Multiple sequence alignment - TraesCS7D01G209300

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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 TraesCS7D01G209300 chr7D 100.000 2342 0 0 1 2342 167532987 167530646 0.000000e+00 4325.0
1 TraesCS7D01G209300 chr7D 91.176 374 16 5 1789 2161 167531010 167530653 2.090000e-135 492.0
2 TraesCS7D01G209300 chr7D 91.176 374 16 5 1978 2335 167531199 167530827 2.090000e-135 492.0
3 TraesCS7D01G209300 chr7D 82.578 287 41 7 1060 1343 167551142 167550862 6.460000e-61 244.0
4 TraesCS7D01G209300 chr7D 86.957 184 9 3 1789 1972 167530821 167530653 2.380000e-45 193.0
5 TraesCS7D01G209300 chr7D 86.957 184 9 3 2167 2335 167531199 167531016 2.380000e-45 193.0
6 TraesCS7D01G209300 chr7A 90.699 1344 65 23 823 2161 169026474 169025186 0.000000e+00 1735.0
7 TraesCS7D01G209300 chr7A 84.512 820 76 30 48 830 169027308 169026503 0.000000e+00 763.0
8 TraesCS7D01G209300 chr7A 90.710 366 11 11 1978 2342 169025522 169025179 1.270000e-127 466.0
9 TraesCS7D01G209300 chr7A 81.765 170 22 9 2167 2335 169025522 169025361 1.460000e-27 134.0
10 TraesCS7D01G209300 chr7B 90.695 849 42 12 947 1789 131947813 131946996 0.000000e+00 1096.0
11 TraesCS7D01G209300 chr7B 86.490 681 50 19 320 961 131948512 131947835 0.000000e+00 710.0
12 TraesCS7D01G209300 chr7B 94.495 327 15 3 2017 2342 131946997 131946673 3.470000e-138 501.0
13 TraesCS7D01G209300 chr7B 91.018 334 14 7 1828 2161 131946997 131946680 9.940000e-119 436.0
14 TraesCS7D01G209300 chr7B 81.185 287 45 7 1060 1343 131956882 131956602 3.030000e-54 222.0
15 TraesCS7D01G209300 chr7B 84.783 184 12 5 1789 1972 131946847 131946680 1.110000e-38 171.0
16 TraesCS7D01G209300 chr1A 85.088 114 11 5 491 601 392049402 392049292 6.840000e-21 111.0
17 TraesCS7D01G209300 chr2A 97.500 40 1 0 435 474 410871095 410871056 4.180000e-08 69.4


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 TraesCS7D01G209300 chr7D 167530646 167532987 2341 True 1139.0 4325 91.2532 1 2342 5 chr7D.!!$R2 2341
1 TraesCS7D01G209300 chr7A 169025179 169027308 2129 True 774.5 1735 86.9215 48 2342 4 chr7A.!!$R1 2294
2 TraesCS7D01G209300 chr7B 131946673 131948512 1839 True 582.8 1096 89.4962 320 2342 5 chr7B.!!$R2 2022

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
970 1081 1.227764 ACGTCTCTATCGCCGCCTA 60.228 57.895 0.0 0.0 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 2268 0.179045 AGTTGCCAAGTTGAGCGAGT 60.179 50.0 3.87 6.29 0.0 4.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
136 137 8.084073 TGTTAGCGTAGTATAGAAAAGTGTTGT 58.916 33.333 0.00 0.00 0.00 3.32
140 141 6.518736 GCGTAGTATAGAAAAGTGTTGTTTGC 59.481 38.462 0.00 0.00 0.00 3.68
188 190 8.947055 AAAATGTTCACATGCTTAAAAAGAGT 57.053 26.923 0.00 0.00 36.56 3.24
191 193 9.630098 AATGTTCACATGCTTAAAAAGAGTATG 57.370 29.630 0.00 0.00 41.28 2.39
192 194 8.165239 TGTTCACATGCTTAAAAAGAGTATGT 57.835 30.769 0.00 2.64 46.71 2.29
279 281 7.922505 TCAAATCATTGAAAAACGTAGGTTG 57.077 32.000 0.79 0.00 42.47 3.77
309 311 6.595772 AAAAATACACATGCGCTTCAAAAA 57.404 29.167 9.73 0.00 0.00 1.94
317 319 4.558470 ACATGCGCTTCAAAAATATGTTCG 59.442 37.500 9.73 0.00 0.00 3.95
323 325 6.407181 GCGCTTCAAAAATATGTTCGTACTAC 59.593 38.462 0.00 0.00 0.00 2.73
443 449 8.854614 AGCACATATTAAGAAATACTCCATCC 57.145 34.615 0.00 0.00 30.42 3.51
461 467 5.046591 TCCATCCGTCTCAAAATGTAAGACT 60.047 40.000 0.00 0.00 37.79 3.24
601 610 6.183360 TGCTACAATGTGTGCTGAAAAAGTAA 60.183 34.615 12.65 0.00 0.00 2.24
602 611 6.360681 GCTACAATGTGTGCTGAAAAAGTAAG 59.639 38.462 0.00 0.00 0.00 2.34
604 613 6.035843 ACAATGTGTGCTGAAAAAGTAAGTG 58.964 36.000 0.00 0.00 0.00 3.16
606 615 6.935741 ATGTGTGCTGAAAAAGTAAGTGTA 57.064 33.333 0.00 0.00 0.00 2.90
611 620 9.543018 GTGTGCTGAAAAAGTAAGTGTATATTC 57.457 33.333 0.00 0.00 0.00 1.75
715 751 4.270245 TGAAAAATGTTCAGGCATTCCC 57.730 40.909 0.00 0.00 38.03 3.97
724 761 3.959535 TCAGGCATTCCCAAAATGTTC 57.040 42.857 0.30 0.00 35.39 3.18
853 927 4.797471 TGCTTCCGATCAAATGTCAAAAG 58.203 39.130 0.00 0.00 0.00 2.27
857 931 5.119931 TCCGATCAAATGTCAAAAGTTGG 57.880 39.130 0.00 0.00 0.00 3.77
970 1081 1.227764 ACGTCTCTATCGCCGCCTA 60.228 57.895 0.00 0.00 0.00 3.93
