6.267492 TCAGGATTGGTCAGAGATACTCTA 57.733 41.667 0.87 0.00 38.99 2.43
2261 2293 6.673583 TCAGGATTGGTCAGAGATACTCTAA 58.326 40.000 0.87 0.00 38.99 2.10
2262 2294 6.775142 TCAGGATTGGTCAGAGATACTCTAAG 59.225 42.308 0.87 0.00 38.99 2.18
2263 2295 6.549364 CAGGATTGGTCAGAGATACTCTAAGT 59.451 42.308 0.87 0.00 38.99 2.24
2264 2296 6.549364 AGGATTGGTCAGAGATACTCTAAGTG 59.451 42.308 0.87 0.00 38.99 3.16
2265 2297 6.547880 GGATTGGTCAGAGATACTCTAAGTGA 59.452 42.308 0.87 0.00 38.99 3.41
2266 2298 7.068839 GGATTGGTCAGAGATACTCTAAGTGAA 59.931 40.741 0.87 0.00 38.99 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 0.464554 GTAGGGGGACAGCATCAAGC 60.465 60.000 0.00 0.00 46.19 4.01
15 16 1.207791 AGTAGGGGGACAGCATCAAG 58.792 55.000 0.00 0.00 0.00 3.02
16 17 2.116238 GTAGTAGGGGGACAGCATCAA 58.884 52.381 0.00 0.00 0.00 2.57
17 18 1.691482 GGTAGTAGGGGGACAGCATCA 60.691 57.143 0.00 0.00 0.00 3.07
18 19 1.049402 GGTAGTAGGGGGACAGCATC 58.951 60.000 0.00 0.00 0.00 3.91
19 20 0.642710 AGGTAGTAGGGGGACAGCAT 59.357 55.000 0.00 0.00 0.00 3.79
20 21 0.032416 GAGGTAGTAGGGGGACAGCA 60.032 60.000 0.00 0.00 0.00 4.41
21 22 0.759812 GGAGGTAGTAGGGGGACAGC 60.760 65.000 0.00 0.00 0.00 4.40
22 23 0.105607 GGGAGGTAGTAGGGGGACAG 60.106 65.000 0.00 0.00 0.00 3.51
23 24 0.556888 AGGGAGGTAGTAGGGGGACA 60.557 60.000 0.00 0.00 0.00 4.02
24 25 0.641048 AAGGGAGGTAGTAGGGGGAC 59.359 60.000 0.00 0.00 0.00 4.46
25 26 0.640495 CAAGGGAGGTAGTAGGGGGA 59.360 60.000 0.00 0.00 0.00 4.81
44 45 3.066481 GGTAGAGGACAGGTATCGTGTTC 59.934 52.174 0.00 0.00 32.46 3.18
58 59 0.694444 GGGCATGAAGGGGTAGAGGA 60.694 60.000 0.00 0.00 0.00 3.71
89 90 2.439409 TGGTTCACAATGGATCAGCAG 58.561 47.619 0.00 0.00 0.00 4.24
134 135 4.273148 TGACCTCCTGCTAAAGAACTTC 57.727 45.455 0.00 0.00 0.00 3.01
210 211 3.296322 TTGGCGATTTAACTTGCTTGG 57.704 42.857 5.15 0.00 0.00 3.61
243 244 8.088365 TGATCGTTTGTGTAGCTGCTATATAAT 58.912 33.333 13.20 0.00 0.00 1.28
400 401 9.866798 ATATCATTGCTACATGCCTATATATCG 57.133 33.333 0.00 0.00 42.00 2.92
440 441 9.265901 CTACTGGTCCATACAATAAGATCTTTG 57.734 37.037 14.36 9.43 0.00 2.77
485 486 4.820897 TGCAATCAGATCATACGGGATAC 58.179 43.478 0.00 0.00 0.00 2.24
486 487 5.682234 ATGCAATCAGATCATACGGGATA 57.318 39.130 0.00 0.00 0.00 2.59
487 488 4.564782 ATGCAATCAGATCATACGGGAT 57.435 40.909 0.00 0.00 0.00 3.85
488 489 4.356405 AATGCAATCAGATCATACGGGA 57.644 40.909 0.00 0.00 0.00 5.14
489 490 6.748333 ATAAATGCAATCAGATCATACGGG 57.252 37.500 0.00 0.00 0.00 5.28
