Multiple sequence alignment - TraesCS2D01G046000

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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 TraesCS2D01G046000 chr2D 100.000 2343 0 0 1 2343 16790001 16792343 0.000000e+00 4327
1 TraesCS2D01G046000 chr2D 93.355 602 33 3 1151 1746 152010023 152009423 0.000000e+00 883
2 TraesCS2D01G046000 chr2D 97.506 441 11 0 1 441 408747451 408747011 0.000000e+00 754
3 TraesCS2D01G046000 chr2D 95.779 308 13 0 2036 2343 16840540 16840847 4.500000e-137 497
4 TraesCS2D01G046000 chr2D 95.779 308 13 0 2036 2343 499346422 499346115 4.500000e-137 497
5 TraesCS2D01G046000 chr5A 95.472 2054 71 11 1 2038 697734259 697732212 0.000000e+00 3258
6 TraesCS2D01G046000 chr1A 95.187 2057 79 9 1 2038 448342866 448340811 0.000000e+00 3232
7 TraesCS2D01G046000 chr7A 95.044 2058 81 9 1 2038 32962279 32960223 0.000000e+00 3216
8 TraesCS2D01G046000 chr7A 94.231 2080 76 13 1 2038 115781642 115779565 0.000000e+00 3136
9 TraesCS2D01G046000 chr3B 95.679 1620 60 5 102 1712 242253345 242251727 0.000000e+00 2595
10 TraesCS2D01G046000 chr7B 94.886 1662 71 8 392 2041 193808764 193807105 0.000000e+00 2586
11 TraesCS2D01G046000 chr6B 95.144 1009 40 4 1 1001 144857723 144858730 0.000000e+00 1583
12 TraesCS2D01G046000 chr6B 91.901 568 21 3 1476 2038 144859092 144859639 0.000000e+00 771
13 TraesCS2D01G046000 chr5B 94.867 1013 42 5 1 1004 513724198 513723187 0.000000e+00 1574
14 TraesCS2D01G046000 chr5B 94.653 1010 44 5 1 1001 203056709 203057717 0.000000e+00 1557
15 TraesCS2D01G046000 chr5B 94.507 983 30 4 1060 2038 203057717 203058679 0.000000e+00 1495
16 TraesCS2D01G046000 chr5B 94.332 988 30 5 1060 2041 513723190 513722223 0.000000e+00 1491
17 TraesCS2D01G046000 chr5D 98.178 439 8 0 3 441 494396323 494395885 0.000000e+00 767
18 TraesCS2D01G046000 chr5D 96.941 425 9 3 1621 2041 565215230 565214806 0.000000e+00 710
19 TraesCS2D01G046000 chr5D 96.753 308 10 0 2036 2343 466276144 466275837 4.460000e-142 514
20 TraesCS2D01G046000 chr4D 96.429 308 11 0 2036 2343 285698080 285698387 2.080000e-140 508
21 TraesCS2D01G046000 chr4D 96.117 309 12 0 2035 2343 175802677 175802985 2.690000e-139 505
22 TraesCS2D01G046000 chr4D 95.779 308 13 0 2036 2343 252001447 252001754 4.500000e-137 497
23 TraesCS2D01G046000 chr7D 96.091 307 12 0 2036 2342 90134817 90134511 3.480000e-138 501
24 TraesCS2D01G046000 chr7D 95.779 308 13 0 2036 2343 90111746 90111439 4.500000e-137 497
25 TraesCS2D01G046000 chr1D 95.779 308 13 0 2036 2343 159003292 159003599 4.500000e-137 497


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 TraesCS2D01G046000 chr2D 16790001 16792343 2342 False 4327.0 4327 100.0000 1 2343 1 chr2D.!!$F1 2342
1 TraesCS2D01G046000 chr2D 152009423 152010023 600 True 883.0 883 93.3550 1151 1746 1 chr2D.!!$R1 595
2 TraesCS2D01G046000 chr5A 697732212 697734259 2047 True 3258.0 3258 95.4720 1 2038 1 chr5A.!!$R1 2037
3 TraesCS2D01G046000 chr1A 448340811 448342866 2055 True 3232.0 3232 95.1870 1 2038 1 chr1A.!!$R1 2037