1039 1151 2.756283 CCGCCTCGTCTCCTTCCT 60.756 66.667 0.00 0.00 0.00 3.36
1232 1344 1.135139 CAAGGTCGACGAGATGGTCAT 59.865 52.381 9.92 0.00 36.73 3.06
1343 1455 2.593346 ATCAAGCTCACCGTCTGATC 57.407 50.000 0.00 0.00 0.00 2.92
1417 1530 2.002586 CTCAACTGCCGATGGTTAGTG 58.997 52.381 0.00 0.00 0.00 2.74
1445 1559 6.183361 ACCAACCTAATTCCATATCTGACCTC 60.183 42.308 0.00 0.00 0.00 3.85
1446 1560 6.043706 CCAACCTAATTCCATATCTGACCTCT 59.956 42.308 0.00 0.00 0.00 3.69
1447 1561 7.420680 CCAACCTAATTCCATATCTGACCTCTT 60.421 40.741 0.00 0.00 0.00 2.85
1448 1562 7.072263 ACCTAATTCCATATCTGACCTCTTG 57.928 40.000 0.00 0.00 0.00 3.02
1449 1563 6.617371 ACCTAATTCCATATCTGACCTCTTGT 59.383 38.462 0.00 0.00 0.00 3.16
1450 1564 7.127955 ACCTAATTCCATATCTGACCTCTTGTT 59.872 37.037 0.00 0.00 0.00 2.83
1451 1565 7.659390 CCTAATTCCATATCTGACCTCTTGTTC 59.341 40.741 0.00 0.00 0.00 3.18
1452 1566 6.821616 ATTCCATATCTGACCTCTTGTTCT 57.178 37.500 0.00 0.00 0.00 3.01
1515 1629 5.886960 AAGAGAACTATTGTGGTCAATGC 57.113 39.130 4.06 0.00 43.17 3.56
1564 1678 3.996150 CACATGGTGGCAATTAGGATC 57.004 47.619 0.00 0.00 0.00 3.36
1637 1752 8.830580 GTTCTTGAATAATATAGCACTGCTGAA 58.169 33.333 14.15 1.74 40.10 3.02
1650 1766 6.985117 AGCACTGCTGAATTTTGATTTAGAA 58.015 32.000 1.67 0.00 37.57 2.10
1668 1784 9.832445 GATTTAGAACTATGGTACCAAGATCAA 57.168 33.333 20.76 12.24 0.00 2.57
1677 1793 6.007936 TGGTACCAAGATCAAATTGTTTCG 57.992 37.500 13.60 0.00 0.00 3.46
1693 1809 5.506686 TGTTTCGGTCATTGACAAATTCA 57.493 34.783 18.09 8.63 33.68 2.57
1694 1810 5.277825 TGTTTCGGTCATTGACAAATTCAC 58.722 37.500 18.09 7.42 32.26 3.18
1695 1811 3.804518 TCGGTCATTGACAAATTCACG 57.195 42.857 18.09 10.36 32.26 4.35
1700 1816 5.163903 CGGTCATTGACAAATTCACGACATA 60.164 40.000 18.09 0.00 38.12 2.29
1740 1857 1.792949 CCAATAACCGCGATCAGCTAC 59.207 52.381 8.23 0.00 45.59 3.58
1747 1864 1.334689 CCGCGATCAGCTACGAACATA 60.335 52.381 8.23 0.00 45.59 2.29
1835 1952 7.072202 ACATTTCTCTGTTCCTGATCTCCATAT 59.928 37.037 0.00 0.00 0.00 1.78
1882 1999 1.411977 CCTCCATCTTCGCAGATCTGT 59.588 52.381 23.38 0.00 37.71 3.41
1926 2043 1.233019 CAGTGCCTGCATATAGCCAC 58.767 55.000 0.00 0.00 44.83 5.01
2005 2122 8.754080 ACTTGCTAGTGAACTAGATACATTTCT 58.246 33.333 19.39 0.00 46.80 2.52
2006 2123 9.243637 CTTGCTAGTGAACTAGATACATTTCTC 57.756 37.037 19.39 0.86 46.80 2.87
2007 2124 8.526667 TGCTAGTGAACTAGATACATTTCTCT 57.473 34.615 19.39 0.00 46.80 3.10
2008 2125 8.409371 TGCTAGTGAACTAGATACATTTCTCTG 58.591 37.037 19.39 0.00 46.80 3.35
2009 2126 8.410141 GCTAGTGAACTAGATACATTTCTCTGT 58.590 37.037 19.39 0.00 46.80 3.41
2012 2129 8.254508 AGTGAACTAGATACATTTCTCTGTTCC 58.745 37.037 0.00 8.03 37.89 3.62
2013 2130 8.254508 GTGAACTAGATACATTTCTCTGTTCCT 58.745 37.037 0.00 0.00 37.89 3.36
2014 2131 8.253810 TGAACTAGATACATTTCTCTGTTCCTG 58.746 37.037 0.00 0.00 37.89 3.86
2015 2132 7.962995 ACTAGATACATTTCTCTGTTCCTGA 57.037 36.000 0.00 0.00 0.00 3.86
2016 2133 8.546083 ACTAGATACATTTCTCTGTTCCTGAT 57.454 34.615 0.00 0.00 0.00 2.90
2017 2134 8.637986 ACTAGATACATTTCTCTGTTCCTGATC 58.362 37.037 0.00 0.00 0.00 2.92
2018 2135 7.673641 AGATACATTTCTCTGTTCCTGATCT 57.326 36.000 0.00 0.00 0.00 2.75
2019 2136 7.725251 AGATACATTTCTCTGTTCCTGATCTC 58.275 38.462 0.00 0.00 0.00 2.75
2020 2137 5.096443 ACATTTCTCTGTTCCTGATCTCC 57.904 43.478 0.00 0.00 0.00 3.71
2021 2138 4.533707 ACATTTCTCTGTTCCTGATCTCCA 59.466 41.667 0.00 0.00 0.00 3.86
2022 2139 5.191323 ACATTTCTCTGTTCCTGATCTCCAT 59.809 40.000 0.00 0.00 0.00 3.41
2023 2140 6.385176 ACATTTCTCTGTTCCTGATCTCCATA 59.615 38.462 0.00 0.00 0.00 2.74
2024 2141 5.860941 TTCTCTGTTCCTGATCTCCATAC 57.139 43.478 0.00 0.00 0.00 2.39
2025 2142 3.885901 TCTCTGTTCCTGATCTCCATACG 59.114 47.826 0.00 0.00 0.00 3.06
2026 2143 3.885901 CTCTGTTCCTGATCTCCATACGA 59.114 47.826 0.00 0.00 0.00 3.43
2027 2144 4.278310 TCTGTTCCTGATCTCCATACGAA 58.722 43.478 0.00 0.00 0.00 3.85
2028 2145 4.098044 TCTGTTCCTGATCTCCATACGAAC 59.902 45.833 0.00 0.00 0.00 3.95
2029 2146 3.132289 TGTTCCTGATCTCCATACGAACC 59.868 47.826 0.00 0.00 30.44 3.62
2030 2147 3.314307 TCCTGATCTCCATACGAACCT 57.686 47.619 0.00 0.00 0.00 3.50
2031 2148 3.643237 TCCTGATCTCCATACGAACCTT 58.357 45.455 0.00 0.00 0.00 3.50
