Multiple sequence alignment - TraesCS2A01G017800

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 TraesCS2A01G017800 chr2A 100.000 2243 0 0 1 2243 8392126 8394368 0.000000e+00 4143.0
1 TraesCS2A01G017800 chr2A 98.071 311 6 0 1933 2243 8401137 8401447 1.960000e-150 542.0
2 TraesCS2A01G017800 chr1A 95.480 1969 63 4 1 1943 532074004 532072036 0.000000e+00 3120.0
3 TraesCS2A01G017800 chr1A 99.007 302 3 0 1942 2243 554249746 554249445 1.960000e-150 542.0
4 TraesCS2A01G017800 chr2B 89.527 1967 176 13 1 1939 31113549 31111585 0.000000e+00 2464.0
5 TraesCS2A01G017800 chr2B 89.247 1860 193 5 1 1854 550849942 550851800 0.000000e+00 2320.0
6 TraesCS2A01G017800 chr2B 89.615 1194 123 1 652 1844 129208653 129209846 0.000000e+00 1517.0
7 TraesCS2A01G017800 chr6B 88.757 1859 203 6 1 1856 114025665 114023810 0.000000e+00 2270.0
8 TraesCS2A01G017800 chr6B 88.650 1859 206 5 2 1856 564204436 564206293 0.000000e+00 2259.0
9 TraesCS2A01G017800 chr6B 86.261 1856 244 8 1 1853 677893213 677895060 0.000000e+00 2004.0
10 TraesCS2A01G017800 chr6B 98.065 310 6 0 1934 2243 187153864 187154173 7.050000e-150 540.0
11 TraesCS2A01G017800 chr6B 85.882 85 12 0 1854 1938 564206314 564206398 8.530000e-15 91.6
12 TraesCS2A01G017800 chr6B 88.732 71 8 0 1854 1924 677895084 677895154 1.100000e-13 87.9
13 TraesCS2A01G017800 chr6B 84.091 88 14 0 1854 1941 114023789 114023702 3.970000e-13 86.1
14 TraesCS2A01G017800 chr3B 88.722 1862 199 8 1 1856 452477311 452479167 0.000000e+00 2265.0
15 TraesCS2A01G017800 chr3B 87.059 85 11 0 1854 1938 452479188 452479272 1.830000e-16 97.1
16 TraesCS2A01G017800 chr7B 86.781 1861 235 10 1 1856 577120425 577118571 0.000000e+00 2063.0
17 TraesCS2A01G017800 chr7B 86.520 1862 243 8 1 1856 743763589 743761730 0.000000e+00 2041.0
18 TraesCS2A01G017800 chr7B 99.007 302 3 0 1942 2243 501492724 501492423 1.960000e-150 542.0
19 TraesCS2A01G017800 chr7B 85.227 88 13 0 1854 1941 743761709 743761622 8.530000e-15 91.6
20 TraesCS2A01G017800 chr7B 84.091 88 14 0 1854 1941 577118550 577118463 3.970000e-13 86.1
21 TraesCS2A01G017800 chr6A 94.684 997 29 6 971 1943 17055043 17054047 0.000000e+00 1526.0
22 TraesCS2A01G017800 chr1B 99.338 302 2 0 1942 2243 315199123 315198822 4.210000e-152 547.0
23 TraesCS2A01G017800 chr4B 99.007 302 3 0 1942 2243 122543114 122542813 1.960000e-150 542.0
24 TraesCS2A01G017800 chr4B 99.007 302 3 0 1942 2243 122549475 122549174 1.960000e-150 542.0
25 TraesCS2A01G017800 chr4A 99.007 302 3 0 1942 2243 634462729 634462428 1.960000e-150 542.0
26 TraesCS2A01G017800 chr4A 97.444 313 8 0 1931 2243 88343739 88344051 3.280000e-148 534.0


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 TraesCS2A01G017800 chr2A 8392126 8394368 2242 False 4143.00 4143 100.0000 1 2243 1 chr2A.!!$F1 2242
1 TraesCS2A01G017800 chr1A 532072036 532074004 1968 True 3120.00 3120 95.4800 1 1943 1 chr1A.!!$R1 1942
2 TraesCS2A01G017800 chr2B 31111585 31113549 1964 True 2464.00 2464 89.5270 1 1939 1 chr2B.!!$R1 1938
3 TraesCS2A01G017800 chr2B 550849942 550851800 1858 False 2320.00 2320 89.2470 1 1854 1 chr2B.!!$F2 1853
4 TraesCS2A01G017800 chr2B 129208653 129209846 1193 False 1517.00 1517 89.6150 652 1844 1 chr2B.!!$F1 1192
5 TraesCS2A01G017800 chr6B 114023702 114025665 1963 True 1178.05 2270 86.4240 1 1941 2 chr6B.!!$R1 1940
6 TraesCS2A01G017800 chr6B 564204436 564206398 1962 False 1175.30 2259 87.2660 2 1938 2 chr6B.!!$F2 1936
7 TraesCS2A01G017800 chr6B 677893213 677895154 1941 False 1045.95 2004 87.4965 1 1924 2 chr6B.!!$F3 1923
8 TraesCS2A01G017800 chr3B 452477311 452479272 1961 False 1181.05 2265 87.8905 1 1938 2 chr3B.!!$F1 1937
9 TraesCS2A01G017800 chr7B 577118463 577120425 1962 True 1074.55 2063 85.4360 1 1941 2 chr7B.!!$R2 1940
10 TraesCS2A01G017800 chr7B 743761622 743763589 1967 True 1066.30 2041 85.8735 1 1941 2 chr7B.!!$R3 1940
11 TraesCS2A01G017800 chr6A 17054047 17055043 996 True 1526.00 1526 94.6840 971 1943 1 chr6A.!!$R1 972

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
466 470 0.810426 GCGGAAAGAACGAGGGGATC 60.81 60.0 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2194 2228 0.032217 CCTCTCCCTCTCTCCTTGCT 60.032 60.0 0.0 0.0 0.0 3.91 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
96 97 1.111277 GCCTGGTGAGTTTGGTTTGT 58.889 50.000 0.00 0.00 0.00 2.83
181 182 1.069906 GCATGAGGTTGTGTGTTCGAC 60.070 52.381 0.00 0.00 0.00 4.20
183 184 3.649073 CATGAGGTTGTGTGTTCGACTA 58.351 45.455 0.00 0.00 0.00 2.59
466 470 0.810426 GCGGAAAGAACGAGGGGATC 60.810 60.000 0.00 0.00 0.00 3.36
687 697 2.722201 GCCGTTCGATCCACCTCCT 61.722 63.158 0.00 0.00 0.00 3.69
857 867 2.804828 GCGCCTGCTGGTAGGAAACT 62.805 60.000 11.69 0.00 40.42 2.66
939 949 1.227205 CGCTGGATCTGCTCAGGTC 60.227 63.158 1.60 1.60 37.83 3.85
989 999 3.813724 GTGGAACAAGTTCTTGACCCTAC 59.186 47.826 17.75 13.14 44.16 3.18
1174 1184 5.564848 GCTCAAGGTCTTGGTTTTTACCATC 60.565 44.000 10.39 0.00 39.86 3.51
1924 1958 1.213619 TCAGGGGATGGTGGATGCAA 61.214 55.000 0.00 0.00 0.00 4.08
1943 1977 8.308931 GGATGCAACCATGAATGATAATATTGT 58.691 33.333 8.36 0.00 0.00 2.71
1944 1978 9.701098 GATGCAACCATGAATGATAATATTGTT 57.299 29.630 0.00 0.00 0.00 2.83
