Multiple sequence alignment - TraesCS5A01G355400

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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 TraesCS5A01G355400 chr5A 100.000 2288 0 0 1 2288 558139191 558141478 0.000000e+00 4226.0
1 TraesCS5A01G355400 chr5A 98.656 967 12 1 1 966 558143849 558142883 0.000000e+00 1712.0
2 TraesCS5A01G355400 chr5A 83.871 155 21 4 2066 2217 60524616 60524463 6.590000e-31 145.0
3 TraesCS5A01G355400 chr5A 84.516 155 15 7 2069 2218 428932996 428932846 6.590000e-31 145.0
4 TraesCS5A01G355400 chr5A 89.720 107 6 4 862 965 634473127 634473023 5.130000e-27 132.0
5 TraesCS5A01G355400 chr5A 80.000 195 18 13 788 965 481924175 481923985 8.580000e-25 124.0
6 TraesCS5A01G355400 chr5A 94.444 54 3 0 4 57 678550145 678550092 1.460000e-12 84.2
7 TraesCS5A01G355400 chr3A 99.070 968 8 1 1 968 593993058 593992092 0.000000e+00 1736.0
8 TraesCS5A01G355400 chr1A 94.628 968 41 6 3 962 186707240 186708204 0.000000e+00 1489.0
9 TraesCS5A01G355400 chr1A 91.860 86 6 1 887 971 415633849 415633764 3.990000e-23 119.0
10 TraesCS5A01G355400 chr5B 89.837 1102 79 7 963 2040 537528592 537529684 0.000000e+00 1384.0
11 TraesCS5A01G355400 chr5D 88.353 1099 70 15 975 2040 441352790 441353863 0.000000e+00 1267.0
12 TraesCS5A01G355400 chr5D 93.204 103 6 1 863 964 520905550 520905652 1.420000e-32 150.0
13 TraesCS5A01G355400 chr5D 87.903 124 11 4 2065 2186 495559613 495559734 2.370000e-30 143.0
14 TraesCS5A01G355400 chr5D 96.250 80 3 0 37 116 520904906 520904985 5.130000e-27 132.0
15 TraesCS5A01G355400 chr6B 79.881 1009 134 42 5 977 398367102 398366127 0.000000e+00 675.0
16 TraesCS5A01G355400 chr6B 82.828 792 83 31 3 762 398249666 398248896 0.000000e+00 660.0
17 TraesCS5A01G355400 chr6B 82.576 792 85 31 3 762 398013748 398012978 0.000000e+00 649.0
18 TraesCS5A01G355400 chr7A 82.418 728 92 15 51 761 717562624 717563332 9.040000e-169 603.0
19 TraesCS5A01G355400 chr7A 82.094 726 98 12 51 761 563255562 563256270 1.960000e-165 592.0
20 TraesCS5A01G355400 chr7A 80.000 195 18 12 788 965 563256259 563256449 8.580000e-25 124.0
21 TraesCS5A01G355400 chr3B 82.369 726 97 12 51 761 709236267 709235558 9.040000e-169 603.0
22 TraesCS5A01G355400 chr3B 88.785 107 7 4 862 966 709235479 709235376 2.390000e-25 126.0
23 TraesCS5A01G355400 chr6D 91.346 104 8 1 863 965 324736218 324736115 8.520000e-30 141.0
24 TraesCS5A01G355400 chr6D 90.385 104 8 2 863 965 365029542 365029440 3.960000e-28 135.0
25 TraesCS5A01G355400 chr6D 96.203 79 3 0 37 115 324736860 324736782 1.840000e-26 130.0
26 TraesCS5A01G355400 chr6D 94.937 79 4 0 37 115 365030186 365030108 8.580000e-25 124.0
27 TraesCS5A01G355400 chr2A 87.288 118 11 4 2109 2223 749871858 749871742 5.130000e-27 132.0
28 TraesCS5A01G355400 chr2A 79.487 156 26 5 2066 2217 721594076 721593923 3.110000e-19 106.0
29 TraesCS5A01G355400 chr2A 89.831 59 5 1 3 61 85295787 85295844 8.770000e-10 75.0
30 TraesCS5A01G355400 chr1D 89.623 106 8 2 863 965 251438571 251438466 5.130000e-27 132.0
31 TraesCS5A01G355400 chr1D 88.889 90 7 3 30 116 251439324 251439235 8.640000e-20 108.0
32 TraesCS5A01G355400 chr4B 81.935 155 24 4 2066 2217 667647123 667646970 6.630000e-26 128.0
33 TraesCS5A01G355400 chr7D 86.607 112 14 1 2066 2176 633809864 633809975 3.090000e-24 122.0
34 TraesCS5A01G355400 chr7D 85.088 114 13 4 2066 2177 610673776 610673887 1.860000e-21 113.0
35 TraesCS5A01G355400 chr2D 89.583 96 6 4 871 964 586157154 586157061 3.990000e-23 119.0
36 TraesCS5A01G355400 chr2B 92.308 65 5 0 798 862 629487642 629487706 2.420000e-15 93.5
37 TraesCS5A01G355400 chr1B 77.778 153 28 6 2073 2222 38582947 38582798 3.130000e-14 89.8
38 TraesCS5A01G355400 chr4A 92.727 55 3 1 2 56 126423503 126423556 6.780000e-11 78.7


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 TraesCS5A01G355400 chr5A 558139191 558141478 2287 False 4226.0 4226 100.000 1 2288 1 chr5A.!!$F1 2287
1 TraesCS5A01G355400 chr5A 558142883 558143849 966 True 1712.0 1712 98.656 1 966 1 chr5A.!!$R4 965
2 TraesCS5A01G355400 chr3A 593992092 593993058 966 True 1736.0 1736 99.070 1 968 1 chr3A.!!$R1 967
3 TraesCS5A01G355400 chr1A 186707240 186708204 964 False 1489.0 1489 94.628 3 962 1 chr1A.!!$F1 959
4 TraesCS5A01G355400 chr5B 537528592 537529684 1092 False 1384.0 1384 89.837 963 2040 1 chr5B.!!$F1 1077
5 TraesCS5A01G355400 chr5D 441352790 441353863 1073 False 1267.0 1267 88.353 975 2040 1 chr5D.!!$F1 1065
6 TraesCS5A01G355400 chr6B 398366127 398367102 975 True 675.0 675 79.881 5 977 1 chr6B.!!$R3 972