595 596 6.708285 AGACTACTTCCGGATAACACATTTT 58.292 36.000 4.15 0.00 0.00 1.82
615 620 9.739276 TTTTCATATTAATGACACCTGAAGACT 57.261 29.630 0.00 0.00 41.87 3.24
712 717 8.653338 CATTCAACATCCTTTCTTATTTGCAAG 58.347 33.333 0.00 0.00 0.00 4.01
739 744 1.105457 GCATGCCATGGAGTAGCAAA 58.895 50.000 18.40 0.00 40.46 3.68
889 894 3.966215 GCTCGCCAGCAAGTGTTA 58.034 55.556 0.00 0.00 46.06 2.41
910 915 8.756486 ATATTTGTCTTGATGTGATGGAATGA 57.244 30.769 0.00 0.00 0.00 2.57
970 975 6.911897 GCTGGAGCTACTTACCATAAATTGGA 60.912 42.308 0.00 0.00 42.44 3.53
978 983 2.043227 GAGGCTGGAGCTACTTACCAT 58.957 52.381 0.00 0.00 41.70 3.55
1010 1015 3.685139 TCCTTTGAAGCAGGAGTACAG 57.315 47.619 0.00 0.00 35.34 2.74
1024 1029 2.659428 GACCTCCCCATCAATCCTTTG 58.341 52.381 0.00 0.00 0.00 2.77
1049 1054 6.884836 ACAAAACACTCTTACCATCCCTATTC 59.115 38.462 0.00 0.00 0.00 1.75
1059 1064 2.551032 CCGGGAACAAAACACTCTTACC 59.449 50.000 0.00 0.00 0.00 2.85
1130 1139 3.423539 TGATGAAAGCTTGTAGCACCT 57.576 42.857 0.00 0.00 45.56 4.00
1441 1472 5.911752 CTGCAAGTGTATCCTTATCAGTCT 58.088 41.667 0.00 0.00 0.00 3.24
1593 1624 6.836577 TTTTGTTTTTCGAAATGGCTAAGG 57.163 33.333 12.12 0.00 0.00 2.69
1899 1931 1.526986 GCACGTGCGCATTTACTAGTG 60.527 52.381 26.77 15.60 0.00 2.74
1900 1932 0.719465 GCACGTGCGCATTTACTAGT 59.281 50.000 26.77 0.00 0.00 2.57
1901 1933 0.718904 TGCACGTGCGCATTTACTAG 59.281 50.000 33.22 0.66 45.83 2.57
1902 1934 1.149148 TTGCACGTGCGCATTTACTA 58.851 45.000 33.22 11.66 45.83 1.82
1903 1935 0.521291 ATTGCACGTGCGCATTTACT 59.479 45.000 33.22 8.15 45.83 2.24
1904 1936 0.634731 CATTGCACGTGCGCATTTAC 59.365 50.000 33.22 7.31 45.83 2.01
1905 1937 1.069924 GCATTGCACGTGCGCATTTA 61.070 50.000 33.22 14.00 45.83 1.40
1906 1938 2.374226 GCATTGCACGTGCGCATTT 61.374 52.632 33.22 14.44 45.83 2.32
1907 1939 2.806198 GCATTGCACGTGCGCATT 60.806 55.556 33.22 16.21 45.83 3.56
1908 1940 4.040636 TGCATTGCACGTGCGCAT 62.041 55.556 33.22 24.77 45.37 4.73
1917 1949 5.163612 TGCCTAAATATTAACGTGCATTGCA 60.164 36.000 7.38 7.38 35.60 4.08
1918 1950 5.277825 TGCCTAAATATTAACGTGCATTGC 58.722 37.500 0.46 0.46 0.00 3.56
1919 1951 7.928908 ATTGCCTAAATATTAACGTGCATTG 57.071 32.000 0.00 0.00 0.00 2.82
1942 1974 8.988934 CCTAATATCCGCGTGCAATTAATATAT 58.011 33.333 4.92 0.00 0.00 0.86
1943 1975 7.982919 ACCTAATATCCGCGTGCAATTAATATA 59.017 33.333 4.92 0.00 0.00 0.86
1944 1976 6.821665 ACCTAATATCCGCGTGCAATTAATAT 59.178 34.615 4.92 0.00 0.00 1.28