1945 1979 8.874744 TGCAACCATGAATGATAATATTGTTG 57.125 30.769 0.00 1.42 34.15 3.33
1946 1980 7.927092 TGCAACCATGAATGATAATATTGTTGG 59.073 33.333 0.00 0.00 32.27 3.77
1947 1981 7.385752 GCAACCATGAATGATAATATTGTTGGG 59.614 37.037 0.00 0.00 32.27 4.12
1948 1982 7.543359 ACCATGAATGATAATATTGTTGGGG 57.457 36.000 0.00 0.00 0.00 4.96
1949 1983 7.304479 ACCATGAATGATAATATTGTTGGGGA 58.696 34.615 0.00 0.00 0.00 4.81
1950 1984 7.788867 ACCATGAATGATAATATTGTTGGGGAA 59.211 33.333 0.00 0.00 0.00 3.97
1951 1985 8.090214 CCATGAATGATAATATTGTTGGGGAAC 58.910 37.037 0.00 0.00 0.00 3.62
1952 1986 7.270757 TGAATGATAATATTGTTGGGGAACG 57.729 36.000 0.00 0.00 0.00 3.95
1953 1987 6.831353 TGAATGATAATATTGTTGGGGAACGT 59.169 34.615 0.00 0.00 0.00 3.99
1954 1988 7.993758 TGAATGATAATATTGTTGGGGAACGTA 59.006 33.333 0.00 0.00 0.00 3.57
1955 1989 7.979444 ATGATAATATTGTTGGGGAACGTAG 57.021 36.000 0.00 0.00 0.00 3.51
1956 1990 5.761234 TGATAATATTGTTGGGGAACGTAGC 59.239 40.000 0.00 0.00 0.00 3.58
1957 1991 3.637911 ATATTGTTGGGGAACGTAGCA 57.362 42.857 0.00 0.00 0.00 3.49
1958 1992 1.821216 ATTGTTGGGGAACGTAGCAG 58.179 50.000 0.00 0.00 0.00 4.24
1959 1993 0.759959 TTGTTGGGGAACGTAGCAGA 59.240 50.000 0.00 0.00 0.00 4.26
1960 1994 0.759959 TGTTGGGGAACGTAGCAGAA 59.240 50.000 0.00 0.00 0.00 3.02
1961 1995 1.141254 TGTTGGGGAACGTAGCAGAAA 59.859 47.619 0.00 0.00 0.00 2.52
1962 1996 2.224670 TGTTGGGGAACGTAGCAGAAAT 60.225 45.455 0.00 0.00 0.00 2.17
1963 1997 2.817844 GTTGGGGAACGTAGCAGAAATT 59.182 45.455 0.00 0.00 0.00 1.82
1964 1998 2.706890 TGGGGAACGTAGCAGAAATTC 58.293 47.619 0.00 0.00 0.00 2.17
1965 1999 2.039216 TGGGGAACGTAGCAGAAATTCA 59.961 45.455 0.00 0.00 0.00 2.57
1966 2000 3.078837 GGGGAACGTAGCAGAAATTCAA 58.921 45.455 0.00 0.00 0.00 2.69
1967 2001 3.504520 GGGGAACGTAGCAGAAATTCAAA 59.495 43.478 0.00 0.00 0.00 2.69
1968 2002 4.022676 GGGGAACGTAGCAGAAATTCAAAA 60.023 41.667 0.00 0.00 0.00 2.44
1969 2003 5.336451 GGGGAACGTAGCAGAAATTCAAAAT 60.336 40.000 0.00 0.00 0.00 1.82
1970 2004 6.156519 GGGAACGTAGCAGAAATTCAAAATT 58.843 36.000 0.00 0.00 0.00 1.82
1971 2005 6.645003 GGGAACGTAGCAGAAATTCAAAATTT 59.355 34.615 0.00 0.00 0.00 1.82
1972 2006 7.170828 GGGAACGTAGCAGAAATTCAAAATTTT 59.829 33.333 0.00 0.00 0.00 1.82
1973 2007 8.214472 GGAACGTAGCAGAAATTCAAAATTTTC 58.786 33.333 0.00 0.00 33.08 2.29
1974 2008 7.637709 ACGTAGCAGAAATTCAAAATTTTCC 57.362 32.000 0.00 0.00 33.30 3.13
1975 2009 7.433680 ACGTAGCAGAAATTCAAAATTTTCCT 58.566 30.769 0.00 0.86 33.30 3.36
1976 2010 8.573035 ACGTAGCAGAAATTCAAAATTTTCCTA 58.427 29.630 0.00 0.00 33.30 2.94
1977 2011 8.850452 CGTAGCAGAAATTCAAAATTTTCCTAC 58.150 33.333 0.00 13.60 33.30 3.18
1978 2012 7.873739 AGCAGAAATTCAAAATTTTCCTACG 57.126 32.000 0.00 0.00 33.30 3.51
1979 2013 7.433680 AGCAGAAATTCAAAATTTTCCTACGT 58.566 30.769 0.00 0.00 33.30 3.57
1980 2014 7.382218 AGCAGAAATTCAAAATTTTCCTACGTG 59.618 33.333 0.00 0.00 33.30 4.49
1981 2015 7.169140 GCAGAAATTCAAAATTTTCCTACGTGT 59.831 33.333 0.00 0.00 33.30 4.49
1982 2016 8.690840 CAGAAATTCAAAATTTTCCTACGTGTC 58.309 33.333 0.00 0.00 33.30 3.67
1983 2017 8.410141 AGAAATTCAAAATTTTCCTACGTGTCA 58.590 29.630 0.00 0.00 33.30 3.58
1984 2018 7.924103 AATTCAAAATTTTCCTACGTGTCAC 57.076 32.000 0.00 0.00 0.00 3.67
1985 2019 5.427036 TCAAAATTTTCCTACGTGTCACC 57.573 39.130 0.00 0.00 0.00 4.02
1986 2020 4.882427 TCAAAATTTTCCTACGTGTCACCA 59.118 37.500 0.00 0.00 0.00 4.17
1987 2021 5.357314 TCAAAATTTTCCTACGTGTCACCAA 59.643 36.000 0.00 0.00 0.00 3.67
1988 2022 5.432885 AAATTTTCCTACGTGTCACCAAG 57.567 39.130 0.00 0.00 0.00 3.61
1989 2023 3.823281 TTTTCCTACGTGTCACCAAGA 57.177 42.857 0.00 0.00 0.00 3.02
1990 2024 4.345859 TTTTCCTACGTGTCACCAAGAT 57.654 40.909 0.00 0.00 0.00 2.40
1991 2025 3.587797 TTCCTACGTGTCACCAAGATC 57.412 47.619 0.00 0.00 0.00 2.75
1992 2026 2.803956 TCCTACGTGTCACCAAGATCT 58.196 47.619 0.00 0.00 0.00 2.75
1993 2027 3.959293 TCCTACGTGTCACCAAGATCTA 58.041 45.455 0.00 0.00 0.00 1.98
1994 2028 4.533815 TCCTACGTGTCACCAAGATCTAT 58.466 43.478 0.00 0.00 0.00 1.98
1995 2029 4.579340 TCCTACGTGTCACCAAGATCTATC 59.421 45.833 0.00 0.00 0.00 2.08
1996 2030 4.580995 CCTACGTGTCACCAAGATCTATCT 59.419 45.833 0.00 0.00 39.22 1.98
1997 2031 5.763698 CCTACGTGTCACCAAGATCTATCTA 59.236 44.000 0.00 0.00 35.76 1.98
1998 2032 6.431543 CCTACGTGTCACCAAGATCTATCTAT 59.568 42.308 0.00 0.00 35.76 1.98
1999 2033 6.078202 ACGTGTCACCAAGATCTATCTATG 57.922 41.667 0.00 0.00 35.76 2.23
2000 2034 5.010112 ACGTGTCACCAAGATCTATCTATGG 59.990 44.000 8.57 8.57 39.18 2.74
2001 2035 5.241728 CGTGTCACCAAGATCTATCTATGGA 59.758 44.000 15.80 0.00 37.92 3.41
2002 2036 6.569418 CGTGTCACCAAGATCTATCTATGGAG 60.569 46.154 15.80 8.98 37.92 3.86
2003 2037 6.491745 GTGTCACCAAGATCTATCTATGGAGA 59.508 42.308 15.80 10.97 37.92 3.71
2004 2038 7.014711 GTGTCACCAAGATCTATCTATGGAGAA 59.985 40.741 15.80 3.96 36.96 2.87
2005 2039 7.565029 TGTCACCAAGATCTATCTATGGAGAAA 59.435 37.037 15.80 6.93 36.96 2.52
2006 2040 7.870445 GTCACCAAGATCTATCTATGGAGAAAC 59.130 40.741 15.80 5.75 36.96 2.78
2007 2041 7.015682 TCACCAAGATCTATCTATGGAGAAACC 59.984 40.741 15.80 0.00 37.92 3.27
2008 2042 6.846505 ACCAAGATCTATCTATGGAGAAACCA 59.153 38.462 15.80 0.00 44.28 3.67