7 TraesCS5A01G355400 chr6B 398248896 398249666 770 True 660.0 660 82.828 3 762 1 chr6B.!!$R2 759
8 TraesCS5A01G355400 chr6B 398012978 398013748 770 True 649.0 649 82.576 3 762 1 chr6B.!!$R1 759
9 TraesCS5A01G355400 chr7A 717562624 717563332 708 False 603.0 603 82.418 51 761 1 chr7A.!!$F1 710
10 TraesCS5A01G355400 chr7A 563255562 563256449 887 False 358.0 592 81.047 51 965 2 chr7A.!!$F2 914
11 TraesCS5A01G355400 chr3B 709235376 709236267 891 True 364.5 603 85.577 51 966 2 chr3B.!!$R1 915

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
1126 1203 1.953138 CTGTCGATCAGCGCCATCC 60.953 63.158 2.29 0.0 40.61 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2196 2312 0.10741 AAACCACTCCACGTCAGCAA 60.107 50.0 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
1126 1203 1.953138 CTGTCGATCAGCGCCATCC 60.953 63.158 2.29 0.00 40.61 3.51
1232 1309 2.100631 CCGCGATGTTCACCTGGAC 61.101 63.158 8.23 0.00 0.00 4.02
1241 1318 1.691195 TTCACCTGGACGCACCTGAA 61.691 55.000 0.00 0.00 39.52 3.02
1288 1365 4.082136 AGACCGAGTTGCCTCTAGTTTAAG 60.082 45.833 0.00 0.00 35.43 1.85
1324 1408 1.100510 TCGGTGGAGGAGAATACGTG 58.899 55.000 0.00 0.00 0.00 4.49
1406 1490 7.442666 CAGGAATTTTATCCCTAGTTGCTCTAC 59.557 40.741 0.00 0.00 40.59 2.59
1488 1594 1.261619 CGTTGCTGTTTGAGGTCTCAC 59.738 52.381 0.00 0.00 39.66 3.51
1549 1656 9.903682 GCTCTGTTATGTTATGCATGAATATTT 57.096 29.630 10.16 0.00 38.47 1.40
1574 1681 8.621532 TTGATTAGCTTGGTATAATGGATGAC 57.378 34.615 0.00 0.00 0.00 3.06
1583 1690 7.004555 TGGTATAATGGATGACTACATGGTC 57.995 40.000 0.00 0.00 36.82 4.02
1600 1707 3.680490 TGGTCGTGAAATTGCTTCCATA 58.320 40.909 0.00 0.00 32.53 2.74
1609 1716 7.092716 GTGAAATTGCTTCCATACAAACTCAT 58.907 34.615 0.00 0.00 32.53 2.90
1636 1743 7.448161 TCTCATTATTATGGCCGTGAAATTGAT 59.552 33.333 8.05 0.00 32.40 2.57
1668 1775 3.634397 ACTAGCAGGTGCATATGTGTT 57.366 42.857 4.29 0.00 45.16 3.32
1704 1816 6.369065 GTCTATGTACTGTGCAAGCTTAAGTT 59.631 38.462 0.00 0.00 0.00 2.66
1705 1817 7.544566 GTCTATGTACTGTGCAAGCTTAAGTTA 59.455 37.037 0.00 0.00 0.00 2.24
1706 1818 8.092068 TCTATGTACTGTGCAAGCTTAAGTTAA 58.908 33.333 0.00 0.00 0.00 2.01
1707 1819 6.539649 TGTACTGTGCAAGCTTAAGTTAAG 57.460 37.500 16.87 16.87 38.80 1.85
1708 1820 6.053005 TGTACTGTGCAAGCTTAAGTTAAGT 58.947 36.000 20.95 7.88 38.07 2.24
1749 1861 5.722021 AAAAGACCTATTTTCGCCAACAT 57.278 34.783 0.00 0.00 0.00 2.71
1750 1862 4.701956 AAGACCTATTTTCGCCAACATG 57.298 40.909 0.00 0.00 0.00 3.21
1751 1863 2.423538 AGACCTATTTTCGCCAACATGC 59.576 45.455 0.00 0.00 0.00 4.06
1752 1864 2.163412 GACCTATTTTCGCCAACATGCA 59.837 45.455 0.00 0.00 0.00 3.96
1777 1889 1.135286 GGCAAACACAAGCATAGCTCC 60.135 52.381 0.00 0.00 38.25 4.70
1811 1924 5.577164 ACCGTCGAAAAATAATCTCAGACTG 59.423 40.000 0.00 0.00 0.00 3.51
1818 1931 6.882610 AAAATAATCTCAGACTGTGCACAA 57.117 33.333 21.98 4.04 0.00 3.33
1896 2009 8.728596 AACAGAATATATAGCTCCCTTACAGT 57.271 34.615 0.00 0.00 0.00 3.55
1899 2012 6.898521 AGAATATATAGCTCCCTTACAGTCCC 59.101 42.308 0.00 0.00 0.00 4.46
1901 2014 1.861982 TAGCTCCCTTACAGTCCCAC 58.138 55.000 0.00 0.00 0.00 4.61
1927 2040 1.006281 TCCTTGGCCAATCTGCTCATT 59.994 47.619 20.85 0.00 0.00 2.57
1961 2077 6.916360 TGCTTCCTGTGAATTTCCTTTAAT 57.084 33.333 0.00 0.00 0.00 1.40
1981 2097 1.352083 AGCCTCAAGTTCTACCAGCA 58.648 50.000 0.00 0.00 0.00 4.41
2011 2127 4.645136 AGATTCTAGCGTGACCAGATAACA 59.355 41.667 0.00 0.00 0.00 2.41
2040 2156 5.047188 TCTATCAATTTGCGCTGTCGATAA 58.953 37.500 9.73 0.00 38.10 1.75
2041 2157 3.383546 TCAATTTGCGCTGTCGATAAC 57.616 42.857 9.73 0.00 38.10 1.89
2042 2158 2.739379 TCAATTTGCGCTGTCGATAACA 59.261 40.909 9.73 0.00 38.10 2.41
2043 2159 3.373748 TCAATTTGCGCTGTCGATAACAT 59.626 39.130 9.73 0.00 37.23 2.71
2044 2160 2.804421 TTTGCGCTGTCGATAACATG 57.196 45.000 9.73 0.00 37.23 3.21
2045 2161 1.720805 TTGCGCTGTCGATAACATGT 58.279 45.000 9.73 0.00 37.23 3.21
2046 2162 0.998669 TGCGCTGTCGATAACATGTG 59.001 50.000 9.73 0.00 37.23 3.21
2047 2163 0.999406 GCGCTGTCGATAACATGTGT 59.001 50.000 0.00 0.00 37.23 3.72
2048 2164 1.005975 GCGCTGTCGATAACATGTGTC 60.006 52.381 0.00 0.00 37.23 3.67
2049 2165 1.588404 CGCTGTCGATAACATGTGTCC 59.412 52.381 0.00 0.00 37.23 4.02
2050 2166 2.735444 CGCTGTCGATAACATGTGTCCT 60.735 50.000 0.00 0.00 37.23 3.85
2051 2167 3.488553 CGCTGTCGATAACATGTGTCCTA 60.489 47.826 0.00 0.00 37.23 2.94
2052 2168 4.621991 GCTGTCGATAACATGTGTCCTAT 58.378 43.478 0.00 0.00 37.23 2.57