2032 2149 3.384789 TCCTGATCTCCATACGAACCTTG 59.615 47.826 0.00 0.00 0.00 3.61
2033 2150 3.384789 CCTGATCTCCATACGAACCTTGA 59.615 47.826 0.00 0.00 0.00 3.02
2034 2151 4.141937 CCTGATCTCCATACGAACCTTGAA 60.142 45.833 0.00 0.00 0.00 2.69
2035 2152 5.453903 CCTGATCTCCATACGAACCTTGAAT 60.454 44.000 0.00 0.00 0.00 2.57
2036 2153 5.359756 TGATCTCCATACGAACCTTGAATG 58.640 41.667 0.00 0.00 0.00 2.67
2037 2154 5.128663 TGATCTCCATACGAACCTTGAATGA 59.871 40.000 0.00 0.00 0.00 2.57
2038 2155 4.755411 TCTCCATACGAACCTTGAATGAC 58.245 43.478 0.00 0.00 0.00 3.06
2039 2156 4.466370 TCTCCATACGAACCTTGAATGACT 59.534 41.667 0.00 0.00 0.00 3.41
2040 2157 5.046591 TCTCCATACGAACCTTGAATGACTT 60.047 40.000 0.00 0.00 0.00 3.01
2041 2158 6.153851 TCTCCATACGAACCTTGAATGACTTA 59.846 38.462 0.00 0.00 0.00 2.24
2042 2159 6.703319 TCCATACGAACCTTGAATGACTTAA 58.297 36.000 0.00 0.00 0.00 1.85
2043 2160 7.335627 TCCATACGAACCTTGAATGACTTAAT 58.664 34.615 0.00 0.00 0.00 1.40
2044 2161 8.479689 TCCATACGAACCTTGAATGACTTAATA 58.520 33.333 0.00 0.00 0.00 0.98
2045 2162 8.548721 CCATACGAACCTTGAATGACTTAATAC 58.451 37.037 0.00 0.00 0.00 1.89
2046 2163 9.093970 CATACGAACCTTGAATGACTTAATACA 57.906 33.333 0.00 0.00 0.00 2.29
2047 2164 9.832445 ATACGAACCTTGAATGACTTAATACAT 57.168 29.630 0.00 0.00 0.00 2.29
2048 2165 8.561738 ACGAACCTTGAATGACTTAATACATT 57.438 30.769 6.88 6.88 39.06 2.71
2049 2166 8.665685 ACGAACCTTGAATGACTTAATACATTC 58.334 33.333 19.13 19.13 46.92 2.67
2057 2174 8.682936 GAATGACTTAATACATTCACCTCCAT 57.317 34.615 20.17 0.00 46.38 3.41
2058 2175 8.682936 AATGACTTAATACATTCACCTCCATC 57.317 34.615 0.00 0.00 32.26 3.51
2059 2176 7.437713 TGACTTAATACATTCACCTCCATCT 57.562 36.000 0.00 0.00 0.00 2.90
2060 2177 7.861629 TGACTTAATACATTCACCTCCATCTT 58.138 34.615 0.00 0.00 0.00 2.40
2061 2178 8.328758 TGACTTAATACATTCACCTCCATCTTT 58.671 33.333 0.00 0.00 0.00 2.52
2062 2179 8.511604 ACTTAATACATTCACCTCCATCTTTG 57.488 34.615 0.00 0.00 0.00 2.77
2063 2180 5.841957 AATACATTCACCTCCATCTTTGC 57.158 39.130 0.00 0.00 0.00 3.68
2064 2181 3.159213 ACATTCACCTCCATCTTTGCA 57.841 42.857 0.00 0.00 0.00 4.08
2065 2182 3.087031 ACATTCACCTCCATCTTTGCAG 58.913 45.455 0.00 0.00 0.00 4.41
2066 2183 3.245016 ACATTCACCTCCATCTTTGCAGA 60.245 43.478 0.00 0.00 0.00 4.26
2067 2184 3.726557 TTCACCTCCATCTTTGCAGAT 57.273 42.857 0.00 0.00 40.79 2.90
2068 2185 3.272574 TCACCTCCATCTTTGCAGATC 57.727 47.619 0.00 0.00 37.71 2.75
2069 2186 2.842496 TCACCTCCATCTTTGCAGATCT 59.158 45.455 0.00 0.00 37.71 2.75
2070 2187 2.943690 CACCTCCATCTTTGCAGATCTG 59.056 50.000 18.84 18.84 37.71 2.90
2071 2188 2.575279 ACCTCCATCTTTGCAGATCTGT 59.425 45.455 23.38 0.00 37.71 3.41
2072 2189 3.204526 CCTCCATCTTTGCAGATCTGTC 58.795 50.000 23.38 15.78 37.71 3.51
2073 2190 3.118334 CCTCCATCTTTGCAGATCTGTCT 60.118 47.826 23.38 0.45 37.71 3.41
2074 2191 4.100653 CCTCCATCTTTGCAGATCTGTCTA 59.899 45.833 23.38 10.28 37.71 2.59
2075 2192 5.016051 TCCATCTTTGCAGATCTGTCTAC 57.984 43.478 23.38 7.78 37.71 2.59
2076 2193 4.125703 CCATCTTTGCAGATCTGTCTACC 58.874 47.826 23.38 7.41 37.71 3.18
2077 2194 4.141756 CCATCTTTGCAGATCTGTCTACCT 60.142 45.833 23.38 3.18 37.71 3.08
2078 2195 5.426504 CATCTTTGCAGATCTGTCTACCTT 58.573 41.667 23.38 1.91 37.71 3.50
2079 2196 5.078411 TCTTTGCAGATCTGTCTACCTTC 57.922 43.478 23.38 5.27 32.09 3.46
2080 2197 4.774726 TCTTTGCAGATCTGTCTACCTTCT 59.225 41.667 23.38 0.00 32.09 2.85
2081 2198 5.247110 TCTTTGCAGATCTGTCTACCTTCTT 59.753 40.000 23.38 0.00 32.09 2.52
2082 2199 4.727507 TGCAGATCTGTCTACCTTCTTC 57.272 45.455 23.38 3.35 32.09 2.87
2083 2200 4.348486 TGCAGATCTGTCTACCTTCTTCT 58.652 43.478 23.38 0.00 32.09 2.85
2084 2201 5.510430 TGCAGATCTGTCTACCTTCTTCTA 58.490 41.667 23.38 0.00 32.09 2.10
2085 2202 5.592282 TGCAGATCTGTCTACCTTCTTCTAG 59.408 44.000 23.38 0.00 32.09 2.43
2086 2203 5.507315 GCAGATCTGTCTACCTTCTTCTAGC 60.507 48.000 23.38 0.00 32.09 3.42
2087 2204 5.827797 CAGATCTGTCTACCTTCTTCTAGCT 59.172 44.000 14.95 0.00 32.09 3.32
2088 2205 6.995686 CAGATCTGTCTACCTTCTTCTAGCTA 59.004 42.308 14.95 0.00 32.09 3.32
2089 2206 7.173218 CAGATCTGTCTACCTTCTTCTAGCTAG 59.827 44.444 15.01 15.01 32.09 3.42