4 TraesCS2D01G046000 chr7A 32960223 32962279 2056 True 3216.0 3216 95.0440 1 2038 1 chr7A.!!$R1 2037
5 TraesCS2D01G046000 chr7A 115779565 115781642 2077 True 3136.0 3136 94.2310 1 2038 1 chr7A.!!$R2 2037
6 TraesCS2D01G046000 chr3B 242251727 242253345 1618 True 2595.0 2595 95.6790 102 1712 1 chr3B.!!$R1 1610
7 TraesCS2D01G046000 chr7B 193807105 193808764 1659 True 2586.0 2586 94.8860 392 2041 1 chr7B.!!$R1 1649
8 TraesCS2D01G046000 chr6B 144857723 144859639 1916 False 1177.0 1583 93.5225 1 2038 2 chr6B.!!$F1 2037
9 TraesCS2D01G046000 chr5B 513722223 513724198 1975 True 1532.5 1574 94.5995 1 2041 2 chr5B.!!$R1 2040
10 TraesCS2D01G046000 chr5B 203056709 203058679 1970 False 1526.0 1557 94.5800 1 2038 2 chr5B.!!$F1 2037

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
921 959 0.467844 AATTGGCCGGCATAGCATCA 60.468 50.0 30.85 12.44 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2260 2320 0.027063 CACCACCGTTGTCGTTGTTC 59.973 55.0 0.0 0.0 35.01 3.18 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
534 567 4.768448 TCCATTACAGTTAACTCTGGACGA 59.232 41.667 16.28 4.14 39.48 4.20
612 645 2.497273 GGTCCAACTGGCAAAAGCATAT 59.503 45.455 0.00 0.00 34.44 1.78
806 842 9.270640 GACATCTTCAATGCAAGACTCTTATAT 57.729 33.333 0.00 0.00 35.18 0.86
885 923 4.371855 AGATCTATTTCAACGCAGACGA 57.628 40.909 0.00 0.00 43.93 4.20
919 957 2.220653 ATAATTGGCCGGCATAGCAT 57.779 45.000 30.85 12.55 0.00 3.79
921 959 0.467844 AATTGGCCGGCATAGCATCA 60.468 50.000 30.85 12.44 0.00 3.07
957 995 3.086282 GCTAGAGATACCTAGGCACTCC 58.914 54.545 19.86 5.27 41.75 3.85
1173 1215 2.358898 GAGTGTTCAAAAGCAGCAGGAA 59.641 45.455 0.00 0.00 0.00 3.36
1488 1538 9.419297 GAGAATATACTGCGTATTGGTCAAATA 57.581 33.333 6.54 0.00 30.79 1.40
1530 1580 9.177608 CATTCTGACCATAACTATTCCAAAAGA 57.822 33.333 0.00 0.00 0.00 2.52
1607 1657 8.651389 TGTCCAAAATCCAAATGGTTATGTTTA 58.349 29.630 0.00 0.00 35.66 2.01
1608 1658 9.495572 GTCCAAAATCCAAATGGTTATGTTTAA 57.504 29.630 0.00 0.00 35.66 1.52
1764 1820 9.959749 ACAACGTTCTAATGTCACAATTTTATT 57.040 25.926 0.00 0.00 0.00 1.40
1955 2015 6.656693 AGGATAGAACAATGTCAGTTTTCCTG 59.343 38.462 0.00 0.00 42.97 3.86
2038 2098 7.913821 CAGTATGTCAATCAGGAAATTCATGTG 59.086 37.037 7.53 0.09 29.15 3.21
2041 2101 4.082081 GTCAATCAGGAAATTCATGTGGCA 60.082 41.667 7.53 0.00 29.15 4.92
2042 2102 4.082081 TCAATCAGGAAATTCATGTGGCAC 60.082 41.667 11.55 11.55 29.15 5.01
2043 2103 2.170166 TCAGGAAATTCATGTGGCACC 58.830 47.619 16.26 0.00 29.15 5.01
2044 2104 1.205417 CAGGAAATTCATGTGGCACCC 59.795 52.381 16.26 6.17 0.00 4.61
2045 2105 0.536724 GGAAATTCATGTGGCACCCC 59.463 55.000 16.26 0.00 0.00 4.95
2046 2106 0.173255 GAAATTCATGTGGCACCCCG 59.827 55.000 16.26 3.32 0.00 5.73
2047 2107 1.257055 AAATTCATGTGGCACCCCGG 61.257 55.000 16.26 0.00 0.00 5.73
2056 2116 3.706373 GCACCCCGGCTCAGAGAA 61.706 66.667 0.00 0.00 0.00 2.87
2057 2117 3.068881 CACCCCGGCTCAGAGAAA 58.931 61.111 0.00 0.00 0.00 2.52
2058 2118 1.376037 CACCCCGGCTCAGAGAAAC 60.376 63.158 0.00 0.00 0.00 2.78