2009 2043 7.016072 ACCAAGATCTATCTATGGAGAAACCAG 59.984 40.741 15.80 0.00 43.76 4.00
2010 2044 6.873076 CAAGATCTATCTATGGAGAAACCAGC 59.127 42.308 0.00 0.00 43.76 4.85
2011 2045 6.556495 AAGATCTATCTATGGAGAAACCAGCA 59.444 38.462 0.00 0.00 43.76 4.41
2012 2046 7.071698 AAGATCTATCTATGGAGAAACCAGCAA 59.928 37.037 0.00 0.00 43.76 3.91
2016 2050 3.305709 TGGAGAAACCAGCAACGAG 57.694 52.632 0.00 0.00 44.64 4.18
2017 2051 0.250295 TGGAGAAACCAGCAACGAGG 60.250 55.000 0.00 0.00 44.64 4.63
2018 2052 0.955919 GGAGAAACCAGCAACGAGGG 60.956 60.000 0.00 0.00 38.79 4.30
2019 2053 0.955919 GAGAAACCAGCAACGAGGGG 60.956 60.000 0.00 0.00 0.00 4.79
2020 2054 1.072505 GAAACCAGCAACGAGGGGA 59.927 57.895 0.00 0.00 0.00 4.81
2021 2055 0.536460 GAAACCAGCAACGAGGGGAA 60.536 55.000 0.00 0.00 0.00 3.97
2022 2056 0.537371 AAACCAGCAACGAGGGGAAG 60.537 55.000 0.00 0.00 0.00 3.46
2023 2057 2.045926 CCAGCAACGAGGGGAAGG 60.046 66.667 0.00 0.00 0.00 3.46
2024 2058 2.592993 CCAGCAACGAGGGGAAGGA 61.593 63.158 0.00 0.00 0.00 3.36
2025 2059 1.078848 CAGCAACGAGGGGAAGGAG 60.079 63.158 0.00 0.00 0.00 3.69
2026 2060 1.229209 AGCAACGAGGGGAAGGAGA 60.229 57.895 0.00 0.00 0.00 3.71
2027 2061 1.219393 GCAACGAGGGGAAGGAGAG 59.781 63.158 0.00 0.00 0.00 3.20
2028 2062 1.545706 GCAACGAGGGGAAGGAGAGT 61.546 60.000 0.00 0.00 0.00 3.24
2029 2063 0.247736 CAACGAGGGGAAGGAGAGTG 59.752 60.000 0.00 0.00 0.00 3.51
2030 2064 1.545706 AACGAGGGGAAGGAGAGTGC 61.546 60.000 0.00 0.00 0.00 4.40
2031 2065 1.984570 CGAGGGGAAGGAGAGTGCA 60.985 63.158 0.00 0.00 0.00 4.57
2032 2066 1.333636 CGAGGGGAAGGAGAGTGCAT 61.334 60.000 0.00 0.00 0.00 3.96
2033 2067 0.467804 GAGGGGAAGGAGAGTGCATC 59.532 60.000 0.00 0.00 0.00 3.91
2034 2068 0.043940 AGGGGAAGGAGAGTGCATCT 59.956 55.000 0.00 0.00 42.61 2.90
2035 2069 1.292242 AGGGGAAGGAGAGTGCATCTA 59.708 52.381 0.00 0.00 38.84 1.98
2036 2070 1.414550 GGGGAAGGAGAGTGCATCTAC 59.585 57.143 0.00 0.00 38.84 2.59
2037 2071 2.111384 GGGAAGGAGAGTGCATCTACA 58.889 52.381 9.98 0.00 42.01 2.74
2038 2072 2.703007 GGGAAGGAGAGTGCATCTACAT 59.297 50.000 9.98 0.00 42.01 2.29
2039 2073 3.898123 GGGAAGGAGAGTGCATCTACATA 59.102 47.826 9.98 0.00 42.01 2.29
2040 2074 4.262249 GGGAAGGAGAGTGCATCTACATAC 60.262 50.000 9.98 0.82 42.01 2.39
2041 2075 4.262249 GGAAGGAGAGTGCATCTACATACC 60.262 50.000 9.98 6.83 42.01 2.73
2042 2076 3.235200 AGGAGAGTGCATCTACATACCC 58.765 50.000 9.98 2.71 42.01 3.69
2043 2077 3.116939 AGGAGAGTGCATCTACATACCCT 60.117 47.826 9.98 4.47 42.01 4.34
2044 2078 3.643792 GGAGAGTGCATCTACATACCCTT 59.356 47.826 0.00 0.00 38.94 3.95
2045 2079 4.502259 GGAGAGTGCATCTACATACCCTTG 60.502 50.000 0.00 0.00 38.94 3.61
2046 2080 4.033709 AGAGTGCATCTACATACCCTTGT 58.966 43.478 0.00 0.00 36.10 3.16
2047 2081 5.208890 AGAGTGCATCTACATACCCTTGTA 58.791 41.667 0.00 0.00 36.10 2.41
2048 2082 5.303078 AGAGTGCATCTACATACCCTTGTAG 59.697 44.000 5.47 5.47 46.85 2.74
2057 2091 5.455056 ACATACCCTTGTAGATCGCTAAG 57.545 43.478 0.00 0.00 0.00 2.18
2058 2092 2.892784 ACCCTTGTAGATCGCTAAGC 57.107 50.000 0.00 0.00 0.00 3.09
2084 2118 1.670791 GTTCAAGTGAACGGGGTTGA 58.329 50.000 8.34 0.00 43.97 3.18
2085 2119 2.227194 GTTCAAGTGAACGGGGTTGAT 58.773 47.619 8.34 0.00 43.97 2.57
2086 2120 1.890876 TCAAGTGAACGGGGTTGATG 58.109 50.000 0.00 0.00 0.00 3.07
2087 2121 0.881118 CAAGTGAACGGGGTTGATGG 59.119 55.000 0.00 0.00 0.00 3.51
2088 2122 0.768622 AAGTGAACGGGGTTGATGGA 59.231 50.000 0.00 0.00 0.00 3.41
2089 2123 0.324943 AGTGAACGGGGTTGATGGAG 59.675 55.000 0.00 0.00 0.00 3.86
2090 2124 0.036306 GTGAACGGGGTTGATGGAGT 59.964 55.000 0.00 0.00 0.00 3.85
2091 2125 0.323629 TGAACGGGGTTGATGGAGTC 59.676 55.000 0.00 0.00 0.00 3.36
2092 2126 0.739813 GAACGGGGTTGATGGAGTCG 60.740 60.000 0.00 0.00 0.00 4.18
2093 2127 1.477685 AACGGGGTTGATGGAGTCGT 61.478 55.000 0.00 0.00 0.00 4.34
2094 2128 0.612732 ACGGGGTTGATGGAGTCGTA 60.613 55.000 0.00 0.00 0.00 3.43
2095 2129 0.179119 CGGGGTTGATGGAGTCGTAC 60.179 60.000 0.00 0.00 0.00 3.67
2096 2130 1.192428 GGGGTTGATGGAGTCGTACT 58.808 55.000 0.00 0.00 0.00 2.73
2097 2131 1.136500 GGGGTTGATGGAGTCGTACTC 59.864 57.143 6.50 6.50 44.32 2.59
2098 2132 1.202268 GGGTTGATGGAGTCGTACTCG 60.202 57.143 8.33 0.00 45.96 4.18
2099 2133 1.471684 GGTTGATGGAGTCGTACTCGT 59.528 52.381 8.33 1.85 45.96 4.18
2100 2134 2.477525 GGTTGATGGAGTCGTACTCGTC 60.478 54.545 8.33 9.13 45.96 4.20
2101 2135 1.004595 TGATGGAGTCGTACTCGTCG 58.995 55.000 8.33 0.00 45.96 5.12
2102 2136 1.005340 GATGGAGTCGTACTCGTCGT 58.995 55.000 8.33 0.00 45.96 4.34
2103 2137 0.725686 ATGGAGTCGTACTCGTCGTG 59.274 55.000 8.33 0.00 45.96 4.35
2104 2138 0.319813 TGGAGTCGTACTCGTCGTGA 60.320 55.000 0.56 0.00 45.96 4.35
2105 2139 1.005340 GGAGTCGTACTCGTCGTGAT 58.995 55.000 0.56 0.00 45.96 3.06
2106 2140 1.396301 GGAGTCGTACTCGTCGTGATT 59.604 52.381 0.56 0.00 45.96 2.57
2107 2141 2.536529 GGAGTCGTACTCGTCGTGATTC 60.537 54.545 0.56 0.00 45.96 2.52
2108 2142 2.071540 AGTCGTACTCGTCGTGATTCA 58.928 47.619 0.56 0.00 38.33 2.57
2109 2143 2.481568 AGTCGTACTCGTCGTGATTCAA 59.518 45.455 0.56 0.00 38.33 2.69
2110 2144 3.058708 AGTCGTACTCGTCGTGATTCAAA 60.059 43.478 0.56 0.00 38.33 2.69
2111 2145 3.850273 GTCGTACTCGTCGTGATTCAAAT 59.150 43.478 0.56 0.00 38.33 2.32