2090 2207 5.127491 TCTGTCTACCTTCTTCTAGCTAGC 58.873 45.833 16.35 6.62 0.00 3.42
2091 2208 5.104277 TCTGTCTACCTTCTTCTAGCTAGCT 60.104 44.000 23.12 23.12 0.00 3.32
2092 2209 6.099990 TCTGTCTACCTTCTTCTAGCTAGCTA 59.900 42.308 22.85 22.85 0.00 3.32
2093 2210 6.292923 TGTCTACCTTCTTCTAGCTAGCTAG 58.707 44.000 36.20 36.20 45.38 3.42
2094 2211 5.704053 GTCTACCTTCTTCTAGCTAGCTAGG 59.296 48.000 38.82 30.71 44.45 3.02
2095 2212 3.227614 ACCTTCTTCTAGCTAGCTAGGC 58.772 50.000 38.82 13.91 44.45 3.93
2096 2213 2.560981 CCTTCTTCTAGCTAGCTAGGCC 59.439 54.545 38.82 6.58 44.45 5.19
2097 2214 3.226777 CTTCTTCTAGCTAGCTAGGCCA 58.773 50.000 38.82 26.23 44.45 5.36
2098 2215 2.870175 TCTTCTAGCTAGCTAGGCCAG 58.130 52.381 38.82 31.52 44.45 4.85
2099 2216 2.175931 TCTTCTAGCTAGCTAGGCCAGT 59.824 50.000 38.82 12.32 44.45 4.00
2100 2217 1.988293 TCTAGCTAGCTAGGCCAGTG 58.012 55.000 38.82 21.04 44.45 3.66
2101 2218 0.316841 CTAGCTAGCTAGGCCAGTGC 59.683 60.000 34.95 5.96 41.58 4.40
2112 2229 2.251600 GCCAGTGCCTGCATATAGC 58.748 57.895 0.00 0.00 45.96 2.97
2113 2230 1.239968 GCCAGTGCCTGCATATAGCC 61.240 60.000 0.00 0.00 44.83 3.93
2114 2231 0.109153 CCAGTGCCTGCATATAGCCA 59.891 55.000 0.00 0.00 44.83 4.75
2115 2232 1.271762 CCAGTGCCTGCATATAGCCAT 60.272 52.381 0.00 0.00 44.83 4.40
2116 2233 2.026915 CCAGTGCCTGCATATAGCCATA 60.027 50.000 0.00 0.00 44.83 2.74
2117 2234 3.371273 CCAGTGCCTGCATATAGCCATAT 60.371 47.826 0.00 0.00 44.83 1.78
2118 2235 4.141642 CCAGTGCCTGCATATAGCCATATA 60.142 45.833 0.00 0.00 44.83 0.86
2119 2236 4.813161 CAGTGCCTGCATATAGCCATATAC 59.187 45.833 0.00 0.00 44.83 1.47
2120 2237 4.718774 AGTGCCTGCATATAGCCATATACT 59.281 41.667 0.00 0.00 44.83 2.12
2121 2238 4.813161 GTGCCTGCATATAGCCATATACTG 59.187 45.833 0.00 0.00 44.83 2.74
2122 2239 4.716287 TGCCTGCATATAGCCATATACTGA 59.284 41.667 0.00 0.00 44.83 3.41
2123 2240 5.367644 TGCCTGCATATAGCCATATACTGAT 59.632 40.000 0.00 0.00 44.83 2.90
2124 2241 6.554605 TGCCTGCATATAGCCATATACTGATA 59.445 38.462 0.00 0.00 44.83 2.15
2125 2242 7.236225 TGCCTGCATATAGCCATATACTGATAT 59.764 37.037 0.00 0.00 44.83 1.63
2126 2243 8.753133 GCCTGCATATAGCCATATACTGATATA 58.247 37.037 0.00 0.00 44.83 0.86
2135 2252 8.601047 AGCCATATACTGATATACATCACACT 57.399 34.615 0.00 0.00 36.22 3.55
2136 2253 9.700831 AGCCATATACTGATATACATCACACTA 57.299 33.333 0.00 0.00 36.22 2.74
2137 2254 9.737427 GCCATATACTGATATACATCACACTAC 57.263 37.037 0.00 0.00 36.22 2.73
2142 2259 7.953158 ACTGATATACATCACACTACATTGC 57.047 36.000 0.00 0.00 36.22 3.56
2143 2260 7.500141 ACTGATATACATCACACTACATTGCA 58.500 34.615 0.00 0.00 36.22 4.08
2144 2261 8.152898 ACTGATATACATCACACTACATTGCAT 58.847 33.333 0.00 0.00 36.22 3.96
2145 2262 9.643693 CTGATATACATCACACTACATTGCATA 57.356 33.333 0.00 0.00 36.22 3.14
2146 2263 9.643693 TGATATACATCACACTACATTGCATAG 57.356 33.333 0.00 0.00 36.22 2.23
2147 2264 9.645059 GATATACATCACACTACATTGCATAGT 57.355 33.333 0.00 0.00 32.98 2.12
2155 2272 6.261033 CACTACATTGCATAGTGTTACTCG 57.739 41.667 15.03 0.00 43.03 4.18
2156 2273 4.804139 ACTACATTGCATAGTGTTACTCGC 59.196 41.667 5.40 0.00 31.54 5.03
2157 2274 3.861840 ACATTGCATAGTGTTACTCGCT 58.138 40.909 0.00 0.00 40.30 4.93
2158 2275 3.865745 ACATTGCATAGTGTTACTCGCTC 59.134 43.478 0.00 0.00 38.01 5.03
2159 2276 3.586100 TTGCATAGTGTTACTCGCTCA 57.414 42.857 0.00 0.00 38.01 4.26
2160 2277 3.586100 TGCATAGTGTTACTCGCTCAA 57.414 42.857 0.00 0.00 38.01 3.02
2161 2278 3.250744 TGCATAGTGTTACTCGCTCAAC 58.749 45.455 0.00 0.00 38.01 3.18
2162 2279 3.056821 TGCATAGTGTTACTCGCTCAACT 60.057 43.478 0.00 0.00 38.01 3.16
2163 2280 3.927142 GCATAGTGTTACTCGCTCAACTT 59.073 43.478 0.00 0.00 38.01 2.66
2164 2281 4.201628 GCATAGTGTTACTCGCTCAACTTG 60.202 45.833 0.00 0.00 38.01 3.16
2165 2282 2.755650 AGTGTTACTCGCTCAACTTGG 58.244 47.619 0.00 0.00 30.20 3.61
2166 2283 1.194772 GTGTTACTCGCTCAACTTGGC 59.805 52.381 0.00 0.00 0.00 4.52
2167 2284 1.202592 TGTTACTCGCTCAACTTGGCA 60.203 47.619 0.00 0.00 0.00 4.92
2168 2285 1.871039 GTTACTCGCTCAACTTGGCAA 59.129 47.619 0.00 0.00 0.00 4.52
2169 2286 1.508632 TACTCGCTCAACTTGGCAAC 58.491 50.000 0.00 0.00 0.00 4.17
2170 2287 0.179045 ACTCGCTCAACTTGGCAACT 60.179 50.000 0.00 0.00 37.61 3.16