2053 2169 4.681942 GCTGTCGATAACATGTGTCCTATC 59.318 45.833 0.00 2.04 37.23 2.08
2054 2170 5.736207 GCTGTCGATAACATGTGTCCTATCA 60.736 44.000 13.21 3.12 37.23 2.15
2055 2171 6.215495 TGTCGATAACATGTGTCCTATCAA 57.785 37.500 13.21 0.00 31.20 2.57
2056 2172 6.816136 TGTCGATAACATGTGTCCTATCAAT 58.184 36.000 13.21 0.00 31.20 2.57
2057 2173 7.272244 TGTCGATAACATGTGTCCTATCAATT 58.728 34.615 13.21 0.00 31.20 2.32
2058 2174 7.438160 TGTCGATAACATGTGTCCTATCAATTC 59.562 37.037 13.21 4.01 31.20 2.17
2059 2175 7.653713 GTCGATAACATGTGTCCTATCAATTCT 59.346 37.037 13.21 0.00 0.00 2.40
2060 2176 7.867909 TCGATAACATGTGTCCTATCAATTCTC 59.132 37.037 13.21 0.00 0.00 2.87
2061 2177 7.869937 CGATAACATGTGTCCTATCAATTCTCT 59.130 37.037 13.21 0.00 0.00 3.10
2062 2178 9.553064 GATAACATGTGTCCTATCAATTCTCTT 57.447 33.333 0.00 0.00 0.00 2.85
2063 2179 7.621428 AACATGTGTCCTATCAATTCTCTTG 57.379 36.000 0.00 0.00 0.00 3.02
2064 2180 6.950842 ACATGTGTCCTATCAATTCTCTTGA 58.049 36.000 0.00 0.00 0.00 3.02
2065 2181 7.397221 ACATGTGTCCTATCAATTCTCTTGAA 58.603 34.615 0.00 0.00 36.54 2.69
2066 2182 7.884877 ACATGTGTCCTATCAATTCTCTTGAAA 59.115 33.333 0.00 0.00 35.63 2.69
2067 2183 7.912056 TGTGTCCTATCAATTCTCTTGAAAG 57.088 36.000 0.00 0.00 35.63 2.62
2068 2184 7.453393 TGTGTCCTATCAATTCTCTTGAAAGT 58.547 34.615 0.00 0.00 35.63 2.66
2069 2185 8.593679 TGTGTCCTATCAATTCTCTTGAAAGTA 58.406 33.333 0.00 0.00 35.63 2.24
2070 2186 9.606631 GTGTCCTATCAATTCTCTTGAAAGTAT 57.393 33.333 0.00 0.00 35.63 2.12
2082 2198 9.720769 TTCTCTTGAAAGTATATTTTTCGTCCT 57.279 29.630 0.00 0.00 37.36 3.85
2083 2199 9.367444 TCTCTTGAAAGTATATTTTTCGTCCTC 57.633 33.333 0.00 0.00 37.36 3.71
2084 2200 9.151471 CTCTTGAAAGTATATTTTTCGTCCTCA 57.849 33.333 0.00 0.00 37.36 3.86
2085 2201 9.496873 TCTTGAAAGTATATTTTTCGTCCTCAA 57.503 29.630 0.00 0.00 37.36 3.02
2086 2202 9.543018 CTTGAAAGTATATTTTTCGTCCTCAAC 57.457 33.333 0.00 0.00 37.36 3.18
2087 2203 8.842358 TGAAAGTATATTTTTCGTCCTCAACT 57.158 30.769 0.00 0.00 37.36 3.16
2088 2204 9.280174 TGAAAGTATATTTTTCGTCCTCAACTT 57.720 29.630 0.00 0.00 37.36 2.66
2091 2207 9.503399 AAGTATATTTTTCGTCCTCAACTTTCT 57.497 29.630 0.00 0.00 0.00 2.52
2092 2208 9.503399 AGTATATTTTTCGTCCTCAACTTTCTT 57.497 29.630 0.00 0.00 0.00 2.52
2097 2213 6.613755 TTTCGTCCTCAACTTTCTTAAAGG 57.386 37.500 4.56 0.00 42.82 3.11
2098 2214 5.286267 TCGTCCTCAACTTTCTTAAAGGT 57.714 39.130 4.56 0.00 42.82 3.50
2099 2215 6.409524 TCGTCCTCAACTTTCTTAAAGGTA 57.590 37.500 4.56 0.00 42.82 3.08
2100 2216 7.001099 TCGTCCTCAACTTTCTTAAAGGTAT 57.999 36.000 4.56 0.00 42.82 2.73
2101 2217 8.125978 TCGTCCTCAACTTTCTTAAAGGTATA 57.874 34.615 4.56 0.00 42.82 1.47
2102 2218 8.248945 TCGTCCTCAACTTTCTTAAAGGTATAG 58.751 37.037 4.56 0.00 42.82 1.31
2103 2219 8.248945 CGTCCTCAACTTTCTTAAAGGTATAGA 58.751 37.037 4.56 0.00 42.82 1.98
2104 2220 9.939802 GTCCTCAACTTTCTTAAAGGTATAGAA 57.060 33.333 4.56 0.00 42.82 2.10
2115 2231 9.947189 TCTTAAAGGTATAGAAATAGTCCCTCA 57.053 33.333 0.00 0.00 0.00 3.86
2118 2234 8.625467 AAAGGTATAGAAATAGTCCCTCAACT 57.375 34.615 0.00 0.00 0.00 3.16
2119 2235 7.604657 AGGTATAGAAATAGTCCCTCAACTG 57.395 40.000 0.00 0.00 0.00 3.16
2120 2236 7.133483 AGGTATAGAAATAGTCCCTCAACTGT 58.867 38.462 0.00 0.00 0.00 3.55
2121 2237 8.287350 AGGTATAGAAATAGTCCCTCAACTGTA 58.713 37.037 0.00 0.00 0.00 2.74
2122 2238 8.921205 GGTATAGAAATAGTCCCTCAACTGTAA 58.079 37.037 0.00 0.00 0.00 2.41
2125 2241 7.981102 AGAAATAGTCCCTCAACTGTAAAAC 57.019 36.000 0.00 0.00 0.00 2.43
2126 2242 6.940867 AGAAATAGTCCCTCAACTGTAAAACC 59.059 38.462 0.00 0.00 0.00 3.27
2127 2243 5.836024 ATAGTCCCTCAACTGTAAAACCA 57.164 39.130 0.00 0.00 0.00 3.67
2128 2244 4.086706 AGTCCCTCAACTGTAAAACCAG 57.913 45.455 0.00 0.00 38.45 4.00
2129 2245 2.552743 GTCCCTCAACTGTAAAACCAGC 59.447 50.000 0.00 0.00 35.83 4.85
2130 2246 2.173782 TCCCTCAACTGTAAAACCAGCA 59.826 45.455 0.00 0.00 35.83 4.41
2131 2247 2.955660 CCCTCAACTGTAAAACCAGCAA 59.044 45.455 0.00 0.00 35.83 3.91
2132 2248 3.383185 CCCTCAACTGTAAAACCAGCAAA 59.617 43.478 0.00 0.00 35.83 3.68
2133 2249 4.359706 CCTCAACTGTAAAACCAGCAAAC 58.640 43.478 0.00 0.00 35.83 2.93
2134 2250 4.359706 CTCAACTGTAAAACCAGCAAACC 58.640 43.478 0.00 0.00 35.83 3.27
2135 2251 4.020543 TCAACTGTAAAACCAGCAAACCT 58.979 39.130 0.00 0.00 35.83 3.50
2136 2252 4.464597 TCAACTGTAAAACCAGCAAACCTT 59.535 37.500 0.00 0.00 35.83 3.50
2137 2253 4.385358 ACTGTAAAACCAGCAAACCTTG 57.615 40.909 0.00 0.00 35.83 3.61
2138 2254 3.132111 ACTGTAAAACCAGCAAACCTTGG 59.868 43.478 0.00 0.00 35.83 3.61