1945 1977 6.167685 ACCTAATATCCGCGTGCAATTAATA 58.832 36.000 4.92 0.00 0.00 0.98
1946 1978 5.001232 ACCTAATATCCGCGTGCAATTAAT 58.999 37.500 4.92 0.00 0.00 1.40
1947 1979 4.382291 ACCTAATATCCGCGTGCAATTAA 58.618 39.130 4.92 0.00 0.00 1.40
1948 1980 3.997762 ACCTAATATCCGCGTGCAATTA 58.002 40.909 4.92 3.03 0.00 1.40
1949 1981 2.846193 ACCTAATATCCGCGTGCAATT 58.154 42.857 4.92 1.90 0.00 2.32
1950 1982 2.543777 ACCTAATATCCGCGTGCAAT 57.456 45.000 4.92 0.00 0.00 3.56
1951 1983 3.322369 CATACCTAATATCCGCGTGCAA 58.678 45.455 4.92 0.00 0.00 4.08
1952 1984 2.929161 GCATACCTAATATCCGCGTGCA 60.929 50.000 4.92 0.00 0.00 4.57
1953 1985 1.659098 GCATACCTAATATCCGCGTGC 59.341 52.381 4.92 0.00 0.00 5.34
1954 1986 3.232213 AGCATACCTAATATCCGCGTG 57.768 47.619 4.92 0.00 0.00 5.34
1955 1987 5.593679 AATAGCATACCTAATATCCGCGT 57.406 39.130 4.92 0.00 0.00 6.01
1956 1988 8.487970 CAAATAATAGCATACCTAATATCCGCG 58.512 37.037 0.00 0.00 0.00 6.46
1957 1989 9.326413 ACAAATAATAGCATACCTAATATCCGC 57.674 33.333 0.00 0.00 0.00 5.54
1967 1999 9.893305 GGATTAACACACAAATAATAGCATACC 57.107 33.333 0.00 0.00 0.00 2.73
1970 2002 9.189156 ACAGGATTAACACACAAATAATAGCAT 57.811 29.630 0.00 0.00 0.00 3.79
1971 2003 8.458052 CACAGGATTAACACACAAATAATAGCA 58.542 33.333 0.00 0.00 0.00 3.49
1972 2004 8.673711 TCACAGGATTAACACACAAATAATAGC 58.326 33.333 0.00 0.00 0.00 2.97
1977 2009 9.733556 ACTAATCACAGGATTAACACACAAATA 57.266 29.630 0.00 0.00 43.50 1.40
1978 2010 8.514594 CACTAATCACAGGATTAACACACAAAT 58.485 33.333 0.00 0.00 43.50 2.32
1979 2011 7.500892 ACACTAATCACAGGATTAACACACAAA 59.499 33.333 0.00 0.00 43.50 2.83
1980 2012 6.995686 ACACTAATCACAGGATTAACACACAA 59.004 34.615 0.00 0.00 43.50 3.33
1981 2013 6.530120 ACACTAATCACAGGATTAACACACA 58.470 36.000 0.00 0.00 43.50 3.72
1982 2014 8.542497 TTACACTAATCACAGGATTAACACAC 57.458 34.615 0.00 0.00 43.50 3.82
1989 2021 8.850156 GCCAAATATTACACTAATCACAGGATT 58.150 33.333 0.00 0.00 45.50 3.01
1990 2022 7.998383 TGCCAAATATTACACTAATCACAGGAT 59.002 33.333 0.00 0.00 34.43 3.24
1991 2023 7.342581 TGCCAAATATTACACTAATCACAGGA 58.657 34.615 0.00 0.00 0.00 3.86
1992 2024 7.566760 TGCCAAATATTACACTAATCACAGG 57.433 36.000 0.00 0.00 0.00 4.00
1993 2025 7.592533 GCATGCCAAATATTACACTAATCACAG 59.407 37.037 6.36 0.00 0.00 3.66
1994 2026 7.285172 AGCATGCCAAATATTACACTAATCACA 59.715 33.333 15.66 0.00 0.00 3.58
1995 2027 7.651808 AGCATGCCAAATATTACACTAATCAC 58.348 34.615 15.66 0.00 0.00 3.06
1996 2028 7.822161 AGCATGCCAAATATTACACTAATCA 57.178 32.000 15.66 0.00 0.00 2.57