2112 2146 4.028670 GTCGTACTCGTCGTGATTCAAATC 60.029 45.833 0.56 0.00 38.33 2.17
2113 2147 3.849708 CGTACTCGTCGTGATTCAAATCA 59.150 43.478 0.56 1.30 42.78 2.57
2114 2148 6.395729 TCGTACTCGTCGTGATTCAAATCAC 61.396 44.000 20.83 20.83 46.62 3.06
2123 2157 3.949132 TGATTCAAATCACCGATGACCA 58.051 40.909 1.30 0.00 40.32 4.02
2124 2158 4.331108 TGATTCAAATCACCGATGACCAA 58.669 39.130 1.30 0.00 40.32 3.67
2125 2159 4.395854 TGATTCAAATCACCGATGACCAAG 59.604 41.667 1.30 0.00 40.32 3.61
2126 2160 3.417069 TCAAATCACCGATGACCAAGT 57.583 42.857 0.00 0.00 37.79 3.16
2127 2161 3.073678 TCAAATCACCGATGACCAAGTG 58.926 45.455 0.00 0.00 37.79 3.16
2128 2162 1.453155 AATCACCGATGACCAAGTGC 58.547 50.000 0.00 0.00 37.79 4.40
2129 2163 0.392998 ATCACCGATGACCAAGTGCC 60.393 55.000 0.00 0.00 37.79 5.01
2130 2164 2.047274 ACCGATGACCAAGTGCCG 60.047 61.111 0.00 0.00 0.00 5.69
2131 2165 2.264480 CCGATGACCAAGTGCCGA 59.736 61.111 0.00 0.00 0.00 5.54
2132 2166 1.375396 CCGATGACCAAGTGCCGAA 60.375 57.895 0.00 0.00 0.00 4.30
2133 2167 1.635663 CCGATGACCAAGTGCCGAAC 61.636 60.000 0.00 0.00 0.00 3.95
2134 2168 1.787847 GATGACCAAGTGCCGAACG 59.212 57.895 0.00 0.00 0.00 3.95
2135 2169 1.635663 GATGACCAAGTGCCGAACGG 61.636 60.000 9.00 9.00 38.57 4.44
2136 2170 2.029964 GACCAAGTGCCGAACGGA 59.970 61.111 17.63 0.00 37.50 4.69
2137 2171 2.280592 ACCAAGTGCCGAACGGAC 60.281 61.111 17.63 11.59 37.50 4.79
2138 2172 2.280524 CCAAGTGCCGAACGGACA 60.281 61.111 17.63 11.22 37.50 4.02
2139 2173 2.317609 CCAAGTGCCGAACGGACAG 61.318 63.158 17.63 8.66 37.50 3.51
2140 2174 2.665185 AAGTGCCGAACGGACAGC 60.665 61.111 17.63 1.97 37.50 4.40
2141 2175 3.454587 AAGTGCCGAACGGACAGCA 62.455 57.895 17.63 4.68 37.50 4.41
2143 2177 4.980805 TGCCGAACGGACAGCACC 62.981 66.667 17.63 0.00 37.50 5.01
2144 2178 4.681978 GCCGAACGGACAGCACCT 62.682 66.667 17.63 0.00 37.50 4.00
2145 2179 2.432628 CCGAACGGACAGCACCTC 60.433 66.667 7.53 0.00 37.50 3.85
2146 2180 2.432628 CGAACGGACAGCACCTCC 60.433 66.667 0.00 0.00 0.00 4.30
2151 2185 4.681978 GGACAGCACCTCCGCGTT 62.682 66.667 4.92 0.00 36.85 4.84
2152 2186 3.112709 GACAGCACCTCCGCGTTC 61.113 66.667 4.92 0.00 36.85 3.95
2153 2187 3.858868 GACAGCACCTCCGCGTTCA 62.859 63.158 4.92 0.00 36.85 3.18
2154 2188 2.664851 CAGCACCTCCGCGTTCAA 60.665 61.111 4.92 0.00 36.85 2.69
2155 2189 2.665185 AGCACCTCCGCGTTCAAC 60.665 61.111 4.92 0.00 36.85 3.18
2156 2190 2.970324 GCACCTCCGCGTTCAACA 60.970 61.111 4.92 0.00 0.00 3.33
2157 2191 2.935955 CACCTCCGCGTTCAACAC 59.064 61.111 4.92 0.00 0.00 3.32
2158 2192 1.885388 CACCTCCGCGTTCAACACA 60.885 57.895 4.92 0.00 0.00 3.72
2159 2193 1.885850 ACCTCCGCGTTCAACACAC 60.886 57.895 4.92 0.00 0.00 3.82
2160 2194 2.544359 CTCCGCGTTCAACACACG 59.456 61.111 4.92 0.00 40.75 4.49
2161 2195 2.202770 TCCGCGTTCAACACACGT 60.203 55.556 4.92 0.00 39.92 4.49
2162 2196 0.935831 CTCCGCGTTCAACACACGTA 60.936 55.000 4.92 0.00 39.92 3.57
2163 2197 1.199859 CCGCGTTCAACACACGTAC 59.800 57.895 4.92 0.00 39.92 3.67
2164 2198 1.481019 CCGCGTTCAACACACGTACA 61.481 55.000 4.92 0.00 39.92 2.90
2165 2199 0.111878 CGCGTTCAACACACGTACAG 60.112 55.000 0.00 0.00 39.92 2.74
2166 2200 0.382636 GCGTTCAACACACGTACAGC 60.383 55.000 0.00 0.00 39.92 4.40
2167 2201 0.231279 CGTTCAACACACGTACAGCC 59.769 55.000 0.00 0.00 32.80 4.85
2168 2202 0.584876 GTTCAACACACGTACAGCCC 59.415 55.000 0.00 0.00 0.00 5.19
2169 2203 0.876777 TTCAACACACGTACAGCCCG 60.877 55.000 0.00 0.00 0.00 6.13
2170 2204 2.029964 AACACACGTACAGCCCGG 59.970 61.111 0.00 0.00 0.00 5.73
2171 2205 2.799452 AACACACGTACAGCCCGGT 61.799 57.895 0.00 0.00 0.00 5.28
2172 2206 2.736995 CACACGTACAGCCCGGTG 60.737 66.667 0.00 0.00 0.00 4.94
2173 2207 2.913578 ACACGTACAGCCCGGTGA 60.914 61.111 0.00 0.00 0.00 4.02
2174 2208 2.431942 CACGTACAGCCCGGTGAC 60.432 66.667 0.00 0.00 0.00 3.67
2191 2225 2.501128 CGTCTCCCACGCCATGAT 59.499 61.111 0.00 0.00 42.87 2.45
2192 2226 1.592669 CGTCTCCCACGCCATGATC 60.593 63.158 0.00 0.00 42.87 2.92
2193 2227 1.227674 GTCTCCCACGCCATGATCC 60.228 63.158 0.00 0.00 0.00 3.36
2194 2228 1.688884 TCTCCCACGCCATGATCCA 60.689 57.895 0.00 0.00 0.00 3.41
2195 2229 1.227764 CTCCCACGCCATGATCCAG 60.228 63.158 0.00 0.00 0.00 3.86
2196 2230 2.903855 CCCACGCCATGATCCAGC 60.904 66.667 0.00 0.00 0.00 4.85
2197 2231 2.124612 CCACGCCATGATCCAGCA 60.125 61.111 0.00 0.00 0.00 4.41
2198 2232 1.750018 CCACGCCATGATCCAGCAA 60.750 57.895 0.00 0.00 0.00 3.91
2199 2233 1.721664 CCACGCCATGATCCAGCAAG 61.722 60.000 0.00 0.00 0.00 4.01
2200 2234 1.452651 ACGCCATGATCCAGCAAGG 60.453 57.895 0.00 0.00 39.47 3.61
2208 2242 4.468829 TCCAGCAAGGAGAGAGGG 57.531 61.111 0.00 0.00 43.07 4.30
2209 2243 1.783708 TCCAGCAAGGAGAGAGGGA 59.216 57.895 0.00 0.00 43.07 4.20
2210 2244 0.325110 TCCAGCAAGGAGAGAGGGAG 60.325 60.000 0.00 0.00 43.07 4.30
2211 2245 0.325110 CCAGCAAGGAGAGAGGGAGA 60.325 60.000 0.00 0.00 41.22 3.71
2212 2246 1.113788 CAGCAAGGAGAGAGGGAGAG 58.886 60.000 0.00 0.00 0.00 3.20
2213 2247 0.032217 AGCAAGGAGAGAGGGAGAGG 60.032 60.000 0.00 0.00 0.00 3.69
2214 2248 0.325203 GCAAGGAGAGAGGGAGAGGT 60.325 60.000 0.00 0.00 0.00 3.85
2215 2249 1.899438 GCAAGGAGAGAGGGAGAGGTT 60.899 57.143 0.00 0.00 0.00 3.50