2139 2255 3.100671 TGTAAAACCAGCAAACCTTGGT 58.899 40.909 0.00 0.00 43.12 3.67
2140 2256 2.979814 AAAACCAGCAAACCTTGGTC 57.020 45.000 0.00 0.00 39.79 4.02
2141 2257 1.119684 AAACCAGCAAACCTTGGTCC 58.880 50.000 0.00 0.00 39.79 4.46
2142 2258 0.261696 AACCAGCAAACCTTGGTCCT 59.738 50.000 0.00 0.00 39.79 3.85
2143 2259 0.261696 ACCAGCAAACCTTGGTCCTT 59.738 50.000 0.00 0.00 39.79 3.36
2144 2260 0.961753 CCAGCAAACCTTGGTCCTTC 59.038 55.000 0.00 0.00 39.79 3.46
2145 2261 1.691196 CAGCAAACCTTGGTCCTTCA 58.309 50.000 0.00 0.00 39.79 3.02
2146 2262 2.031120 CAGCAAACCTTGGTCCTTCAA 58.969 47.619 0.00 0.00 39.79 2.69
2147 2263 2.031870 AGCAAACCTTGGTCCTTCAAC 58.968 47.619 0.00 0.00 36.50 3.18
2148 2264 2.031870 GCAAACCTTGGTCCTTCAACT 58.968 47.619 0.00 0.00 0.00 3.16
2149 2265 2.430694 GCAAACCTTGGTCCTTCAACTT 59.569 45.455 0.00 0.00 0.00 2.66
2150 2266 3.118775 GCAAACCTTGGTCCTTCAACTTT 60.119 43.478 0.00 0.00 0.00 2.66
2151 2267 4.682787 CAAACCTTGGTCCTTCAACTTTC 58.317 43.478 0.00 0.00 0.00 2.62
2152 2268 3.662759 ACCTTGGTCCTTCAACTTTCA 57.337 42.857 0.00 0.00 0.00 2.69
2153 2269 3.976015 ACCTTGGTCCTTCAACTTTCAA 58.024 40.909 0.00 0.00 0.00 2.69
2154 2270 4.349365 ACCTTGGTCCTTCAACTTTCAAA 58.651 39.130 0.00 0.00 0.00 2.69
2155 2271 4.775253 ACCTTGGTCCTTCAACTTTCAAAA 59.225 37.500 0.00 0.00 0.00 2.44
2156 2272 5.109210 CCTTGGTCCTTCAACTTTCAAAAC 58.891 41.667 0.00 0.00 0.00 2.43
2157 2273 4.729227 TGGTCCTTCAACTTTCAAAACC 57.271 40.909 0.00 0.00 0.00 3.27
2158 2274 3.129638 TGGTCCTTCAACTTTCAAAACCG 59.870 43.478 0.00 0.00 0.00 4.44
2159 2275 3.490249 GGTCCTTCAACTTTCAAAACCGG 60.490 47.826 0.00 0.00 0.00 5.28
2160 2276 3.379057 GTCCTTCAACTTTCAAAACCGGA 59.621 43.478 9.46 0.00 0.00 5.14
2161 2277 4.037565 GTCCTTCAACTTTCAAAACCGGAT 59.962 41.667 9.46 0.00 0.00 4.18
2162 2278 5.239963 GTCCTTCAACTTTCAAAACCGGATA 59.760 40.000 9.46 0.00 0.00 2.59
2163 2279 5.828859 TCCTTCAACTTTCAAAACCGGATAA 59.171 36.000 9.46 0.00 0.00 1.75
2164 2280 6.016610 TCCTTCAACTTTCAAAACCGGATAAG 60.017 38.462 9.46 0.00 0.00 1.73
2165 2281 6.238925 CCTTCAACTTTCAAAACCGGATAAGT 60.239 38.462 9.46 0.00 0.00 2.24
2166 2282 6.702716 TCAACTTTCAAAACCGGATAAGTT 57.297 33.333 9.46 6.48 36.55 2.66
2167 2283 7.102847 TCAACTTTCAAAACCGGATAAGTTT 57.897 32.000 9.46 0.00 39.07 2.66
2168 2284 8.223177 TCAACTTTCAAAACCGGATAAGTTTA 57.777 30.769 9.46 0.00 36.44 2.01
2169 2285 8.347035 TCAACTTTCAAAACCGGATAAGTTTAG 58.653 33.333 9.46 0.00 36.44 1.85
2170 2286 7.812690 ACTTTCAAAACCGGATAAGTTTAGT 57.187 32.000 9.46 0.00 36.44 2.24
2171 2287 7.868775 ACTTTCAAAACCGGATAAGTTTAGTC 58.131 34.615 9.46 0.00 36.44 2.59
2172 2288 6.806388 TTCAAAACCGGATAAGTTTAGTCC 57.194 37.500 9.46 0.00 36.44 3.85
2173 2289 5.247862 TCAAAACCGGATAAGTTTAGTCCC 58.752 41.667 9.46 0.00 36.44 4.46
2174 2290 5.013391 TCAAAACCGGATAAGTTTAGTCCCT 59.987 40.000 9.46 0.00 36.44 4.20
2175 2291 4.750021 AACCGGATAAGTTTAGTCCCTC 57.250 45.455 9.46 0.00 0.00 4.30
2176 2292 2.692041 ACCGGATAAGTTTAGTCCCTCG 59.308 50.000 9.46 0.00 0.00 4.63
2177 2293 2.692041 CCGGATAAGTTTAGTCCCTCGT 59.308 50.000 0.00 0.00 0.00 4.18
2178 2294 3.885297 CCGGATAAGTTTAGTCCCTCGTA 59.115 47.826 0.00 0.00 0.00 3.43
2179 2295 4.261363 CCGGATAAGTTTAGTCCCTCGTAC 60.261 50.000 0.00 0.00 0.00 3.67
2180 2296 4.261363 CGGATAAGTTTAGTCCCTCGTACC 60.261 50.000 0.00 0.00 0.00 3.34
2181 2297 4.646492 GGATAAGTTTAGTCCCTCGTACCA 59.354 45.833 0.00 0.00 0.00 3.25
2182 2298 5.221204 GGATAAGTTTAGTCCCTCGTACCAG 60.221 48.000 0.00 0.00 0.00 4.00
2183 2299 1.823610 AGTTTAGTCCCTCGTACCAGC 59.176 52.381 0.00 0.00 0.00 4.85
2184 2300 1.823610 GTTTAGTCCCTCGTACCAGCT 59.176 52.381 0.00 0.00 0.00 4.24
2185 2301 2.226962 TTAGTCCCTCGTACCAGCTT 57.773 50.000 0.00 0.00 0.00 3.74
2186 2302 1.471119 TAGTCCCTCGTACCAGCTTG 58.529 55.000 0.00 0.00 0.00 4.01
2187 2303 1.218316 GTCCCTCGTACCAGCTTGG 59.782 63.158 1.16 1.16 45.02 3.61
2188 2304 1.077805 TCCCTCGTACCAGCTTGGA 59.922 57.895 8.91 0.00 40.96 3.53
2189 2305 0.325296 TCCCTCGTACCAGCTTGGAT 60.325 55.000 8.91 0.00 40.96 3.41
2190 2306 0.179073 CCCTCGTACCAGCTTGGATG 60.179 60.000 8.91 0.00 40.96 3.51
2191 2307 0.179073 CCTCGTACCAGCTTGGATGG 60.179 60.000 8.91 0.00 40.96 3.51
2199 2315 1.067354 CCAGCTTGGATGGTTTCTTGC 60.067 52.381 0.00 0.00 40.96 4.01
2200 2316 1.891150 CAGCTTGGATGGTTTCTTGCT 59.109 47.619 0.00 0.00 0.00 3.91
2201 2317 1.891150 AGCTTGGATGGTTTCTTGCTG 59.109 47.619 0.00 0.00 0.00 4.41
2202 2318 1.888512 GCTTGGATGGTTTCTTGCTGA 59.111 47.619 0.00 0.00 0.00 4.26
2203 2319 2.352127 GCTTGGATGGTTTCTTGCTGAC 60.352 50.000 0.00 0.00 0.00 3.51