2003 2035 9.421806 GCAATTAATAGCATGCCAAATATTACA 57.578 29.630 15.66 7.62 32.73 2.41
2004 2036 9.421806 TGCAATTAATAGCATGCCAAATATTAC 57.578 29.630 15.66 5.07 38.00 1.89
2005 2037 9.421806 GTGCAATTAATAGCATGCCAAATATTA 57.578 29.630 15.66 12.86 43.44 0.98
2006 2038 7.116662 CGTGCAATTAATAGCATGCCAAATATT 59.883 33.333 15.66 13.87 43.44 1.28
2007 2039 6.587226 CGTGCAATTAATAGCATGCCAAATAT 59.413 34.615 15.66 2.38 43.44 1.28
2008 2040 5.919707 CGTGCAATTAATAGCATGCCAAATA 59.080 36.000 15.66 0.00 43.44 1.40
2009 2041 4.746115 CGTGCAATTAATAGCATGCCAAAT 59.254 37.500 15.66 6.34 43.44 2.32
2010 2042 4.111198 CGTGCAATTAATAGCATGCCAAA 58.889 39.130 15.66 4.00 43.44 3.28
2011 2043 3.704512 CGTGCAATTAATAGCATGCCAA 58.295 40.909 15.66 2.91 43.44 4.52
2012 2044 3.352554 CGTGCAATTAATAGCATGCCA 57.647 42.857 15.66 0.00 43.44 4.92
2016 2048 7.734538 GTGTTTAACGTGCAATTAATAGCAT 57.265 32.000 5.50 0.00 43.44 3.79
2033 2065 2.348404 GGCGAGCGTTAAACGTGTTTAA 60.348 45.455 12.58 12.58 44.73 1.52
2034 2066 1.192090 GGCGAGCGTTAAACGTGTTTA 59.808 47.619 1.18 1.18 44.73 2.01
2035 2067 0.041926 GGCGAGCGTTAAACGTGTTT 60.042 50.000 3.21 3.21 44.73 2.83
2036 2068 1.152989 TGGCGAGCGTTAAACGTGTT 61.153 50.000 0.00 0.00 44.73 3.32
2037 2069 0.947180 ATGGCGAGCGTTAAACGTGT 60.947 50.000 0.00 0.00 44.73 4.49
2038 2070 0.165079 AATGGCGAGCGTTAAACGTG 59.835 50.000 0.00 0.00 44.73 4.49
2039 2071 0.165079 CAATGGCGAGCGTTAAACGT 59.835 50.000 0.00 0.00 44.73 3.99
2040 2072 0.520412 CCAATGGCGAGCGTTAAACG 60.520 55.000 0.00 0.00 45.88 3.60
2041 2073 0.800012 TCCAATGGCGAGCGTTAAAC 59.200 50.000 0.00 0.00 0.00 2.01
2042 2074 1.083489 CTCCAATGGCGAGCGTTAAA 58.917 50.000 0.00 0.00 0.00 1.52
2043 2075 1.366111 GCTCCAATGGCGAGCGTTAA 61.366 55.000 0.00 0.00 43.04 2.01
2044 2076 1.813753 GCTCCAATGGCGAGCGTTA 60.814 57.895 0.00 0.00 43.04 3.18
2045 2077 3.127533 GCTCCAATGGCGAGCGTT 61.128 61.111 0.00 0.00 43.04 4.84
2049 2081 0.461548 TAGACTGCTCCAATGGCGAG 59.538 55.000 0.00 0.00 0.00 5.03
2050 2082 0.461548 CTAGACTGCTCCAATGGCGA 59.538 55.000 0.00 0.00 0.00 5.54
2051 2083 0.531532 CCTAGACTGCTCCAATGGCG 60.532 60.000 0.00 0.00 0.00 5.69
2052 2084 0.543749 ACCTAGACTGCTCCAATGGC 59.456 55.000 0.00 0.00 0.00 4.40
2053 2085 1.202463 CGACCTAGACTGCTCCAATGG 60.202 57.143 0.00 0.00 0.00 3.16
2054 2086 1.478510 ACGACCTAGACTGCTCCAATG 59.521 52.381 0.00 0.00 0.00 2.82
2055 2087 1.853963 ACGACCTAGACTGCTCCAAT 58.146 50.000 0.00 0.00 0.00 3.16