2216 2250 1.830477 CAAGGAGAGAGGGAGAGGTTG 59.170 57.143 0.00 0.00 0.00 3.77
2217 2251 1.388174 AGGAGAGAGGGAGAGGTTGA 58.612 55.000 0.00 0.00 0.00 3.18
2218 2252 1.287739 AGGAGAGAGGGAGAGGTTGAG 59.712 57.143 0.00 0.00 0.00 3.02
2219 2253 1.687996 GGAGAGAGGGAGAGGTTGAGG 60.688 61.905 0.00 0.00 0.00 3.86
2220 2254 1.286553 GAGAGAGGGAGAGGTTGAGGA 59.713 57.143 0.00 0.00 0.00 3.71
2221 2255 1.719378 AGAGAGGGAGAGGTTGAGGAA 59.281 52.381 0.00 0.00 0.00 3.36
2222 2256 2.107366 GAGAGGGAGAGGTTGAGGAAG 58.893 57.143 0.00 0.00 0.00 3.46
2223 2257 1.719378 AGAGGGAGAGGTTGAGGAAGA 59.281 52.381 0.00 0.00 0.00 2.87
2224 2258 1.828595 GAGGGAGAGGTTGAGGAAGAC 59.171 57.143 0.00 0.00 0.00 3.01
2225 2259 1.435168 AGGGAGAGGTTGAGGAAGACT 59.565 52.381 0.00 0.00 0.00 3.24
2226 2260 1.828595 GGGAGAGGTTGAGGAAGACTC 59.171 57.143 0.00 0.00 46.78 3.36
2227 2261 1.828595 GGAGAGGTTGAGGAAGACTCC 59.171 57.143 0.00 0.00 46.01 3.85
2228 2262 2.530701 GAGAGGTTGAGGAAGACTCCA 58.469 52.381 0.00 0.00 46.01 3.86
2229 2263 3.103742 GAGAGGTTGAGGAAGACTCCAT 58.896 50.000 0.00 0.00 46.01 3.41
2230 2264 3.103742 AGAGGTTGAGGAAGACTCCATC 58.896 50.000 0.00 0.00 46.01 3.51
2231 2265 2.169561 GAGGTTGAGGAAGACTCCATCC 59.830 54.545 0.00 0.00 46.01 3.51
2232 2266 1.909302 GGTTGAGGAAGACTCCATCCA 59.091 52.381 0.00 0.00 46.01 3.41
2233 2267 2.093235 GGTTGAGGAAGACTCCATCCAG 60.093 54.545 0.00 0.00 46.01 3.86
2234 2268 1.198713 TGAGGAAGACTCCATCCAGC 58.801 55.000 0.00 0.00 46.01 4.85
2235 2269 1.198713 GAGGAAGACTCCATCCAGCA 58.801 55.000 0.00 0.00 45.24 4.41
2236 2270 1.138661 GAGGAAGACTCCATCCAGCAG 59.861 57.143 0.00 0.00 45.24 4.24
2237 2271 0.463474 GGAAGACTCCATCCAGCAGC 60.463 60.000 0.00 0.00 41.96 5.25
2238 2272 0.251354 GAAGACTCCATCCAGCAGCA 59.749 55.000 0.00 0.00 0.00 4.41
2239 2273 0.252479 AAGACTCCATCCAGCAGCAG 59.748 55.000 0.00 0.00 0.00 4.24
2240 2274 1.818785 GACTCCATCCAGCAGCAGC 60.819 63.158 0.00 0.00 42.56 5.25
2241 2275 2.271173 CTCCATCCAGCAGCAGCA 59.729 61.111 3.17 0.00 45.49 4.41
2242 2276 2.045634 TCCATCCAGCAGCAGCAC 60.046 61.111 3.17 0.00 45.49 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
181 182 4.822026 AGGAACCGAATCAGACTGTTTAG 58.178 43.478 1.59 1.08 0.00 1.85
183 184 3.771577 AGGAACCGAATCAGACTGTTT 57.228 42.857 1.59 0.00 0.00 2.83
424 428 2.897846 CCCCAACGACACGCAACA 60.898 61.111 0.00 0.00 0.00 3.33
466 470 4.627611 TCTAGGGATTCGACTTTACGTG 57.372 45.455 0.00 0.00 34.70 4.49
687 697 3.252215 CACGGGCAACTTTGATTTGTCTA 59.748 43.478 0.00 0.00 0.00 2.59
857 867 0.391130 CTTTGTAGCAGGCACCGCTA 60.391 55.000 8.51 8.51 40.96 4.26
939 949 1.290324 CACAGACTGGGACGACTGG 59.710 63.158 7.51 0.00 35.08 4.00
989 999 8.612619 AGTTAAAGCAAATCATGTCCTTATACG 58.387 33.333 0.00 0.00 0.00 3.06
1174 1184 3.256383 TCATTTGCAACAGGGACATCAAG 59.744 43.478 0.00 0.00 0.00 3.02
1311 1322 5.574188 AGATAAACCTCTGATTTGCCAAGT 58.426 37.500 0.00 0.00 0.00 3.16
1924 1958 7.304479 TCCCCAACAATATTATCATTCATGGT 58.696 34.615 0.00 0.00 0.00 3.55
1943 1977 2.871096 ATTTCTGCTACGTTCCCCAA 57.129 45.000 0.00 0.00 0.00 4.12
1944 1978 2.039216 TGAATTTCTGCTACGTTCCCCA 59.961 45.455 0.00 0.00 0.00 4.96
1945 1979 2.706890 TGAATTTCTGCTACGTTCCCC 58.293 47.619 0.00 0.00 0.00 4.81
1946 1980 4.759516 TTTGAATTTCTGCTACGTTCCC 57.240 40.909 0.00 0.00 0.00 3.97
1947 1981 7.637709 AAATTTTGAATTTCTGCTACGTTCC 57.362 32.000 0.00 0.00 0.00 3.62
1948 1982 8.214472 GGAAAATTTTGAATTTCTGCTACGTTC 58.786 33.333 8.47 0.00 36.15 3.95
1949 1983 7.926018 AGGAAAATTTTGAATTTCTGCTACGTT 59.074 29.630 8.47 0.00 36.15 3.99
1950 1984 7.433680 AGGAAAATTTTGAATTTCTGCTACGT 58.566 30.769 8.47 0.00 36.15 3.57
1951 1985 7.873739 AGGAAAATTTTGAATTTCTGCTACG 57.126 32.000 8.47 0.00 36.15 3.51
1952 1986 8.850452 CGTAGGAAAATTTTGAATTTCTGCTAC 58.150 33.333 8.47 6.07 36.15 3.58
1953 1987 8.573035 ACGTAGGAAAATTTTGAATTTCTGCTA 58.427 29.630 8.47 0.00 36.15 3.49
1954 1988 7.382218 CACGTAGGAAAATTTTGAATTTCTGCT 59.618 33.333 8.47 0.00 36.15 4.24
1955 1989 7.169140 ACACGTAGGAAAATTTTGAATTTCTGC 59.831 33.333 8.47 0.00 36.15 4.26
1956 1990 8.574196 ACACGTAGGAAAATTTTGAATTTCTG 57.426 30.769 8.47 0.00 36.15 3.02
1957 1991 8.410141 TGACACGTAGGAAAATTTTGAATTTCT 58.590 29.630 8.47 0.00 36.15 2.52
1958 1992 8.476925 GTGACACGTAGGAAAATTTTGAATTTC 58.523 33.333 8.47 0.00 35.33 2.17
1959 1993 7.436970 GGTGACACGTAGGAAAATTTTGAATTT 59.563 33.333 8.47 0.00 0.00 1.82
1960 1994 6.921307 GGTGACACGTAGGAAAATTTTGAATT 59.079 34.615 8.47 0.00 0.00 2.17
1961 1995 6.039941 TGGTGACACGTAGGAAAATTTTGAAT 59.960 34.615 8.47 0.00 33.40 2.57
1962 1996 5.357314 TGGTGACACGTAGGAAAATTTTGAA 59.643 36.000 8.47 0.00 33.40 2.69
1963 1997 4.882427 TGGTGACACGTAGGAAAATTTTGA 59.118 37.500 8.47 0.00 33.40 2.69
1964 1998 5.176407 TGGTGACACGTAGGAAAATTTTG 57.824 39.130 8.47 0.00 33.40 2.44
1965 1999 5.591067 TCTTGGTGACACGTAGGAAAATTTT 59.409 36.000 2.28 2.28 42.67 1.82
1966 2000 5.127491 TCTTGGTGACACGTAGGAAAATTT 58.873 37.500 0.00 0.00 42.67 1.82
1967 2001 4.710324 TCTTGGTGACACGTAGGAAAATT 58.290 39.130 0.00 0.00 42.67 1.82
1968 2002 4.345859 TCTTGGTGACACGTAGGAAAAT 57.654 40.909 0.00 0.00 42.67 1.82
1969 2003 3.823281 TCTTGGTGACACGTAGGAAAA 57.177 42.857 0.00 0.00 42.67 2.29