2204 2320 1.522668 TGGATGGTTTCTTGCTGACG 58.477 50.000 0.00 0.00 0.00 4.35
2205 2321 1.202758 TGGATGGTTTCTTGCTGACGT 60.203 47.619 0.00 0.00 0.00 4.34
2206 2322 1.197721 GGATGGTTTCTTGCTGACGTG 59.802 52.381 0.00 0.00 0.00 4.49
2207 2323 1.197721 GATGGTTTCTTGCTGACGTGG 59.802 52.381 0.00 0.00 0.00 4.94
2208 2324 0.179234 TGGTTTCTTGCTGACGTGGA 59.821 50.000 0.00 0.00 0.00 4.02
2209 2325 0.868406 GGTTTCTTGCTGACGTGGAG 59.132 55.000 0.00 0.00 0.00 3.86
2210 2326 1.583054 GTTTCTTGCTGACGTGGAGT 58.417 50.000 0.00 0.00 0.00 3.85
2211 2327 1.261619 GTTTCTTGCTGACGTGGAGTG 59.738 52.381 0.00 0.00 0.00 3.51
2212 2328 0.249868 TTCTTGCTGACGTGGAGTGG 60.250 55.000 0.00 0.00 0.00 4.00
2213 2329 1.069765 CTTGCTGACGTGGAGTGGT 59.930 57.895 0.00 0.00 0.00 4.16
2214 2330 0.532862 CTTGCTGACGTGGAGTGGTT 60.533 55.000 0.00 0.00 0.00 3.67
2215 2331 0.107410 TTGCTGACGTGGAGTGGTTT 60.107 50.000 0.00 0.00 0.00 3.27
2216 2332 0.107410 TGCTGACGTGGAGTGGTTTT 60.107 50.000 0.00 0.00 0.00 2.43
2217 2333 1.021968 GCTGACGTGGAGTGGTTTTT 58.978 50.000 0.00 0.00 0.00 1.94
2218 2334 1.268539 GCTGACGTGGAGTGGTTTTTG 60.269 52.381 0.00 0.00 0.00 2.44
2219 2335 2.285083 CTGACGTGGAGTGGTTTTTGA 58.715 47.619 0.00 0.00 0.00 2.69
2220 2336 2.011222 TGACGTGGAGTGGTTTTTGAC 58.989 47.619 0.00 0.00 0.00 3.18
2221 2337 2.285977 GACGTGGAGTGGTTTTTGACT 58.714 47.619 0.00 0.00 0.00 3.41
2222 2338 2.285977 ACGTGGAGTGGTTTTTGACTC 58.714 47.619 0.00 0.00 38.32 3.36
2223 2339 1.260561 CGTGGAGTGGTTTTTGACTCG 59.739 52.381 0.00 0.00 39.69 4.18
2224 2340 2.557317 GTGGAGTGGTTTTTGACTCGA 58.443 47.619 0.00 0.00 39.69 4.04
2225 2341 2.287103 GTGGAGTGGTTTTTGACTCGAC 59.713 50.000 0.00 0.00 39.66 4.20
2226 2342 2.169769 TGGAGTGGTTTTTGACTCGACT 59.830 45.455 0.00 0.00 39.69 4.18
2227 2343 2.801111 GGAGTGGTTTTTGACTCGACTC 59.199 50.000 0.00 0.00 39.69 3.36
2228 2344 2.470821 AGTGGTTTTTGACTCGACTCG 58.529 47.619 0.00 0.00 0.00 4.18
2229 2345 2.100252 AGTGGTTTTTGACTCGACTCGA 59.900 45.455 0.29 0.29 0.00 4.04
2238 2354 3.775065 CTCGACTCGAGCTGACAAA 57.225 52.632 15.30 0.00 46.75 2.83
2239 2355 2.270275 CTCGACTCGAGCTGACAAAT 57.730 50.000 15.30 0.00 46.75 2.32
2240 2356 1.916651 CTCGACTCGAGCTGACAAATG 59.083 52.381 15.30 0.00 46.75 2.32
2241 2357 1.269723 TCGACTCGAGCTGACAAATGT 59.730 47.619 13.61 0.00 0.00 2.71
2242 2358 1.388093 CGACTCGAGCTGACAAATGTG 59.612 52.381 13.61 0.00 0.00 3.21
2243 2359 1.728971 GACTCGAGCTGACAAATGTGG 59.271 52.381 13.61 0.00 0.00 4.17
2244 2360 1.081892 CTCGAGCTGACAAATGTGGG 58.918 55.000 0.00 0.00 0.00 4.61
2245 2361 0.321564 TCGAGCTGACAAATGTGGGG 60.322 55.000 0.00 0.00 0.00 4.96
2246 2362 0.321564 CGAGCTGACAAATGTGGGGA 60.322 55.000 0.00 0.00 0.00 4.81
2247 2363 1.168714 GAGCTGACAAATGTGGGGAC 58.831 55.000 0.00 0.00 0.00 4.46
2260 2376 2.597510 GGGACCACCACAACTGCC 60.598 66.667 0.00 0.00 39.85 4.85
2261 2377 2.597510 GGACCACCACAACTGCCC 60.598 66.667 0.00 0.00 35.97 5.36
2262 2378 2.194597 GACCACCACAACTGCCCA 59.805 61.111 0.00 0.00 0.00 5.36
2263 2379 1.898574 GACCACCACAACTGCCCAG 60.899 63.158 0.00 0.00 0.00 4.45
2264 2380 2.195683 CCACCACAACTGCCCAGT 59.804 61.111 0.00 0.00 44.94 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1059 1136 4.063689 TCTTGTACTTCTTCGACTCGTCT 58.936 43.478 0.00 0.00 0.00 4.18
1126 1203 1.138661 GAGGAAGCTCAGGAGGATGTG 59.861 57.143 0.00 0.00 0.00 3.21
1232 1309 0.110644 GCGAAAGTTCTTCAGGTGCG 60.111 55.000 0.00 0.00 0.00 5.34
1241 1318 0.319641 GACGGACCAGCGAAAGTTCT 60.320 55.000 0.00 0.00 0.00 3.01
1406 1490 4.668289 ACAAAGTACAAAAGTCAAAGGCG 58.332 39.130 0.00 0.00 0.00 5.52
1454 1538 1.001974 AGCAACGCACTCATAGACCAA 59.998 47.619 0.00 0.00 0.00 3.67
1488 1594 3.926616 ACTCCCAAGTGTTGTTATCGAG 58.073 45.455 0.00 0.00 33.32 4.04
1549 1656 8.439971 AGTCATCCATTATACCAAGCTAATCAA 58.560 33.333 0.00 0.00 0.00 2.57
1572 1679 3.684788 AGCAATTTCACGACCATGTAGTC 59.315 43.478 0.00 0.00 0.00 2.59
1574 1681 4.437390 GGAAGCAATTTCACGACCATGTAG 60.437 45.833 0.00 0.00 37.54 2.74
1583 1690 5.460646 AGTTTGTATGGAAGCAATTTCACG 58.539 37.500 0.00 0.00 37.54 4.35
1600 1707 7.255242 CGGCCATAATAATGAGAATGAGTTTGT 60.255 37.037 2.24 0.00 34.84 2.83
1609 1716 7.284261 TCAATTTCACGGCCATAATAATGAGAA 59.716 33.333 2.24 0.00 34.84 2.87
1636 1743 7.695480 TGCACCTGCTAGTATTTCAAATAAA 57.305 32.000 0.00 0.00 42.66 1.40
1668 1775 8.311109 TGCACAGTACATAGACTAAAGATTCAA 58.689 33.333 0.00 0.00 0.00 2.69
1733 1845 2.164219 AGTGCATGTTGGCGAAAATAGG 59.836 45.455 0.00 0.00 36.28 2.57