2056 2088 1.272490 CAACGACCTAGACTGCTCCAA 59.728 52.381 0.00 0.00 0.00 3.53
2057 2089 0.888619 CAACGACCTAGACTGCTCCA 59.111 55.000 0.00 0.00 0.00 3.86
2058 2090 0.173708 CCAACGACCTAGACTGCTCC 59.826 60.000 0.00 0.00 0.00 4.70
2059 2091 1.174783 TCCAACGACCTAGACTGCTC 58.825 55.000 0.00 0.00 0.00 4.26
2060 2092 1.853963 ATCCAACGACCTAGACTGCT 58.146 50.000 0.00 0.00 0.00 4.24
2061 2093 2.094182 TCAATCCAACGACCTAGACTGC 60.094 50.000 0.00 0.00 0.00 4.40
2062 2094 3.193691 AGTCAATCCAACGACCTAGACTG 59.806 47.826 0.00 0.00 34.17 3.51
2063 2095 3.432378 AGTCAATCCAACGACCTAGACT 58.568 45.455 0.00 0.00 32.33 3.24
2064 2096 3.870633 AGTCAATCCAACGACCTAGAC 57.129 47.619 0.00 0.00 32.33 2.59
2065 2097 3.056107 CCAAGTCAATCCAACGACCTAGA 60.056 47.826 0.00 0.00 32.33 2.43
2066 2098 3.262420 CCAAGTCAATCCAACGACCTAG 58.738 50.000 0.00 0.00 32.33 3.02
2067 2099 2.635915 ACCAAGTCAATCCAACGACCTA 59.364 45.455 0.00 0.00 32.33 3.08
2068 2100 1.420138 ACCAAGTCAATCCAACGACCT 59.580 47.619 0.00 0.00 32.33 3.85
2069 2101 1.892209 ACCAAGTCAATCCAACGACC 58.108 50.000 0.00 0.00 32.33 4.79
2070 2102 2.096417 CGAACCAAGTCAATCCAACGAC 60.096 50.000 0.00 0.00 0.00 4.34
2071 2103 2.139917 CGAACCAAGTCAATCCAACGA 58.860 47.619 0.00 0.00 0.00 3.85
2072 2104 2.139917 TCGAACCAAGTCAATCCAACG 58.860 47.619 0.00 0.00 0.00 4.10
2073 2105 4.201822 GCTATCGAACCAAGTCAATCCAAC 60.202 45.833 0.00 0.00 0.00 3.77
2074 2106 3.938963 GCTATCGAACCAAGTCAATCCAA 59.061 43.478 0.00 0.00 0.00 3.53
2075 2107 3.531538 GCTATCGAACCAAGTCAATCCA 58.468 45.455 0.00 0.00 0.00 3.41
2076 2108 2.872858 GGCTATCGAACCAAGTCAATCC 59.127 50.000 0.00 0.00 0.00 3.01
2077 2109 2.540101 CGGCTATCGAACCAAGTCAATC 59.460 50.000 0.00 0.00 42.43 2.67
2078 2110 2.167693 TCGGCTATCGAACCAAGTCAAT 59.832 45.455 0.00 0.00 45.86 2.57
2079 2111 1.546923 TCGGCTATCGAACCAAGTCAA 59.453 47.619 0.00 0.00 45.86 3.18
2080 2112 1.179152 TCGGCTATCGAACCAAGTCA 58.821 50.000 0.00 0.00 45.86 3.41
2088 2120 7.280896 GATCCAACTGATCTCGGCTATCGAA 62.281 48.000 0.00 0.00 45.46 3.71
2089 2121 1.609072 CCAACTGATCTCGGCTATCGA 59.391 52.381 0.00 0.00 46.77 3.59
2090 2122 1.609072 TCCAACTGATCTCGGCTATCG 59.391 52.381 0.00 0.00 40.90 2.92
2091 2123 3.843999 GATCCAACTGATCTCGGCTATC 58.156 50.000 0.00 0.00 45.46 2.08
2092 2124 3.951775 GATCCAACTGATCTCGGCTAT 57.048 47.619 0.00 0.00 45.46 2.97
2101 2133 3.618351 CAAAGAGGCAGATCCAACTGAT 58.382 45.455 0.00 0.00 39.94 2.90
2102 2134 2.290514 CCAAAGAGGCAGATCCAACTGA 60.291 50.000 0.00 0.00 39.94 3.41