1970 2004 3.576982 AGATCTTGGTGACACGTAGGAAA 59.423 43.478 0.00 0.00 42.67 3.13
1971 2005 3.162666 AGATCTTGGTGACACGTAGGAA 58.837 45.455 0.00 0.00 42.67 3.36
1972 2006 2.803956 AGATCTTGGTGACACGTAGGA 58.196 47.619 0.00 0.00 42.67 2.94
1973 2007 4.580995 AGATAGATCTTGGTGACACGTAGG 59.419 45.833 0.00 0.00 42.67 3.18
1974 2008 5.759506 AGATAGATCTTGGTGACACGTAG 57.240 43.478 0.00 0.00 42.67 3.51
1975 2009 6.206829 CCATAGATAGATCTTGGTGACACGTA 59.793 42.308 0.00 0.00 42.67 3.57
1976 2010 5.010112 CCATAGATAGATCTTGGTGACACGT 59.990 44.000 0.00 0.00 42.67 4.49
1977 2011 5.241728 TCCATAGATAGATCTTGGTGACACG 59.758 44.000 0.00 0.00 42.67 4.49
1978 2012 6.491745 TCTCCATAGATAGATCTTGGTGACAC 59.508 42.308 0.00 0.00 42.67 3.67
1979 2013 6.614657 TCTCCATAGATAGATCTTGGTGACA 58.385 40.000 0.00 0.00 38.32 3.58
1980 2014 7.531857 TTCTCCATAGATAGATCTTGGTGAC 57.468 40.000 12.54 0.00 37.34 3.67
1981 2015 7.015682 GGTTTCTCCATAGATAGATCTTGGTGA 59.984 40.741 0.00 5.80 36.71 4.02
1982 2016 7.158021 GGTTTCTCCATAGATAGATCTTGGTG 58.842 42.308 0.00 3.27 36.89 4.17
1983 2017 6.846505 TGGTTTCTCCATAGATAGATCTTGGT 59.153 38.462 0.00 0.00 41.93 3.67
1984 2018 7.308450 TGGTTTCTCCATAGATAGATCTTGG 57.692 40.000 0.00 1.69 41.93 3.61
1985 2019 6.873076 GCTGGTTTCTCCATAGATAGATCTTG 59.127 42.308 0.00 0.00 46.12 3.02
1986 2020 6.556495 TGCTGGTTTCTCCATAGATAGATCTT 59.444 38.462 0.00 0.00 46.12 2.40
1987 2021 6.080682 TGCTGGTTTCTCCATAGATAGATCT 58.919 40.000 0.00 0.00 46.12 2.75
1988 2022 6.352016 TGCTGGTTTCTCCATAGATAGATC 57.648 41.667 0.00 0.00 46.12 2.75
1989 2023 6.529220 GTTGCTGGTTTCTCCATAGATAGAT 58.471 40.000 0.00 0.00 46.12 1.98
1990 2024 5.451937 CGTTGCTGGTTTCTCCATAGATAGA 60.452 44.000 0.00 0.00 46.12 1.98
1991 2025 4.747108 CGTTGCTGGTTTCTCCATAGATAG 59.253 45.833 0.00 0.00 46.12 2.08
1992 2026 4.404394 TCGTTGCTGGTTTCTCCATAGATA 59.596 41.667 0.00 0.00 46.12 1.98
1993 2027 3.197766 TCGTTGCTGGTTTCTCCATAGAT 59.802 43.478 0.00 0.00 46.12 1.98
1994 2028 2.565391 TCGTTGCTGGTTTCTCCATAGA 59.435 45.455 0.00 0.00 46.12 1.98
1995 2029 2.932614 CTCGTTGCTGGTTTCTCCATAG 59.067 50.000 0.00 0.00 46.12 2.23
1996 2030 2.354704 CCTCGTTGCTGGTTTCTCCATA 60.355 50.000 0.00 0.00 46.12 2.74
1997 2031 1.611673 CCTCGTTGCTGGTTTCTCCAT 60.612 52.381 0.00 0.00 46.12 3.41
1998 2032 0.250295 CCTCGTTGCTGGTTTCTCCA 60.250 55.000 0.00 0.00 45.01 3.86
1999 2033 0.955919 CCCTCGTTGCTGGTTTCTCC 60.956 60.000 0.00 0.00 0.00 3.71
2000 2034 0.955919 CCCCTCGTTGCTGGTTTCTC 60.956 60.000 0.00 0.00 0.00 2.87
2001 2035 1.073199 CCCCTCGTTGCTGGTTTCT 59.927 57.895 0.00 0.00 0.00 2.52
2002 2036 0.536460 TTCCCCTCGTTGCTGGTTTC 60.536 55.000 0.00 0.00 0.00 2.78
2003 2037 0.537371 CTTCCCCTCGTTGCTGGTTT 60.537 55.000 0.00 0.00 0.00 3.27
2004 2038 1.073199 CTTCCCCTCGTTGCTGGTT 59.927 57.895 0.00 0.00 0.00 3.67
2005 2039 2.750350 CTTCCCCTCGTTGCTGGT 59.250 61.111 0.00 0.00 0.00 4.00
2006 2040 2.045926 CCTTCCCCTCGTTGCTGG 60.046 66.667 0.00 0.00 0.00 4.85
2007 2041 1.078848 CTCCTTCCCCTCGTTGCTG 60.079 63.158 0.00 0.00 0.00 4.41
2008 2042 1.229209 TCTCCTTCCCCTCGTTGCT 60.229 57.895 0.00 0.00 0.00 3.91
2009 2043 1.219393 CTCTCCTTCCCCTCGTTGC 59.781 63.158 0.00 0.00 0.00 4.17
2010 2044 0.247736 CACTCTCCTTCCCCTCGTTG 59.752 60.000 0.00 0.00 0.00 4.10
2011 2045 1.545706 GCACTCTCCTTCCCCTCGTT 61.546 60.000 0.00 0.00 0.00 3.85
2012 2046 1.985116 GCACTCTCCTTCCCCTCGT 60.985 63.158 0.00 0.00 0.00 4.18
2013 2047 1.333636 ATGCACTCTCCTTCCCCTCG 61.334 60.000 0.00 0.00 0.00 4.63
2014 2048 0.467804 GATGCACTCTCCTTCCCCTC 59.532 60.000 0.00 0.00 0.00 4.30
2015 2049 0.043940 AGATGCACTCTCCTTCCCCT 59.956 55.000 0.00 0.00 0.00 4.79
2016 2050 1.414550 GTAGATGCACTCTCCTTCCCC 59.585 57.143 0.00 0.00 35.28 4.81
2017 2051 2.111384 TGTAGATGCACTCTCCTTCCC 58.889 52.381 0.00 0.00 35.28 3.97
2018 2052 4.262249 GGTATGTAGATGCACTCTCCTTCC 60.262 50.000 0.00 0.00 35.28 3.46
2019 2053 4.262249 GGGTATGTAGATGCACTCTCCTTC 60.262 50.000 0.00 0.00 35.28 3.46
2020 2054 3.643792 GGGTATGTAGATGCACTCTCCTT 59.356 47.826 0.00 0.00 35.28 3.36
2021 2055 3.116939 AGGGTATGTAGATGCACTCTCCT 60.117 47.826 0.00 0.00 35.28 3.69
2022 2056 3.235200 AGGGTATGTAGATGCACTCTCC 58.765 50.000 0.00 0.00 35.28 3.71
2023 2057 4.100189 ACAAGGGTATGTAGATGCACTCTC 59.900 45.833 0.00 0.00 35.28 3.20
2024 2058 4.033709 ACAAGGGTATGTAGATGCACTCT 58.966 43.478 0.00 0.00 38.06 3.24
2025 2059 4.408182 ACAAGGGTATGTAGATGCACTC 57.592 45.455 0.00 0.00 25.83 3.51
2034 2068 5.048224 GCTTAGCGATCTACAAGGGTATGTA 60.048 44.000 0.00 0.00 34.75 2.29
2035 2069 4.262079 GCTTAGCGATCTACAAGGGTATGT 60.262 45.833 0.00 0.00 37.32 2.29
2036 2070 4.238514 GCTTAGCGATCTACAAGGGTATG 58.761 47.826 0.00 0.00 0.00 2.39
2037 2071 4.522722 GCTTAGCGATCTACAAGGGTAT 57.477 45.455 0.00 0.00 0.00 2.73
2039 2073 2.892784 GCTTAGCGATCTACAAGGGT 57.107 50.000 0.00 0.00 0.00 4.34
2052 2086 0.095417 CTTGAACGCTTCCGCTTAGC 59.905 55.000 0.00 0.00 38.22 3.09
2053 2087 1.126846 CACTTGAACGCTTCCGCTTAG 59.873 52.381 0.00 0.00 38.22 2.18
2054 2088 1.144969 CACTTGAACGCTTCCGCTTA 58.855 50.000 0.00 0.00 38.22 3.09
2055 2089 0.531974 TCACTTGAACGCTTCCGCTT 60.532 50.000 0.00 0.00 38.22 4.68
2056 2090 0.531974 TTCACTTGAACGCTTCCGCT 60.532 50.000 0.00 0.00 38.22 5.52