1749 1861 2.006056 GCTTGTGTTTGCCAAAGTGCA 61.006 47.619 0.00 0.00 40.07 4.57
1750 1862 0.652071 GCTTGTGTTTGCCAAAGTGC 59.348 50.000 0.00 0.00 0.00 4.40
1751 1863 2.007360 TGCTTGTGTTTGCCAAAGTG 57.993 45.000 0.00 0.00 0.00 3.16
1752 1864 2.985957 ATGCTTGTGTTTGCCAAAGT 57.014 40.000 0.00 0.00 0.00 2.66
1777 1889 7.801547 TTATTTTTCGACGGTACTTGTAGAG 57.198 36.000 0.00 0.00 0.00 2.43
1818 1931 2.425668 GTGTTTTAGTGTGCCCAAGTGT 59.574 45.455 0.00 0.00 0.00 3.55
1851 1964 6.592607 TCTGTTTCCCGAACTATACATTTCAC 59.407 38.462 0.00 0.00 39.08 3.18
1896 2009 0.034863 GGCCAAGGAAATACGTGGGA 60.035 55.000 0.00 0.00 29.51 4.37
1899 2012 3.016736 AGATTGGCCAAGGAAATACGTG 58.983 45.455 24.94 0.00 0.00 4.49
1901 2014 2.223572 GCAGATTGGCCAAGGAAATACG 60.224 50.000 24.94 7.13 0.00 3.06
1927 2040 3.521531 TCACAGGAAGCATGTAATGGGTA 59.478 43.478 0.00 0.00 46.86 3.69
1961 2077 2.536066 TGCTGGTAGAACTTGAGGCTA 58.464 47.619 0.00 0.00 0.00 3.93
1981 2097 4.819630 TGGTCACGCTAGAATCTTGTTTTT 59.180 37.500 0.00 0.00 0.00 1.94
2011 2127 4.156556 ACAGCGCAAATTGATAGAACACAT 59.843 37.500 11.47 0.00 0.00 3.21
2040 2156 6.950842 TCAAGAGAATTGATAGGACACATGT 58.049 36.000 0.00 0.00 0.00 3.21
2041 2157 7.854557 TTCAAGAGAATTGATAGGACACATG 57.145 36.000 0.00 0.00 0.00 3.21
2042 2158 8.105829 ACTTTCAAGAGAATTGATAGGACACAT 58.894 33.333 11.13 0.00 33.63 3.21
2043 2159 7.453393 ACTTTCAAGAGAATTGATAGGACACA 58.547 34.615 11.13 0.00 33.63 3.72
2044 2160 7.913674 ACTTTCAAGAGAATTGATAGGACAC 57.086 36.000 11.13 0.00 33.63 3.67
2056 2172 9.720769 AGGACGAAAAATATACTTTCAAGAGAA 57.279 29.630 9.63 0.00 33.25 2.87
2057 2173 9.367444 GAGGACGAAAAATATACTTTCAAGAGA 57.633 33.333 9.63 0.00 33.25 3.10
2058 2174 9.151471 TGAGGACGAAAAATATACTTTCAAGAG 57.849 33.333 9.63 0.00 33.25 2.85
2059 2175 9.496873 TTGAGGACGAAAAATATACTTTCAAGA 57.503 29.630 9.63 0.00 33.25 3.02
2060 2176 9.543018 GTTGAGGACGAAAAATATACTTTCAAG 57.457 33.333 9.63 0.00 33.25 3.02
2061 2177 9.280174 AGTTGAGGACGAAAAATATACTTTCAA 57.720 29.630 9.63 0.00 33.25 2.69
2062 2178 8.842358 AGTTGAGGACGAAAAATATACTTTCA 57.158 30.769 9.63 0.00 33.25 2.69
2065 2181 9.503399 AGAAAGTTGAGGACGAAAAATATACTT 57.497 29.630 0.00 0.00 0.00 2.24
2066 2182 9.503399 AAGAAAGTTGAGGACGAAAAATATACT 57.497 29.630 0.00 0.00 0.00 2.12
2071 2187 8.135529 CCTTTAAGAAAGTTGAGGACGAAAAAT 58.864 33.333 0.00 0.00 36.77 1.82
2072 2188 7.121611 ACCTTTAAGAAAGTTGAGGACGAAAAA 59.878 33.333 0.00 0.00 36.77 1.94
2073 2189 6.600427 ACCTTTAAGAAAGTTGAGGACGAAAA 59.400 34.615 0.00 0.00 36.77 2.29
2074 2190 6.117488 ACCTTTAAGAAAGTTGAGGACGAAA 58.883 36.000 0.00 0.00 36.77 3.46
2075 2191 5.677567 ACCTTTAAGAAAGTTGAGGACGAA 58.322 37.500 0.00 0.00 36.77 3.85
2076 2192 5.286267 ACCTTTAAGAAAGTTGAGGACGA 57.714 39.130 0.00 0.00 36.77 4.20
2077 2193 8.248945 TCTATACCTTTAAGAAAGTTGAGGACG 58.751 37.037 0.00 0.00 36.77 4.79
2078 2194 9.939802 TTCTATACCTTTAAGAAAGTTGAGGAC 57.060 33.333 0.00 0.00 36.77 3.85
2089 2205 9.947189 TGAGGGACTATTTCTATACCTTTAAGA 57.053 33.333 0.00 0.00 41.55 2.10
2092 2208 9.725206 AGTTGAGGGACTATTTCTATACCTTTA 57.275 33.333 0.00 0.00 41.55 1.85
2093 2209 8.487028 CAGTTGAGGGACTATTTCTATACCTTT 58.513 37.037 0.00 0.00 41.55 3.11
2094 2210 7.624077 ACAGTTGAGGGACTATTTCTATACCTT 59.376 37.037 0.00 0.00 41.55 3.50
2095 2211 7.133483 ACAGTTGAGGGACTATTTCTATACCT 58.867 38.462 0.00 0.00 41.55 3.08
2096 2212 7.362802 ACAGTTGAGGGACTATTTCTATACC 57.637 40.000 0.00 0.00 41.55 2.73
2099 2215 9.668497 GTTTTACAGTTGAGGGACTATTTCTAT 57.332 33.333 0.00 0.00 41.55 1.98
2100 2216 8.098912 GGTTTTACAGTTGAGGGACTATTTCTA 58.901 37.037 0.00 0.00 41.55 2.10
2101 2217 6.940867 GGTTTTACAGTTGAGGGACTATTTCT 59.059 38.462 0.00 0.00 41.55 2.52
2102 2218 6.713450 TGGTTTTACAGTTGAGGGACTATTTC 59.287 38.462 0.00 0.00 41.55 2.17
2103 2219 6.607019 TGGTTTTACAGTTGAGGGACTATTT 58.393 36.000 0.00 0.00 41.55 1.40
2104 2220 6.195600 TGGTTTTACAGTTGAGGGACTATT 57.804 37.500 0.00 0.00 41.55 1.73
2105 2221 5.803470 GCTGGTTTTACAGTTGAGGGACTAT 60.803 44.000 0.00 0.00 38.99 2.12
2106 2222 4.504340 GCTGGTTTTACAGTTGAGGGACTA 60.504 45.833 0.00 0.00 38.99 2.59
2107 2223 3.747708 GCTGGTTTTACAGTTGAGGGACT 60.748 47.826 0.00 0.00 40.82 3.85
2108 2224 2.552743 GCTGGTTTTACAGTTGAGGGAC 59.447 50.000 0.00 0.00 40.59 4.46
2109 2225 2.173782 TGCTGGTTTTACAGTTGAGGGA 59.826 45.455 0.00 0.00 40.59 4.20
2110 2226 2.582052 TGCTGGTTTTACAGTTGAGGG 58.418 47.619 0.00 0.00 40.59 4.30
2111 2227 4.359706 GTTTGCTGGTTTTACAGTTGAGG 58.640 43.478 0.00 0.00 40.59 3.86
2112 2228 4.097892 AGGTTTGCTGGTTTTACAGTTGAG 59.902 41.667 0.00 0.00 40.59 3.02