2103 2135 2.089980 CCAAAGAGGCAGATCCAACTG 58.910 52.381 0.00 0.00 40.43 3.16
2104 2136 1.005215 CCCAAAGAGGCAGATCCAACT 59.995 52.381 0.00 0.00 37.29 3.16
2105 2137 1.272147 ACCCAAAGAGGCAGATCCAAC 60.272 52.381 0.00 0.00 37.29 3.77
2106 2138 1.004745 GACCCAAAGAGGCAGATCCAA 59.995 52.381 0.00 0.00 37.29 3.53
2107 2139 0.620556 GACCCAAAGAGGCAGATCCA 59.379 55.000 0.00 0.00 37.29 3.41
2108 2140 0.915364 AGACCCAAAGAGGCAGATCC 59.085 55.000 0.00 0.00 35.39 3.36
2109 2141 2.797177 AAGACCCAAAGAGGCAGATC 57.203 50.000 0.00 0.00 35.39 2.75
2110 2142 3.532641 AAAAGACCCAAAGAGGCAGAT 57.467 42.857 0.00 0.00 35.39 2.90
2111 2143 3.312736 AAAAAGACCCAAAGAGGCAGA 57.687 42.857 0.00 0.00 35.39 4.26
2112 2144 7.260603 CAATATAAAAAGACCCAAAGAGGCAG 58.739 38.462 0.00 0.00 35.39 4.85
2113 2145 6.154363 CCAATATAAAAAGACCCAAAGAGGCA 59.846 38.462 0.00 0.00 35.39 4.75
2114 2146 6.154534 ACCAATATAAAAAGACCCAAAGAGGC 59.845 38.462 0.00 0.00 35.39 4.70
2115 2147 7.718334 ACCAATATAAAAAGACCCAAAGAGG 57.282 36.000 0.00 0.00 37.03 3.69
2146 2178 9.153721 CCGCACCCGTCTATTTTAATAATATAA 57.846 33.333 0.00 0.00 0.00 0.98
2147 2179 7.278424 GCCGCACCCGTCTATTTTAATAATATA 59.722 37.037 0.00 0.00 0.00 0.86
2148 2180 6.093082 GCCGCACCCGTCTATTTTAATAATAT 59.907 38.462 0.00 0.00 0.00 1.28
2149 2181 5.409214 GCCGCACCCGTCTATTTTAATAATA 59.591 40.000 0.00 0.00 0.00 0.98
2150 2182 4.214758 GCCGCACCCGTCTATTTTAATAAT 59.785 41.667 0.00 0.00 0.00 1.28
2151 2183 3.560896 GCCGCACCCGTCTATTTTAATAA 59.439 43.478 0.00 0.00 0.00 1.40
2152 2184 3.132925 GCCGCACCCGTCTATTTTAATA 58.867 45.455 0.00 0.00 0.00 0.98
2153 2185 1.944709 GCCGCACCCGTCTATTTTAAT 59.055 47.619 0.00 0.00 0.00 1.40
2154 2186 1.338864 TGCCGCACCCGTCTATTTTAA 60.339 47.619 0.00 0.00 0.00 1.52
2155 2187 0.249676 TGCCGCACCCGTCTATTTTA 59.750 50.000 0.00 0.00 0.00 1.52
2156 2188 0.606944 TTGCCGCACCCGTCTATTTT 60.607 50.000 0.00 0.00 0.00 1.82
2157 2189 1.003112 TTGCCGCACCCGTCTATTT 60.003 52.632 0.00 0.00 0.00 1.40
2158 2190 1.743995 GTTGCCGCACCCGTCTATT 60.744 57.895 0.00 0.00 0.00 1.73
2159 2191 2.125269 GTTGCCGCACCCGTCTAT 60.125 61.111 0.00 0.00 0.00 1.98
2160 2192 4.728102 CGTTGCCGCACCCGTCTA 62.728 66.667 0.00 0.00 0.00 2.59
2170 2202 2.198906 ATTGATGGTGTGCGTTGCCG 62.199 55.000 0.00 0.00 37.07 5.69
2171 2203 0.733566 CATTGATGGTGTGCGTTGCC 60.734 55.000 0.00 0.00 0.00 4.52
2172 2204 0.240678 TCATTGATGGTGTGCGTTGC 59.759 50.000 0.00 0.00 0.00 4.17