2057 2091 0.384353 GTTCACTTGAACGCTTCCGC 60.384 55.000 6.36 0.00 43.97 5.54
2058 2092 3.729004 GTTCACTTGAACGCTTCCG 57.271 52.632 6.36 0.00 43.97 4.30
2066 2100 2.226330 CATCAACCCCGTTCACTTGAA 58.774 47.619 0.00 0.00 0.00 2.69
2067 2101 1.544537 CCATCAACCCCGTTCACTTGA 60.545 52.381 0.00 0.00 0.00 3.02
2068 2102 0.881118 CCATCAACCCCGTTCACTTG 59.119 55.000 0.00 0.00 0.00 3.16
2069 2103 0.768622 TCCATCAACCCCGTTCACTT 59.231 50.000 0.00 0.00 0.00 3.16
2070 2104 0.324943 CTCCATCAACCCCGTTCACT 59.675 55.000 0.00 0.00 0.00 3.41
2071 2105 0.036306 ACTCCATCAACCCCGTTCAC 59.964 55.000 0.00 0.00 0.00 3.18
2072 2106 0.323629 GACTCCATCAACCCCGTTCA 59.676 55.000 0.00 0.00 0.00 3.18
2073 2107 0.739813 CGACTCCATCAACCCCGTTC 60.740 60.000 0.00 0.00 0.00 3.95
2074 2108 1.295423 CGACTCCATCAACCCCGTT 59.705 57.895 0.00 0.00 0.00 4.44
2075 2109 0.612732 TACGACTCCATCAACCCCGT 60.613 55.000 0.00 0.00 0.00 5.28
2076 2110 0.179119 GTACGACTCCATCAACCCCG 60.179 60.000 0.00 0.00 0.00 5.73
2077 2111 1.136500 GAGTACGACTCCATCAACCCC 59.864 57.143 0.00 0.00 39.28 4.95
2078 2112 1.202268 CGAGTACGACTCCATCAACCC 60.202 57.143 8.73 0.00 42.12 4.11
2079 2113 1.471684 ACGAGTACGACTCCATCAACC 59.528 52.381 8.73 0.00 42.12 3.77
2080 2114 2.783333 GACGAGTACGACTCCATCAAC 58.217 52.381 8.73 0.00 42.12 3.18
2081 2115 1.395954 CGACGAGTACGACTCCATCAA 59.604 52.381 8.73 0.00 42.12 2.57
2082 2116 1.004595 CGACGAGTACGACTCCATCA 58.995 55.000 8.73 0.00 42.12 3.07
2083 2117 1.005340 ACGACGAGTACGACTCCATC 58.995 55.000 0.00 6.63 42.12 3.51
2084 2118 0.725686 CACGACGAGTACGACTCCAT 59.274 55.000 0.00 0.00 42.12 3.41
2085 2119 0.319813 TCACGACGAGTACGACTCCA 60.320 55.000 0.00 0.00 42.12 3.86
2086 2120 1.005340 ATCACGACGAGTACGACTCC 58.995 55.000 0.00 0.00 42.12 3.85
2087 2121 2.093310 TGAATCACGACGAGTACGACTC 59.907 50.000 0.00 0.00 41.71 3.36
2088 2122 2.071540 TGAATCACGACGAGTACGACT 58.928 47.619 0.00 0.00 42.66 4.18
2089 2123 2.515641 TGAATCACGACGAGTACGAC 57.484 50.000 0.00 0.00 42.66 4.34
2090 2124 3.541071 TTTGAATCACGACGAGTACGA 57.459 42.857 0.00 0.00 42.66 3.43
2091 2125 3.849708 TGATTTGAATCACGACGAGTACG 59.150 43.478 0.00 0.00 40.32 3.67
2102 2136 3.949132 TGGTCATCGGTGATTTGAATCA 58.051 40.909 0.00 2.39 42.78 2.57
2103 2137 4.396166 ACTTGGTCATCGGTGATTTGAATC 59.604 41.667 0.00 0.00 36.60 2.52
2104 2138 4.156556 CACTTGGTCATCGGTGATTTGAAT 59.843 41.667 0.00 0.00 36.60 2.57
2105 2139 3.501828 CACTTGGTCATCGGTGATTTGAA 59.498 43.478 0.00 0.00 36.60 2.69
2106 2140 3.073678 CACTTGGTCATCGGTGATTTGA 58.926 45.455 0.00 0.00 36.60 2.69
2107 2141 2.414559 GCACTTGGTCATCGGTGATTTG 60.415 50.000 0.00 0.00 36.60 2.32
2108 2142 1.812571 GCACTTGGTCATCGGTGATTT 59.187 47.619 0.00 0.00 36.60 2.17
2109 2143 1.453155 GCACTTGGTCATCGGTGATT 58.547 50.000 0.00 0.00 36.60 2.57
2110 2144 0.392998 GGCACTTGGTCATCGGTGAT 60.393 55.000 0.00 0.00 36.60 3.06
2111 2145 1.003839 GGCACTTGGTCATCGGTGA 60.004 57.895 0.00 0.00 32.12 4.02
2112 2146 2.390599 CGGCACTTGGTCATCGGTG 61.391 63.158 0.00 0.00 0.00 4.94
2113 2147 2.047274 CGGCACTTGGTCATCGGT 60.047 61.111 0.00 0.00 0.00 4.69
2114 2148 1.375396 TTCGGCACTTGGTCATCGG 60.375 57.895 0.00 0.00 0.00 4.18
2115 2149 1.787847 GTTCGGCACTTGGTCATCG 59.212 57.895 0.00 0.00 0.00 3.84
2116 2150 1.635663 CCGTTCGGCACTTGGTCATC 61.636 60.000 0.00 0.00 0.00 2.92
2117 2151 1.671054 CCGTTCGGCACTTGGTCAT 60.671 57.895 0.00 0.00 0.00 3.06
2118 2152 2.280524 CCGTTCGGCACTTGGTCA 60.281 61.111 0.00 0.00 0.00 4.02
2119 2153 2.029964 TCCGTTCGGCACTTGGTC 59.970 61.111 6.35 0.00 0.00 4.02
2120 2154 2.280592 GTCCGTTCGGCACTTGGT 60.281 61.111 6.35 0.00 0.00 3.67
2121 2155 2.280524 TGTCCGTTCGGCACTTGG 60.281 61.111 6.35 0.00 0.00 3.61
2122 2156 2.954753 GCTGTCCGTTCGGCACTTG 61.955 63.158 6.35 5.23 39.28 3.16
2123 2157 2.665185 GCTGTCCGTTCGGCACTT 60.665 61.111 6.35 0.00 39.28 3.16
2124 2158 3.923864 TGCTGTCCGTTCGGCACT 61.924 61.111 6.35 0.00 43.56 4.40
2126 2160 4.980805 GGTGCTGTCCGTTCGGCA 62.981 66.667 6.35 6.51 45.77 5.69
2127 2161 4.681978 AGGTGCTGTCCGTTCGGC 62.682 66.667 6.35 2.90 39.84 5.54
2128 2162 2.432628 GAGGTGCTGTCCGTTCGG 60.433 66.667 4.74 4.74 0.00 4.30
2129 2163 2.432628 GGAGGTGCTGTCCGTTCG 60.433 66.667 0.00 0.00 0.00 3.95
2134 2168 4.681978 AACGCGGAGGTGCTGTCC 62.682 66.667 12.47 0.00 0.00 4.02
2135 2169 3.112709 GAACGCGGAGGTGCTGTC 61.113 66.667 12.47 0.00 0.00 3.51
2136 2170 3.454587 TTGAACGCGGAGGTGCTGT 62.455 57.895 12.47 0.00 0.00 4.40
2137 2171 2.664851 TTGAACGCGGAGGTGCTG 60.665 61.111 12.47 0.00 0.00 4.41
2138 2172 2.665185 GTTGAACGCGGAGGTGCT 60.665 61.111 12.47 0.00 0.00 4.40
2139 2173 2.970324 TGTTGAACGCGGAGGTGC 60.970 61.111 12.47 0.00 0.00 5.01
2140 2174 1.885388 TGTGTTGAACGCGGAGGTG 60.885 57.895 12.47 0.00 0.00 4.00
2141 2175 1.885850 GTGTGTTGAACGCGGAGGT 60.886 57.895 12.47 0.00 0.00 3.85
2142 2176 2.935955 GTGTGTTGAACGCGGAGG 59.064 61.111 12.47 0.00 0.00 4.30
2147 2181 0.382636 GCTGTACGTGTGTTGAACGC 60.383 55.000 1.20 1.20 44.80 4.84
2148 2182 0.231279 GGCTGTACGTGTGTTGAACG 59.769 55.000 0.00 0.00 46.32 3.95
2149 2183 0.584876 GGGCTGTACGTGTGTTGAAC 59.415 55.000 0.00 0.00 0.00 3.18