2113 2229 4.020543 AGGTTTGCTGGTTTTACAGTTGA 58.979 39.130 0.00 0.00 40.59 3.18
2114 2230 4.385358 AGGTTTGCTGGTTTTACAGTTG 57.615 40.909 0.00 0.00 40.59 3.16
2115 2231 4.382577 CCAAGGTTTGCTGGTTTTACAGTT 60.383 41.667 0.00 0.00 40.59 3.16
2116 2232 3.132111 CCAAGGTTTGCTGGTTTTACAGT 59.868 43.478 0.00 0.00 40.59 3.55
2117 2233 3.132111 ACCAAGGTTTGCTGGTTTTACAG 59.868 43.478 0.00 0.00 43.62 2.74
2118 2234 3.100671 ACCAAGGTTTGCTGGTTTTACA 58.899 40.909 0.00 0.00 43.62 2.41
2119 2235 3.491964 GGACCAAGGTTTGCTGGTTTTAC 60.492 47.826 0.00 0.00 46.12 2.01
2120 2236 2.696187 GGACCAAGGTTTGCTGGTTTTA 59.304 45.455 0.00 0.00 46.12 1.52
2121 2237 1.484653 GGACCAAGGTTTGCTGGTTTT 59.515 47.619 0.00 0.00 46.12 2.43
2122 2238 1.119684 GGACCAAGGTTTGCTGGTTT 58.880 50.000 0.00 0.00 46.12 3.27
2123 2239 0.261696 AGGACCAAGGTTTGCTGGTT 59.738 50.000 0.00 0.00 46.12 3.67
2125 2241 0.961753 GAAGGACCAAGGTTTGCTGG 59.038 55.000 0.00 0.00 38.77 4.85
2126 2242 1.691196 TGAAGGACCAAGGTTTGCTG 58.309 50.000 0.00 0.00 0.00 4.41
2127 2243 2.031870 GTTGAAGGACCAAGGTTTGCT 58.968 47.619 0.00 0.00 0.00 3.91
2128 2244 2.031870 AGTTGAAGGACCAAGGTTTGC 58.968 47.619 0.00 0.00 0.00 3.68
2129 2245 4.159506 TGAAAGTTGAAGGACCAAGGTTTG 59.840 41.667 0.00 0.00 0.00 2.93
2130 2246 4.349365 TGAAAGTTGAAGGACCAAGGTTT 58.651 39.130 0.00 0.00 0.00 3.27
2131 2247 3.976015 TGAAAGTTGAAGGACCAAGGTT 58.024 40.909 0.00 0.00 0.00 3.50
2132 2248 3.662759 TGAAAGTTGAAGGACCAAGGT 57.337 42.857 0.00 0.00 0.00 3.50
2133 2249 5.109210 GTTTTGAAAGTTGAAGGACCAAGG 58.891 41.667 0.00 0.00 0.00 3.61
2134 2250 5.109210 GGTTTTGAAAGTTGAAGGACCAAG 58.891 41.667 0.00 0.00 0.00 3.61
2135 2251 4.381079 CGGTTTTGAAAGTTGAAGGACCAA 60.381 41.667 0.00 0.00 0.00 3.67
2136 2252 3.129638 CGGTTTTGAAAGTTGAAGGACCA 59.870 43.478 0.00 0.00 0.00 4.02
2137 2253 3.490249 CCGGTTTTGAAAGTTGAAGGACC 60.490 47.826 0.00 0.00 0.00 4.46
2138 2254 3.379057 TCCGGTTTTGAAAGTTGAAGGAC 59.621 43.478 0.00 0.00 0.00 3.85
2139 2255 3.622630 TCCGGTTTTGAAAGTTGAAGGA 58.377 40.909 0.00 0.00 0.00 3.36
2140 2256 4.584327 ATCCGGTTTTGAAAGTTGAAGG 57.416 40.909 0.00 0.00 0.00 3.46
2141 2257 6.735130 ACTTATCCGGTTTTGAAAGTTGAAG 58.265 36.000 0.00 0.00 0.00 3.02
2142 2258 6.702716 ACTTATCCGGTTTTGAAAGTTGAA 57.297 33.333 0.00 0.00 0.00 2.69
2143 2259 6.702716 AACTTATCCGGTTTTGAAAGTTGA 57.297 33.333 0.00 0.00 36.21 3.18
2144 2260 8.132995 ACTAAACTTATCCGGTTTTGAAAGTTG 58.867 33.333 0.00 0.00 37.27 3.16
2145 2261 8.229253 ACTAAACTTATCCGGTTTTGAAAGTT 57.771 30.769 0.00 3.33 38.45 2.66
2146 2262 7.040892 GGACTAAACTTATCCGGTTTTGAAAGT 60.041 37.037 0.00 0.00 37.88 2.66
2147 2263 7.303261 GGACTAAACTTATCCGGTTTTGAAAG 58.697 38.462 0.00 0.00 37.88 2.62
2148 2264 6.207221 GGGACTAAACTTATCCGGTTTTGAAA 59.793 38.462 0.00 0.00 37.88 2.69
2149 2265 5.706833 GGGACTAAACTTATCCGGTTTTGAA 59.293 40.000 0.00 0.00 37.88 2.69
2150 2266 5.013391 AGGGACTAAACTTATCCGGTTTTGA 59.987 40.000 0.00 0.00 36.02 2.69
2151 2267 5.250982 AGGGACTAAACTTATCCGGTTTTG 58.749 41.667 0.00 0.00 36.02 2.44
2152 2268 5.494724 GAGGGACTAAACTTATCCGGTTTT 58.505 41.667 0.00 0.00 41.55 2.43
2153 2269 4.382362 CGAGGGACTAAACTTATCCGGTTT 60.382 45.833 0.00 0.00 41.55 3.27
2154 2270 3.131755 CGAGGGACTAAACTTATCCGGTT 59.868 47.826 0.00 0.00 41.55 4.44
2155 2271 2.692041 CGAGGGACTAAACTTATCCGGT 59.308 50.000 0.00 0.00 41.55 5.28
2156 2272 2.692041 ACGAGGGACTAAACTTATCCGG 59.308 50.000 0.00 0.00 41.55 5.14
2157 2273 4.261363 GGTACGAGGGACTAAACTTATCCG 60.261 50.000 0.00 0.00 41.55 4.18
2158 2274 4.646492 TGGTACGAGGGACTAAACTTATCC 59.354 45.833 0.00 0.00 41.55 2.59
2159 2275 5.735638 GCTGGTACGAGGGACTAAACTTATC 60.736 48.000 7.03 0.00 41.55 1.75
2160 2276 4.099113 GCTGGTACGAGGGACTAAACTTAT 59.901 45.833 7.03 0.00 41.55 1.73
2161 2277 3.445096 GCTGGTACGAGGGACTAAACTTA 59.555 47.826 7.03 0.00 41.55 2.24
2162 2278 2.233186 GCTGGTACGAGGGACTAAACTT 59.767 50.000 7.03 0.00 41.55 2.66
2163 2279 1.823610 GCTGGTACGAGGGACTAAACT 59.176 52.381 7.03 0.00 41.55 2.66
2164 2280 1.823610 AGCTGGTACGAGGGACTAAAC 59.176 52.381 7.03 0.00 41.55 2.01
2165 2281 2.226962 AGCTGGTACGAGGGACTAAA 57.773 50.000 7.03 0.00 41.55 1.85
2166 2282 1.822990 CAAGCTGGTACGAGGGACTAA 59.177 52.381 7.03 0.00 41.55 2.24
2167 2283 1.471119 CAAGCTGGTACGAGGGACTA 58.529 55.000 7.03 0.00 41.55 2.59
2168 2284 1.258445 CCAAGCTGGTACGAGGGACT 61.258 60.000 7.03 0.00 34.52 3.85
2169 2285 1.218316 CCAAGCTGGTACGAGGGAC 59.782 63.158 7.03 0.00 31.35 4.46