2171 2288 0.947244 CTCGCTCAACTTGGCAACTT 59.053 50.000 0.00 0.00 37.61 2.66
2172 2289 0.662619 TCGCTCAACTTGGCAACTTG 59.337 50.000 11.85 11.85 37.61 3.16
2173 2290 0.936297 CGCTCAACTTGGCAACTTGC 60.936 55.000 12.90 5.08 44.08 4.01
2174 2291 0.386838 GCTCAACTTGGCAACTTGCT 59.613 50.000 13.43 0.00 44.28 3.91
2175 2292 1.608590 GCTCAACTTGGCAACTTGCTA 59.391 47.619 13.43 4.61 44.28 3.49
2176 2293 2.351157 GCTCAACTTGGCAACTTGCTAG 60.351 50.000 13.43 12.70 44.28 3.42
2177 2294 2.880890 CTCAACTTGGCAACTTGCTAGT 59.119 45.455 13.43 13.26 44.28 2.57
2178 2295 2.618241 TCAACTTGGCAACTTGCTAGTG 59.382 45.455 13.43 7.29 44.28 2.74
2179 2296 2.618241 CAACTTGGCAACTTGCTAGTGA 59.382 45.455 13.43 0.00 44.28 3.41
2180 2297 2.930950 ACTTGGCAACTTGCTAGTGAA 58.069 42.857 13.43 0.00 44.28 3.18
2181 2298 2.618709 ACTTGGCAACTTGCTAGTGAAC 59.381 45.455 13.43 0.00 44.28 3.18
2182 2299 2.638480 TGGCAACTTGCTAGTGAACT 57.362 45.000 13.43 0.00 44.28 3.01
2183 2300 3.762407 TGGCAACTTGCTAGTGAACTA 57.238 42.857 13.43 0.00 44.28 2.24
2184 2301 3.664107 TGGCAACTTGCTAGTGAACTAG 58.336 45.455 13.43 12.30 44.28 2.57
2185 2302 3.323691 TGGCAACTTGCTAGTGAACTAGA 59.676 43.478 19.39 4.16 44.28 2.43
2186 2303 4.020218 TGGCAACTTGCTAGTGAACTAGAT 60.020 41.667 19.39 1.07 44.28 1.98
2187 2304 5.186992 TGGCAACTTGCTAGTGAACTAGATA 59.813 40.000 19.39 6.30 44.28 1.98
2188 2305 5.520649 GGCAACTTGCTAGTGAACTAGATAC 59.479 44.000 19.39 4.58 46.80 2.24
2189 2306 6.100004 GCAACTTGCTAGTGAACTAGATACA 58.900 40.000 19.39 6.87 46.80 2.29
2190 2307 6.758886 GCAACTTGCTAGTGAACTAGATACAT 59.241 38.462 19.39 1.77 46.80 2.29
2191 2308 7.278868 GCAACTTGCTAGTGAACTAGATACATT 59.721 37.037 19.39 5.49 46.80 2.71
2192 2309 9.155975 CAACTTGCTAGTGAACTAGATACATTT 57.844 33.333 19.39 3.59 46.80 2.32
2193 2310 8.934507 ACTTGCTAGTGAACTAGATACATTTC 57.065 34.615 19.39 2.09 46.80 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
95 96 6.747659 ACGCTAACATGTTTTTCAATTCAC 57.252 33.333 17.78 0.00 0.00 3.18
260 262 4.336993 ACTGCAACCTACGTTTTTCAATGA 59.663 37.500 0.00 0.00 0.00 2.57
293 295 5.497439 CGAACATATTTTTGAAGCGCATGTG 60.497 40.000 11.47 0.66 0.00 3.21
294 296 4.558470 CGAACATATTTTTGAAGCGCATGT 59.442 37.500 11.47 4.04 0.00 3.21
396 399 7.865385 GTGCTAAACATTTTTCAGATACACCAA 59.135 33.333 0.00 0.00 0.00 3.67
417 422 9.944376 GGATGGAGTATTTCTTAATATGTGCTA 57.056 33.333 0.00 0.00 0.00 3.49
430 435 6.316390 ACATTTTGAGACGGATGGAGTATTTC 59.684 38.462 0.00 0.00 0.00 2.17
436 442 5.292101 GTCTTACATTTTGAGACGGATGGAG 59.708 44.000 0.00 0.00 31.54 3.86
644 678 8.735315 TGGTACGAAACATTATTTTGATCATGT 58.265 29.630 0.00 0.00 0.00 3.21
665 699 7.966111 TGTCACGTACATTTTATGAATGGTAC 58.034 34.615 0.00 0.00 31.43 3.34
792 830 9.890915 ATATCTCTTAGATCACCCTAAAGAACT 57.109 33.333 0.00 0.00 36.20 3.01
853 927 2.484770 GCTTTGGGAAAAGGGTTCCAAC 60.485 50.000 7.39 0.00 38.78 3.77
857 931 3.838244 AAAGCTTTGGGAAAAGGGTTC 57.162 42.857 11.80 0.00 0.00 3.62
883 957 5.062433 GCCTCTAAAGTCGAAGTAGCTTTTC 59.938 44.000 0.00 0.00 34.69 2.29
884 958 4.930405 GCCTCTAAAGTCGAAGTAGCTTTT 59.070 41.667 0.00 0.00 34.69 2.27
993 1105 4.408821 GAGGTGGCCATGGCGTCA 62.409 66.667 29.90 20.37 43.06 4.35
1032 1144 0.903454 GAGGTTGGTCGGAGGAAGGA 60.903 60.000 0.00 0.00 0.00 3.36
1070 1182 4.265056 GGCCCTTGACCACCACGT 62.265 66.667 0.00 0.00 0.00 4.49
1359 1472 2.885113 CTGGCTGTGGTCGATCGA 59.115 61.111 15.15 15.15 0.00 3.59
1417 1530 4.520492 CAGATATGGAATTAGGTTGGTGGC 59.480 45.833 0.00 0.00 0.00 5.01
1515 1629 2.593775 CGAATAAAGCCATTGTTGTGCG 59.406 45.455 0.00 0.00 0.00 5.34
1564 1678 3.251729 CACAGTCTTGGACATGACCTTTG 59.748 47.826 15.29 8.54 36.49 2.77
1640 1755 9.832445 GATCTTGGTACCATAGTTCTAAATCAA 57.168 33.333 17.17 0.00 0.00 2.57
1646 1762 9.613428 CAATTTGATCTTGGTACCATAGTTCTA 57.387 33.333 17.17 13.27 0.00 2.10
1650 1766 8.650143 AAACAATTTGATCTTGGTACCATAGT 57.350 30.769 17.17 4.14 0.00 2.12
1658 1774 4.582656 TGACCGAAACAATTTGATCTTGGT 59.417 37.500 2.79 6.15 0.00 3.67
1668 1784 6.983307 TGAATTTGTCAATGACCGAAACAATT 59.017 30.769 11.24 5.86 31.51 2.32
1677 1793 4.481930 TGTCGTGAATTTGTCAATGACC 57.518 40.909 11.24 0.00 40.63 4.02
1693 1809 8.106247 AGTGTTTGATGGTAAATTTATGTCGT 57.894 30.769 0.31 0.00 0.00 4.34