2173 2205 2.421073 AGATCATTGATGGTGTGCGTTG 59.579 45.455 3.32 0.00 0.00 4.10
2174 2206 2.715046 AGATCATTGATGGTGTGCGTT 58.285 42.857 3.32 0.00 0.00 4.84
2175 2207 2.408271 AGATCATTGATGGTGTGCGT 57.592 45.000 3.32 0.00 0.00 5.24
2176 2208 3.461061 ACTAGATCATTGATGGTGTGCG 58.539 45.455 3.32 0.00 0.00 5.34
2177 2209 5.605534 AGTACTAGATCATTGATGGTGTGC 58.394 41.667 3.32 3.71 0.00 4.57
2178 2210 7.048629 AGAGTACTAGATCATTGATGGTGTG 57.951 40.000 3.32 0.00 0.00 3.82
2179 2211 8.948401 ATAGAGTACTAGATCATTGATGGTGT 57.052 34.615 3.32 2.60 31.78 4.16
2195 2227 9.939424 AGACCAAGTATCCTTTAATAGAGTACT 57.061 33.333 0.00 0.00 0.00 2.73
2209 2241 6.987403 AGAGAAGGATAAGACCAAGTATCC 57.013 41.667 2.10 2.10 44.24 2.59
2213 2245 8.826765 TGAATTTAGAGAAGGATAAGACCAAGT 58.173 33.333 0.00 0.00 0.00 3.16
2214 2246 9.323985 CTGAATTTAGAGAAGGATAAGACCAAG 57.676 37.037 0.00 0.00 0.00 3.61
2215 2247 8.267894 CCTGAATTTAGAGAAGGATAAGACCAA 58.732 37.037 0.00 0.00 0.00 3.67
2216 2248 7.623677 TCCTGAATTTAGAGAAGGATAAGACCA 59.376 37.037 0.00 0.00 32.07 4.02
2217 2249 8.024145 TCCTGAATTTAGAGAAGGATAAGACC 57.976 38.462 0.00 0.00 32.07 3.85
2220 2252 9.282569 CCAATCCTGAATTTAGAGAAGGATAAG 57.717 37.037 3.07 0.49 45.05 1.73
2221 2253 8.781951 ACCAATCCTGAATTTAGAGAAGGATAA 58.218 33.333 3.07 0.00 45.05 1.75
2222 2254 8.337118 ACCAATCCTGAATTTAGAGAAGGATA 57.663 34.615 3.07 0.00 45.05 2.59
2224 2256 6.215431 TGACCAATCCTGAATTTAGAGAAGGA 59.785 38.462 0.00 0.00 41.16 3.36
2225 2257 6.418101 TGACCAATCCTGAATTTAGAGAAGG 58.582 40.000 0.00 4.55 0.00 3.46
2226 2258 7.334090 TCTGACCAATCCTGAATTTAGAGAAG 58.666 38.462 0.00 0.00 0.00 2.85
2227 2259 7.180946 TCTCTGACCAATCCTGAATTTAGAGAA 59.819 37.037 0.00 0.00 35.40 2.87
2228 2260 6.669591 TCTCTGACCAATCCTGAATTTAGAGA 59.330 38.462 0.00 0.00 35.81 3.10
2229 2261 6.882656 TCTCTGACCAATCCTGAATTTAGAG 58.117 40.000 0.00 0.00 0.00 2.43
2230 2262 6.874278 TCTCTGACCAATCCTGAATTTAGA 57.126 37.500 0.00 0.00 0.00 2.10
2231 2263 8.428063 AGTATCTCTGACCAATCCTGAATTTAG 58.572 37.037 0.00 0.00 0.00 1.85
2232 2264 8.324191 AGTATCTCTGACCAATCCTGAATTTA 57.676 34.615 0.00 0.00 0.00 1.40
2233 2265 7.205515 AGTATCTCTGACCAATCCTGAATTT 57.794 36.000 0.00 0.00 0.00 1.82
2234 2266 6.821616 AGTATCTCTGACCAATCCTGAATT 57.178 37.500 0.00 0.00 0.00 2.17
2235 2267 6.418057 GAGTATCTCTGACCAATCCTGAAT 57.582 41.667 0.00 0.00 0.00 2.57
2236 2268 5.860941 GAGTATCTCTGACCAATCCTGAA 57.139 43.478 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.