2170 2286 0.325296 ATCCAAGCTGGTACGAGGGA 60.325 55.000 7.03 5.52 39.03 4.20
2171 2287 0.179073 CATCCAAGCTGGTACGAGGG 60.179 60.000 7.03 0.00 39.03 4.30
2172 2288 0.179073 CCATCCAAGCTGGTACGAGG 60.179 60.000 7.03 0.00 39.03 4.63
2173 2289 0.537188 ACCATCCAAGCTGGTACGAG 59.463 55.000 0.00 0.00 45.17 4.18
2174 2290 0.981183 AACCATCCAAGCTGGTACGA 59.019 50.000 0.00 0.00 46.29 3.43
2175 2291 1.737793 GAAACCATCCAAGCTGGTACG 59.262 52.381 0.00 0.00 46.29 3.67
2176 2292 3.073274 AGAAACCATCCAAGCTGGTAC 57.927 47.619 0.00 0.00 46.29 3.34
2177 2293 3.420893 CAAGAAACCATCCAAGCTGGTA 58.579 45.455 0.00 0.00 46.29 3.25
2179 2295 1.067354 GCAAGAAACCATCCAAGCTGG 60.067 52.381 0.00 0.00 39.43 4.85
2180 2296 1.891150 AGCAAGAAACCATCCAAGCTG 59.109 47.619 0.00 0.00 31.27 4.24
2181 2297 1.891150 CAGCAAGAAACCATCCAAGCT 59.109 47.619 0.00 0.00 32.22 3.74
2182 2298 1.888512 TCAGCAAGAAACCATCCAAGC 59.111 47.619 0.00 0.00 0.00 4.01
2183 2299 2.095567 CGTCAGCAAGAAACCATCCAAG 60.096 50.000 0.00 0.00 0.00 3.61
2184 2300 1.879380 CGTCAGCAAGAAACCATCCAA 59.121 47.619 0.00 0.00 0.00 3.53
2185 2301 1.202758 ACGTCAGCAAGAAACCATCCA 60.203 47.619 0.00 0.00 0.00 3.41
2186 2302 1.197721 CACGTCAGCAAGAAACCATCC 59.802 52.381 0.00 0.00 0.00 3.51
2187 2303 1.197721 CCACGTCAGCAAGAAACCATC 59.802 52.381 0.00 0.00 0.00 3.51
2188 2304 1.202758 TCCACGTCAGCAAGAAACCAT 60.203 47.619 0.00 0.00 0.00 3.55
2189 2305 0.179234 TCCACGTCAGCAAGAAACCA 59.821 50.000 0.00 0.00 0.00 3.67
2190 2306 0.868406 CTCCACGTCAGCAAGAAACC 59.132 55.000 0.00 0.00 0.00 3.27
2191 2307 1.261619 CACTCCACGTCAGCAAGAAAC 59.738 52.381 0.00 0.00 0.00 2.78
2192 2308 1.581934 CACTCCACGTCAGCAAGAAA 58.418 50.000 0.00 0.00 0.00 2.52
2193 2309 0.249868 CCACTCCACGTCAGCAAGAA 60.250 55.000 0.00 0.00 0.00 2.52
2194 2310 1.367471 CCACTCCACGTCAGCAAGA 59.633 57.895 0.00 0.00 0.00 3.02
2195 2311 0.532862 AACCACTCCACGTCAGCAAG 60.533 55.000 0.00 0.00 0.00 4.01
2196 2312 0.107410 AAACCACTCCACGTCAGCAA 60.107 50.000 0.00 0.00 0.00 3.91
2197 2313 0.107410 AAAACCACTCCACGTCAGCA 60.107 50.000 0.00 0.00 0.00 4.41
2198 2314 1.021968 AAAAACCACTCCACGTCAGC 58.978 50.000 0.00 0.00 0.00 4.26
2199 2315 2.031683 GTCAAAAACCACTCCACGTCAG 59.968 50.000 0.00 0.00 0.00 3.51
2200 2316 2.011222 GTCAAAAACCACTCCACGTCA 58.989 47.619 0.00 0.00 0.00 4.35
2201 2317 2.285977 AGTCAAAAACCACTCCACGTC 58.714 47.619 0.00 0.00 0.00 4.34
2202 2318 2.285977 GAGTCAAAAACCACTCCACGT 58.714 47.619 0.00 0.00 34.09 4.49
2203 2319 1.260561 CGAGTCAAAAACCACTCCACG 59.739 52.381 0.00 0.00 36.44 4.94
2204 2320 2.287103 GTCGAGTCAAAAACCACTCCAC 59.713 50.000 0.00 0.00 36.44 4.02
2205 2321 2.169769 AGTCGAGTCAAAAACCACTCCA 59.830 45.455 0.00 0.00 36.44 3.86
2206 2322 2.801111 GAGTCGAGTCAAAAACCACTCC 59.199 50.000 15.47 0.00 36.44 3.85
2207 2323 2.471743 CGAGTCGAGTCAAAAACCACTC 59.528 50.000 19.87 2.03 36.45 3.51
2208 2324 2.100252 TCGAGTCGAGTCAAAAACCACT 59.900 45.455 19.87 0.00 0.00 4.00
2209 2325 2.466846 TCGAGTCGAGTCAAAAACCAC 58.533 47.619 19.87 0.00 0.00 4.16
2210 2326 2.875087 TCGAGTCGAGTCAAAAACCA 57.125 45.000 19.87 0.00 0.00 3.67
2221 2337 1.269723 ACATTTGTCAGCTCGAGTCGA 59.730 47.619 15.64 15.64 0.00 4.20
2222 2338 1.388093 CACATTTGTCAGCTCGAGTCG 59.612 52.381 15.13 6.09 0.00 4.18
2223 2339 1.728971 CCACATTTGTCAGCTCGAGTC 59.271 52.381 15.13 6.52 0.00 3.36
2224 2340 1.609061 CCCACATTTGTCAGCTCGAGT 60.609 52.381 15.13 0.00 0.00 4.18
2225 2341 1.081892 CCCACATTTGTCAGCTCGAG 58.918 55.000 8.45 8.45 0.00 4.04
2226 2342 0.321564 CCCCACATTTGTCAGCTCGA 60.322 55.000 0.00 0.00 0.00 4.04
2227 2343 0.321564 TCCCCACATTTGTCAGCTCG 60.322 55.000 0.00 0.00 0.00 5.03
2228 2344 1.168714 GTCCCCACATTTGTCAGCTC 58.831 55.000 0.00 0.00 0.00 4.09
2229 2345 0.251341 GGTCCCCACATTTGTCAGCT 60.251 55.000 0.00 0.00 0.00 4.24
2230 2346 0.539438 TGGTCCCCACATTTGTCAGC 60.539 55.000 0.00 0.00 0.00 4.26
2231 2347 3.743714 TGGTCCCCACATTTGTCAG 57.256 52.632 0.00 0.00 0.00 3.51
2241 2357 2.923035 CAGTTGTGGTGGTCCCCA 59.077 61.111 0.00 0.00 0.00 4.96
2242 2358 2.597510 GCAGTTGTGGTGGTCCCC 60.598 66.667 0.00 0.00 0.00 4.81
2243 2359 2.597510 GGCAGTTGTGGTGGTCCC 60.598 66.667 0.00 0.00 0.00 4.46
2244 2360 2.597510 GGGCAGTTGTGGTGGTCC 60.598 66.667 0.00 0.00 0.00 4.46
2245 2361 1.898574 CTGGGCAGTTGTGGTGGTC 60.899 63.158 0.00 0.00 0.00 4.02
2246 2362 2.195683 CTGGGCAGTTGTGGTGGT 59.804 61.111 0.00 0.00 0.00 4.16
2247 2363 2.195683 ACTGGGCAGTTGTGGTGG 59.804 61.111 0.00 0.00 38.83 4.61


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

AutoCloner maintained by Alex Coulton.