1694 1810 8.964420 AAGTGTTTGATGGTAAATTTATGTCG 57.036 30.769 0.31 0.00 0.00 4.35
1695 1811 9.353999 GGAAGTGTTTGATGGTAAATTTATGTC 57.646 33.333 0.31 1.58 0.00 3.06
1706 1822 4.217550 CGGTTATTGGAAGTGTTTGATGGT 59.782 41.667 0.00 0.00 0.00 3.55
1740 1857 4.030306 GTGTAACTCTGCTCGTTATGTTCG 59.970 45.833 0.00 0.00 0.00 3.95
1747 1864 2.987149 CGAATGTGTAACTCTGCTCGTT 59.013 45.455 0.00 0.00 38.04 3.85
1794 1911 9.469097 ACAGAGAAATGTATCTAGTTCACTAGT 57.531 33.333 12.71 0.00 44.74 2.57
1822 1939 8.790718 CATTCAAAGGTTTATATGGAGATCAGG 58.209 37.037 0.00 0.00 0.00 3.86
1882 1999 5.746656 GCCTAGCTAGCTAGAAGAAGGTAGA 60.747 48.000 40.98 13.18 46.04 2.59
2005 2122 3.898482 TCGTATGGAGATCAGGAACAGA 58.102 45.455 0.00 0.00 0.00 3.41
2006 2123 4.363999 GTTCGTATGGAGATCAGGAACAG 58.636 47.826 9.45 0.00 35.70 3.16
2007 2124 3.132289 GGTTCGTATGGAGATCAGGAACA 59.868 47.826 13.99 0.00 36.53 3.18
2008 2125 3.385111 AGGTTCGTATGGAGATCAGGAAC 59.615 47.826 0.00 1.44 35.29 3.62
2009 2126 3.643237 AGGTTCGTATGGAGATCAGGAA 58.357 45.455 0.00 0.00 0.00 3.36
2010 2127 3.314307 AGGTTCGTATGGAGATCAGGA 57.686 47.619 0.00 0.00 0.00 3.86
2011 2128 3.384789 TCAAGGTTCGTATGGAGATCAGG 59.615 47.826 0.00 0.00 0.00 3.86
2012 2129 4.655762 TCAAGGTTCGTATGGAGATCAG 57.344 45.455 0.00 0.00 0.00 2.90
2013 2130 5.128663 TCATTCAAGGTTCGTATGGAGATCA 59.871 40.000 0.00 0.00 0.00 2.92
2014 2131 5.463724 GTCATTCAAGGTTCGTATGGAGATC 59.536 44.000 0.00 0.00 0.00 2.75
2015 2132 5.129485 AGTCATTCAAGGTTCGTATGGAGAT 59.871 40.000 0.00 0.00 0.00 2.75
2016 2133 4.466370 AGTCATTCAAGGTTCGTATGGAGA 59.534 41.667 0.00 0.00 0.00 3.71
2017 2134 4.759782 AGTCATTCAAGGTTCGTATGGAG 58.240 43.478 0.00 0.00 0.00 3.86
2018 2135 4.819105 AGTCATTCAAGGTTCGTATGGA 57.181 40.909 0.00 0.00 0.00 3.41
2019 2136 6.978343 TTAAGTCATTCAAGGTTCGTATGG 57.022 37.500 0.00 0.00 0.00 2.74
2020 2137 9.093970 TGTATTAAGTCATTCAAGGTTCGTATG 57.906 33.333 0.00 0.00 0.00 2.39
2021 2138 9.832445 ATGTATTAAGTCATTCAAGGTTCGTAT 57.168 29.630 0.00 0.00 0.00 3.06
2022 2139 9.661563 AATGTATTAAGTCATTCAAGGTTCGTA 57.338 29.630 3.15 0.00 29.74 3.43
2023 2140 8.561738 AATGTATTAAGTCATTCAAGGTTCGT 57.438 30.769 3.15 0.00 29.74 3.85
2032 2149 8.682936 ATGGAGGTGAATGTATTAAGTCATTC 57.317 34.615 19.62 19.62 45.59 2.67
2033 2150 8.497745 AGATGGAGGTGAATGTATTAAGTCATT 58.502 33.333 7.36 7.36 37.04 2.57
2034 2151 8.038862 AGATGGAGGTGAATGTATTAAGTCAT 57.961 34.615 0.00 0.00 0.00 3.06
2035 2152 7.437713 AGATGGAGGTGAATGTATTAAGTCA 57.562 36.000 0.00 0.00 0.00 3.41
2036 2153 8.616076 CAAAGATGGAGGTGAATGTATTAAGTC 58.384 37.037 0.00 0.00 0.00 3.01
2037 2154 7.067494 GCAAAGATGGAGGTGAATGTATTAAGT 59.933 37.037 0.00 0.00 0.00 2.24
2038 2155 7.067372 TGCAAAGATGGAGGTGAATGTATTAAG 59.933 37.037 0.00 0.00 0.00 1.85
2039 2156 6.889177 TGCAAAGATGGAGGTGAATGTATTAA 59.111 34.615 0.00 0.00 0.00 1.40
2040 2157 6.422333 TGCAAAGATGGAGGTGAATGTATTA 58.578 36.000 0.00 0.00 0.00 0.98
2041 2158 5.263599 TGCAAAGATGGAGGTGAATGTATT 58.736 37.500 0.00 0.00 0.00 1.89
2042 2159 4.858850 TGCAAAGATGGAGGTGAATGTAT 58.141 39.130 0.00 0.00 0.00 2.29
2043 2160 4.019411 TCTGCAAAGATGGAGGTGAATGTA 60.019 41.667 0.00 0.00 44.47 2.29
2044 2161 3.087031 CTGCAAAGATGGAGGTGAATGT 58.913 45.455 0.00 0.00 40.99 2.71
2045 2162 3.349927 TCTGCAAAGATGGAGGTGAATG 58.650 45.455 0.00 0.00 44.47 2.67
2046 2163 3.726557 TCTGCAAAGATGGAGGTGAAT 57.273 42.857 0.00 0.00 44.47 2.57
2047 2164 3.265221 AGATCTGCAAAGATGGAGGTGAA 59.735 43.478 0.00 0.00 44.47 3.18
2048 2165 2.842496 AGATCTGCAAAGATGGAGGTGA 59.158 45.455 0.00 0.00 44.47 4.02
2049 2166 2.943690 CAGATCTGCAAAGATGGAGGTG 59.056 50.000 10.38 0.00 44.47 4.00
2050 2167 2.575279 ACAGATCTGCAAAGATGGAGGT 59.425 45.455 22.83 0.00 44.47 3.85
2051 2168 3.118334 AGACAGATCTGCAAAGATGGAGG 60.118 47.826 22.83 0.00 44.47 4.30
2052 2169 4.139859 AGACAGATCTGCAAAGATGGAG 57.860 45.455 22.83 0.00 45.62 3.86
2053 2170 4.141846 GGTAGACAGATCTGCAAAGATGGA 60.142 45.833 22.83 0.00 39.21 3.41
2054 2171 4.125703 GGTAGACAGATCTGCAAAGATGG 58.874 47.826 22.83 0.00 39.21 3.51
2055 2172 5.021033 AGGTAGACAGATCTGCAAAGATG 57.979 43.478 22.83 0.00 39.21 2.90
2056 2173 5.424895 AGAAGGTAGACAGATCTGCAAAGAT 59.575 40.000 22.83 1.35 39.21 2.40