2150 2184 0.876777 CGGGCTGTACGTGTGTTGAA 60.877 55.000 0.00 0.00 0.00 2.69
2151 2185 1.300311 CGGGCTGTACGTGTGTTGA 60.300 57.895 0.00 0.00 0.00 3.18
2152 2186 2.314647 CCGGGCTGTACGTGTGTTG 61.315 63.158 0.00 0.00 0.00 3.33
2153 2187 2.029964 CCGGGCTGTACGTGTGTT 59.970 61.111 0.00 0.00 0.00 3.32
2154 2188 3.228759 ACCGGGCTGTACGTGTGT 61.229 61.111 6.32 0.00 0.00 3.72
2155 2189 2.736995 CACCGGGCTGTACGTGTG 60.737 66.667 6.32 0.00 0.00 3.82
2156 2190 2.913578 TCACCGGGCTGTACGTGT 60.914 61.111 6.32 0.00 0.00 4.49
2157 2191 2.431942 GTCACCGGGCTGTACGTG 60.432 66.667 6.32 0.00 0.00 4.49
2158 2192 4.047059 CGTCACCGGGCTGTACGT 62.047 66.667 6.32 0.00 0.00 3.57
2159 2193 3.958822 GACGTCACCGGGCTGTACG 62.959 68.421 11.55 10.46 38.78 3.67
2160 2194 2.126189 GACGTCACCGGGCTGTAC 60.126 66.667 11.55 0.00 38.78 2.90
2161 2195 2.282674 AGACGTCACCGGGCTGTA 60.283 61.111 19.50 0.00 38.78 2.74
2162 2196 3.681835 GAGACGTCACCGGGCTGT 61.682 66.667 19.50 0.00 38.78 4.40
2163 2197 4.436998 GGAGACGTCACCGGGCTG 62.437 72.222 19.50 0.00 38.78 4.85
2166 2200 4.065281 GTGGGAGACGTCACCGGG 62.065 72.222 23.22 0.00 38.78 5.73
2167 2201 4.415332 CGTGGGAGACGTCACCGG 62.415 72.222 23.22 12.66 43.50 5.28
2175 2209 1.227674 GGATCATGGCGTGGGAGAC 60.228 63.158 6.90 0.00 0.00 3.36
2176 2210 1.688884 TGGATCATGGCGTGGGAGA 60.689 57.895 6.90 0.00 0.00 3.71
2177 2211 1.227764 CTGGATCATGGCGTGGGAG 60.228 63.158 6.90 0.00 0.00 4.30
2178 2212 2.910360 CTGGATCATGGCGTGGGA 59.090 61.111 6.90 0.00 0.00 4.37
2179 2213 2.903855 GCTGGATCATGGCGTGGG 60.904 66.667 6.90 0.00 0.00 4.61
2180 2214 1.721664 CTTGCTGGATCATGGCGTGG 61.722 60.000 6.90 0.00 0.00 4.94
2181 2215 1.721664 CCTTGCTGGATCATGGCGTG 61.722 60.000 0.00 0.00 38.35 5.34
2182 2216 1.452651 CCTTGCTGGATCATGGCGT 60.453 57.895 0.00 0.00 38.35 5.68
2183 2217 1.153107 TCCTTGCTGGATCATGGCG 60.153 57.895 0.00 0.00 40.56 5.69
2184 2218 0.182061 TCTCCTTGCTGGATCATGGC 59.818 55.000 0.00 0.00 45.16 4.40
2185 2219 1.767088 TCTCTCCTTGCTGGATCATGG 59.233 52.381 0.00 0.00 45.16 3.66
2186 2220 2.224329 CCTCTCTCCTTGCTGGATCATG 60.224 54.545 0.00 0.00 45.16 3.07
2187 2221 2.048601 CCTCTCTCCTTGCTGGATCAT 58.951 52.381 0.00 0.00 45.16 2.45
2188 2222 1.493861 CCTCTCTCCTTGCTGGATCA 58.506 55.000 0.00 0.00 45.16 2.92
2189 2223 0.758123 CCCTCTCTCCTTGCTGGATC 59.242 60.000 0.00 0.00 45.16 3.36
2190 2224 0.341258 TCCCTCTCTCCTTGCTGGAT 59.659 55.000 0.00 0.00 45.16 3.41
2191 2225 0.325110 CTCCCTCTCTCCTTGCTGGA 60.325 60.000 0.00 0.00 43.86 3.86
2192 2226 0.325110 TCTCCCTCTCTCCTTGCTGG 60.325 60.000 0.00 0.00 37.10 4.85
2193 2227 1.113788 CTCTCCCTCTCTCCTTGCTG 58.886 60.000 0.00 0.00 0.00 4.41
2194 2228 0.032217 CCTCTCCCTCTCTCCTTGCT 60.032 60.000 0.00 0.00 0.00 3.91
2195 2229 0.325203 ACCTCTCCCTCTCTCCTTGC 60.325 60.000 0.00 0.00 0.00 4.01
2196 2230 1.830477 CAACCTCTCCCTCTCTCCTTG 59.170 57.143 0.00 0.00 0.00 3.61
2197 2231 1.719378 TCAACCTCTCCCTCTCTCCTT 59.281 52.381 0.00 0.00 0.00 3.36
2198 2232 1.287739 CTCAACCTCTCCCTCTCTCCT 59.712 57.143 0.00 0.00 0.00 3.69
2199 2233 1.687996 CCTCAACCTCTCCCTCTCTCC 60.688 61.905 0.00 0.00 0.00 3.71
2200 2234 1.286553 TCCTCAACCTCTCCCTCTCTC 59.713 57.143 0.00 0.00 0.00 3.20
2201 2235 1.388174 TCCTCAACCTCTCCCTCTCT 58.612 55.000 0.00 0.00 0.00 3.10
2202 2236 2.107366 CTTCCTCAACCTCTCCCTCTC 58.893 57.143 0.00 0.00 0.00 3.20
2203 2237 1.719378 TCTTCCTCAACCTCTCCCTCT 59.281 52.381 0.00 0.00 0.00 3.69
2204 2238 1.828595 GTCTTCCTCAACCTCTCCCTC 59.171 57.143 0.00 0.00 0.00 4.30
2205 2239 1.435168 AGTCTTCCTCAACCTCTCCCT 59.565 52.381 0.00 0.00 0.00 4.20
2206 2240 1.828595 GAGTCTTCCTCAACCTCTCCC 59.171 57.143 0.00 0.00 40.17 4.30
2207 2241 1.828595 GGAGTCTTCCTCAACCTCTCC 59.171 57.143 0.00 0.00 42.40 3.71
2208 2242 2.530701 TGGAGTCTTCCTCAACCTCTC 58.469 52.381 0.00 0.00 44.36 3.20
2209 2243 2.704190 TGGAGTCTTCCTCAACCTCT 57.296 50.000 0.00 0.00 44.36 3.69
2210 2244 2.169561 GGATGGAGTCTTCCTCAACCTC 59.830 54.545 5.66 0.00 44.36 3.85
2211 2245 2.192263 GGATGGAGTCTTCCTCAACCT 58.808 52.381 5.66 0.00 44.36 3.50
2212 2246 1.909302 TGGATGGAGTCTTCCTCAACC 59.091 52.381 12.12 1.27 44.36 3.77
2213 2247 2.679349 GCTGGATGGAGTCTTCCTCAAC 60.679 54.545 12.12 0.00 44.36 3.18
2214 2248 1.556911 GCTGGATGGAGTCTTCCTCAA 59.443 52.381 12.12 0.00 44.36 3.02
2215 2249 1.198713 GCTGGATGGAGTCTTCCTCA 58.801 55.000 12.12 0.00 44.36 3.86
2216 2250 1.138661 CTGCTGGATGGAGTCTTCCTC 59.861 57.143 12.12 6.46 44.36 3.71
2217 2251 1.202330 CTGCTGGATGGAGTCTTCCT 58.798 55.000 12.12 0.00 44.36 3.36
2218 2252 0.463474 GCTGCTGGATGGAGTCTTCC 60.463 60.000 5.90 5.90 44.31 3.46
2219 2253 0.251354 TGCTGCTGGATGGAGTCTTC 59.749 55.000 0.00 0.00 36.43 2.87
2220 2254 0.252479 CTGCTGCTGGATGGAGTCTT 59.748 55.000 0.00 0.00 36.43 3.01
2221 2255 1.906253 CTGCTGCTGGATGGAGTCT 59.094 57.895 0.00 0.00 36.43 3.24
2222 2256 1.818785 GCTGCTGCTGGATGGAGTC 60.819 63.158 8.53 0.00 36.43 3.36
2223 2257 2.271497 GCTGCTGCTGGATGGAGT 59.729 61.111 8.53 0.00 36.43 3.85
2224 2258 2.113433 GTGCTGCTGCTGGATGGAG 61.113 63.158 17.00 0.00 40.48 3.86
2225 2259 2.045634 GTGCTGCTGCTGGATGGA 60.046 61.111 17.00 0.00 40.48 3.41


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

AutoCloner maintained by Alex Coulton.