2057 2174 4.774726 AGAAGGTAGACAGATCTGCAAAGA 59.225 41.667 22.83 1.03 39.21 2.52
2058 2175 5.083533 AGAAGGTAGACAGATCTGCAAAG 57.916 43.478 22.83 0.00 39.21 2.77
2059 2176 5.247110 AGAAGAAGGTAGACAGATCTGCAAA 59.753 40.000 22.83 5.02 39.21 3.68
2060 2177 4.774726 AGAAGAAGGTAGACAGATCTGCAA 59.225 41.667 22.83 5.40 39.21 4.08
2061 2178 4.348486 AGAAGAAGGTAGACAGATCTGCA 58.652 43.478 22.83 5.40 39.21 4.41
2062 2179 5.507315 GCTAGAAGAAGGTAGACAGATCTGC 60.507 48.000 22.83 14.86 36.29 4.26
2063 2180 5.827797 AGCTAGAAGAAGGTAGACAGATCTG 59.172 44.000 21.37 21.37 36.29 2.90
2064 2181 6.013554 AGCTAGAAGAAGGTAGACAGATCT 57.986 41.667 0.00 0.00 39.15 2.75
2065 2182 6.072673 GCTAGCTAGAAGAAGGTAGACAGATC 60.073 46.154 25.15 0.00 46.04 2.75
2066 2183 5.768164 GCTAGCTAGAAGAAGGTAGACAGAT 59.232 44.000 25.15 0.00 46.04 2.90
2067 2184 5.104277 AGCTAGCTAGAAGAAGGTAGACAGA 60.104 44.000 25.15 0.00 46.04 3.41
2068 2185 5.130350 AGCTAGCTAGAAGAAGGTAGACAG 58.870 45.833 25.15 0.00 46.04 3.51
2069 2186 5.118729 AGCTAGCTAGAAGAAGGTAGACA 57.881 43.478 25.15 0.00 46.04 3.41
2070 2187 5.704053 CCTAGCTAGCTAGAAGAAGGTAGAC 59.296 48.000 40.98 1.80 46.04 2.59
2071 2188 5.746656 GCCTAGCTAGCTAGAAGAAGGTAGA 60.747 48.000 40.98 13.18 46.04 2.59
2072 2189 4.457949 GCCTAGCTAGCTAGAAGAAGGTAG 59.542 50.000 40.98 26.01 46.56 3.18
2073 2190 4.400120 GCCTAGCTAGCTAGAAGAAGGTA 58.600 47.826 40.98 13.87 46.56 3.08
2074 2191 3.227614 GCCTAGCTAGCTAGAAGAAGGT 58.772 50.000 40.98 11.67 46.56 3.50
2075 2192 2.560981 GGCCTAGCTAGCTAGAAGAAGG 59.439 54.545 40.98 30.85 46.56 3.46
2076 2193 3.226777 TGGCCTAGCTAGCTAGAAGAAG 58.773 50.000 40.98 28.35 46.56 2.85
2077 2194 3.226777 CTGGCCTAGCTAGCTAGAAGAA 58.773 50.000 40.98 25.80 46.56 2.52
2078 2195 2.175931 ACTGGCCTAGCTAGCTAGAAGA 59.824 50.000 40.98 26.12 46.56 2.87
2079 2196 2.295909 CACTGGCCTAGCTAGCTAGAAG 59.704 54.545 40.98 34.05 46.56 2.85
2080 2197 2.311463 CACTGGCCTAGCTAGCTAGAA 58.689 52.381 40.98 27.76 46.56 2.10
2081 2198 1.988293 CACTGGCCTAGCTAGCTAGA 58.012 55.000 40.98 25.98 46.56 2.43
2082 2199 0.316841 GCACTGGCCTAGCTAGCTAG 59.683 60.000 35.39 35.39 40.85 3.42
2083 2200 2.431023 GCACTGGCCTAGCTAGCTA 58.569 57.895 22.85 22.85 40.85 3.32
2084 2201 3.225235 GCACTGGCCTAGCTAGCT 58.775 61.111 23.12 23.12 40.85 3.32
2100 2217 5.282055 TCAGTATATGGCTATATGCAGGC 57.718 43.478 17.95 0.00 45.15 4.85
2109 2226 9.700831 AGTGTGATGTATATCAGTATATGGCTA 57.299 33.333 1.89 0.00 43.66 3.93
2110 2227 8.601047 AGTGTGATGTATATCAGTATATGGCT 57.399 34.615 1.89 0.00 43.66 4.75
2111 2228 9.737427 GTAGTGTGATGTATATCAGTATATGGC 57.263 37.037 1.89 0.00 43.66 4.40
2116 2233 9.645059 GCAATGTAGTGTGATGTATATCAGTAT 57.355 33.333 1.89 0.00 43.66 2.12
2117 2234 8.637986 TGCAATGTAGTGTGATGTATATCAGTA 58.362 33.333 1.89 0.00 43.66 2.74
2118 2235 7.500141 TGCAATGTAGTGTGATGTATATCAGT 58.500 34.615 1.89 0.00 43.66 3.41
2119 2236 7.951530 TGCAATGTAGTGTGATGTATATCAG 57.048 36.000 1.89 0.00 43.66 2.90
2120 2237 9.643693 CTATGCAATGTAGTGTGATGTATATCA 57.356 33.333 0.00 0.00 40.92 2.15
2121 2238 9.645059 ACTATGCAATGTAGTGTGATGTATATC 57.355 33.333 0.00 0.00 31.47 1.63
2122 2239 9.428097 CACTATGCAATGTAGTGTGATGTATAT 57.572 33.333 15.03 0.00 42.47 0.86
2123 2240 8.816640 CACTATGCAATGTAGTGTGATGTATA 57.183 34.615 15.03 0.00 42.47 1.47
2124 2241 7.719778 CACTATGCAATGTAGTGTGATGTAT 57.280 36.000 15.03 0.00 42.47 2.29
2133 2250 4.804139 GCGAGTAACACTATGCAATGTAGT 59.196 41.667 0.00 0.00 32.04 2.73
2134 2251 5.043903 AGCGAGTAACACTATGCAATGTAG 58.956 41.667 0.00 0.00 33.58 2.74
2135 2252 5.006153 AGCGAGTAACACTATGCAATGTA 57.994 39.130 0.00 0.00 33.58 2.29
2136 2253 3.861840 AGCGAGTAACACTATGCAATGT 58.138 40.909 0.00 0.00 33.58 2.71
2137 2254 3.865164 TGAGCGAGTAACACTATGCAATG 59.135 43.478 0.00 0.00 33.58 2.82
2138 2255 4.123497 TGAGCGAGTAACACTATGCAAT 57.877 40.909 0.00 0.00 33.58 3.56
2139 2256 3.586100 TGAGCGAGTAACACTATGCAA 57.414 42.857 0.00 0.00 33.58 4.08
2140 2257 3.056821 AGTTGAGCGAGTAACACTATGCA 60.057 43.478 0.00 0.00 33.58 3.96
2141 2258 3.512680 AGTTGAGCGAGTAACACTATGC 58.487 45.455 0.00 0.00 31.92 3.14
2142 2259 4.327357 CCAAGTTGAGCGAGTAACACTATG 59.673 45.833 3.87 0.00 0.00 2.23
2143 2260 4.495422 CCAAGTTGAGCGAGTAACACTAT 58.505 43.478 3.87 0.00 0.00 2.12
2144 2261 3.859627 GCCAAGTTGAGCGAGTAACACTA 60.860 47.826 3.87 0.00 0.00 2.74
2145 2262 2.755650 CCAAGTTGAGCGAGTAACACT 58.244 47.619 3.87 0.00 0.00 3.55
2146 2263 1.194772 GCCAAGTTGAGCGAGTAACAC 59.805 52.381 3.87 0.00 0.00 3.32
2147 2264 1.202592 TGCCAAGTTGAGCGAGTAACA 60.203 47.619 3.87 0.00 0.00 2.41
2148 2265 1.508632 TGCCAAGTTGAGCGAGTAAC 58.491 50.000 3.87 0.00 0.00 2.50
2149 2266 1.871039 GTTGCCAAGTTGAGCGAGTAA 59.129 47.619 3.87 0.00 0.00 2.24
2150 2267 1.070134 AGTTGCCAAGTTGAGCGAGTA 59.930 47.619 3.87 0.00 0.00 2.59
2151 2268 0.179045 AGTTGCCAAGTTGAGCGAGT 60.179 50.000 3.87 6.29 0.00 4.18
2152 2269 0.947244 AAGTTGCCAAGTTGAGCGAG 59.053 50.000 3.87 0.00 0.00 5.03
2153 2270 0.662619 CAAGTTGCCAAGTTGAGCGA 59.337 50.000 18.14 3.36 43.02 4.93
2154 2271 0.936297 GCAAGTTGCCAAGTTGAGCG 60.936 55.000 25.32 2.85 43.02 5.03
2155 2272 0.386838 AGCAAGTTGCCAAGTTGAGC 59.613 50.000 25.32 12.97 46.52 4.26
2156 2273 2.880890 ACTAGCAAGTTGCCAAGTTGAG 59.119 45.455 25.32 17.36 46.52 3.02
2157 2274 2.618241 CACTAGCAAGTTGCCAAGTTGA 59.382 45.455 25.32 7.55 46.52 3.18
2158 2275 2.618241 TCACTAGCAAGTTGCCAAGTTG 59.382 45.455 24.02 18.56 46.52 3.16
2159 2276 2.930950 TCACTAGCAAGTTGCCAAGTT 58.069 42.857 24.02 7.99 46.52 2.66
2160 2277 2.618709 GTTCACTAGCAAGTTGCCAAGT 59.381 45.455 24.02 22.69 46.52 3.16
2161 2278 2.880890 AGTTCACTAGCAAGTTGCCAAG 59.119 45.455 24.02 22.07 46.52 3.61
2162 2279 2.930950 AGTTCACTAGCAAGTTGCCAA 58.069 42.857 24.02 11.92 46.52 4.52
2163 2280 2.638480 AGTTCACTAGCAAGTTGCCA 57.362 45.000 24.02 10.25 46.52 4.92
2164 2281 3.926616 TCTAGTTCACTAGCAAGTTGCC 58.073 45.455 24.02 7.05 46.52 4.52
2165 2282 6.100004 TGTATCTAGTTCACTAGCAAGTTGC 58.900 40.000 20.44 20.44 44.24 4.17
2166 2283 8.709386 AATGTATCTAGTTCACTAGCAAGTTG 57.291 34.615 8.88 0.00 44.24 3.16
2167 2284 9.372369 GAAATGTATCTAGTTCACTAGCAAGTT 57.628 33.333 8.88 1.33 44.24 2.66
2168 2285 8.754080 AGAAATGTATCTAGTTCACTAGCAAGT 58.246 33.333 8.88 0.00 44.24 3.16
2169 2286 9.243637 GAGAAATGTATCTAGTTCACTAGCAAG 57.756 37.037 8.88 0.00 44.24 4.01
2170 2287 8.972127 AGAGAAATGTATCTAGTTCACTAGCAA 58.028 33.333 8.88 0.00 44.24 3.91
2171 2288 8.409371 CAGAGAAATGTATCTAGTTCACTAGCA 58.591 37.037 8.88 2.90 44.24 3.49
2172 2289 8.410141 ACAGAGAAATGTATCTAGTTCACTAGC 58.590 37.037 8.88 0.00 44.24 3.42
2175 2292 8.254508 GGAACAGAGAAATGTATCTAGTTCACT 58.745 37.037 17.23 0.00 41.54 3.41
2176 2293 8.254508 AGGAACAGAGAAATGTATCTAGTTCAC 58.745 37.037 17.23 10.79 41.54 3.18
2177 2294 8.253810 CAGGAACAGAGAAATGTATCTAGTTCA 58.746 37.037 17.23 0.00 41.54 3.18
2178 2295 8.470805 TCAGGAACAGAGAAATGTATCTAGTTC 58.529 37.037 11.39 11.39 40.38 3.01
2179 2296 8.367660 TCAGGAACAGAGAAATGTATCTAGTT 57.632 34.615 0.00 0.00 33.20 2.24
2180 2297 7.962995 TCAGGAACAGAGAAATGTATCTAGT 57.037 36.000 0.00 0.00 31.70 2.57
2181 2298 8.859090 AGATCAGGAACAGAGAAATGTATCTAG 58.141 37.037 0.00 0.00 31.70 2.43
2182 2299 8.774546 AGATCAGGAACAGAGAAATGTATCTA 57.225 34.615 0.00 0.00 31.70 1.98
2183 2300 7.201992 GGAGATCAGGAACAGAGAAATGTATCT 60.202 40.741 0.00 0.00 30.06 1.98
2184 2301 6.928492 GGAGATCAGGAACAGAGAAATGTATC 59.072 42.308 0.00 0.00 31.70 2.24
2185 2302 6.385176 TGGAGATCAGGAACAGAGAAATGTAT 59.615 38.462 0.00 0.00 31.70 2.29
2186 2303 5.721480 TGGAGATCAGGAACAGAGAAATGTA 59.279 40.000 0.00 0.00 31.70 2.29
2187 2304 4.533707 TGGAGATCAGGAACAGAGAAATGT 59.466 41.667 0.00 0.00 33.96 2.71
2188 2305 5.095145 TGGAGATCAGGAACAGAGAAATG 57.905 43.478 0.00 0.00 0.00 2.32
2189 2306 5.972327 ATGGAGATCAGGAACAGAGAAAT 57.028 39.130 0.00 0.00 0.00 2.17
2190 2307 5.721480 TGTATGGAGATCAGGAACAGAGAAA 59.279 40.000 0.00 0.00 0.00 2.52
2191 2308 5.272402 TGTATGGAGATCAGGAACAGAGAA 58.728 41.667 0.00 0.00 0.00 2.87
2192 2309 4.871822 TGTATGGAGATCAGGAACAGAGA 58.128 43.478 0.00 0.00 0.00 3.10
2193 2310 5.604758 TTGTATGGAGATCAGGAACAGAG 57.395 43.478 0.00 0.00 0.00 3.35
2241 2358 4.404073 GGTAGACAGATCTGTGAAGATGGT 59.596 45.833 32.50 4.62 45.05 3.55
2300 2418 5.413969 CACTATGCAATGTAGTGTGATGG 57.586 43.478 15.03 0.00 42.47 3.51


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

AutoCloner maintained by Alex Coulton.