2059 2119 2.269241 CCCCGGCTCAGAGAAACC 59.731 66.667 0.00 0.00 0.00 3.27
2060 2120 2.125512 CCCGGCTCAGAGAAACCG 60.126 66.667 0.00 4.75 45.21 4.44
2062 2122 2.970639 CGGCTCAGAGAAACCGGA 59.029 61.111 9.46 0.00 41.95 5.14
2063 2123 1.292223 CGGCTCAGAGAAACCGGAA 59.708 57.895 9.46 0.00 41.95 4.30
2064 2124 1.014564 CGGCTCAGAGAAACCGGAAC 61.015 60.000 9.46 0.00 41.95 3.62
2077 2137 2.585698 GGAACGCCCCGTATTCCA 59.414 61.111 4.19 0.00 39.99 3.53
2078 2138 1.523032 GGAACGCCCCGTATTCCAG 60.523 63.158 4.19 0.00 39.99 3.86
2079 2139 2.124860 AACGCCCCGTATTCCAGC 60.125 61.111 0.00 0.00 39.99 4.85
2080 2140 3.692370 AACGCCCCGTATTCCAGCC 62.692 63.158 0.00 0.00 39.99 4.85
2081 2141 4.929707 CGCCCCGTATTCCAGCCC 62.930 72.222 0.00 0.00 0.00 5.19
2082 2142 3.804329 GCCCCGTATTCCAGCCCA 61.804 66.667 0.00 0.00 0.00 5.36
2083 2143 2.510906 CCCCGTATTCCAGCCCAG 59.489 66.667 0.00 0.00 0.00 4.45
2084 2144 2.070039 CCCCGTATTCCAGCCCAGA 61.070 63.158 0.00 0.00 0.00 3.86
2085 2145 1.447643 CCCGTATTCCAGCCCAGAG 59.552 63.158 0.00 0.00 0.00 3.35
2086 2146 1.048724 CCCGTATTCCAGCCCAGAGA 61.049 60.000 0.00 0.00 0.00 3.10
2087 2147 1.051812 CCGTATTCCAGCCCAGAGAT 58.948 55.000 0.00 0.00 0.00 2.75
2088 2148 1.001406 CCGTATTCCAGCCCAGAGATC 59.999 57.143 0.00 0.00 0.00 2.75
2089 2149 1.336332 CGTATTCCAGCCCAGAGATCG 60.336 57.143 0.00 0.00 0.00 3.69
2090 2150 1.964223 GTATTCCAGCCCAGAGATCGA 59.036 52.381 0.00 0.00 0.00 3.59
2091 2151 1.047002 ATTCCAGCCCAGAGATCGAG 58.953 55.000 0.00 0.00 0.00 4.04
2092 2152 1.045350 TTCCAGCCCAGAGATCGAGG 61.045 60.000 0.00 0.00 0.00 4.63
2093 2153 1.456518 CCAGCCCAGAGATCGAGGA 60.457 63.158 0.00 0.00 0.00 3.71
2094 2154 1.462731 CCAGCCCAGAGATCGAGGAG 61.463 65.000 0.00 0.00 0.00 3.69
2095 2155 0.467106 CAGCCCAGAGATCGAGGAGA 60.467 60.000 0.00 0.00 0.00 3.71
2096 2156 0.260230 AGCCCAGAGATCGAGGAGAA 59.740 55.000 0.00 0.00 0.00 2.87
2097 2157 0.673437 GCCCAGAGATCGAGGAGAAG 59.327 60.000 0.00 0.00 0.00 2.85
2098 2158 2.026905 GCCCAGAGATCGAGGAGAAGT 61.027 57.143 0.00 0.00 0.00 3.01
2099 2159 1.953686 CCCAGAGATCGAGGAGAAGTC 59.046 57.143 0.00 0.00 0.00 3.01
2100 2160 2.422803 CCCAGAGATCGAGGAGAAGTCT 60.423 54.545 0.00 0.00 0.00 3.24
2101 2161 3.287222 CCAGAGATCGAGGAGAAGTCTT 58.713 50.000 0.00 0.00 0.00 3.01
2102 2162 3.315191 CCAGAGATCGAGGAGAAGTCTTC 59.685 52.174 4.26 4.26 0.00 2.87
2103 2163 4.199310 CAGAGATCGAGGAGAAGTCTTCT 58.801 47.826 15.14 15.14 44.21 2.85
2104 2164 4.035558 CAGAGATCGAGGAGAAGTCTTCTG 59.964 50.000 19.95 5.64 40.87 3.02
2105 2165 3.287222 AGATCGAGGAGAAGTCTTCTGG 58.713 50.000 19.95 6.53 40.87 3.86
2106 2166 2.881111 TCGAGGAGAAGTCTTCTGGA 57.119 50.000 19.95 8.61 40.87 3.86
2107 2167 3.156288 TCGAGGAGAAGTCTTCTGGAA 57.844 47.619 19.95 0.00 40.87 3.53
2108 2168 3.702792 TCGAGGAGAAGTCTTCTGGAAT 58.297 45.455 19.95 2.81 40.87 3.01
2109 2169 4.856509 TCGAGGAGAAGTCTTCTGGAATA 58.143 43.478 19.95 0.14 40.87 1.75
2110 2170 4.641094 TCGAGGAGAAGTCTTCTGGAATAC 59.359 45.833 19.95 4.17 40.87 1.89
2111 2171 4.496673 CGAGGAGAAGTCTTCTGGAATACG 60.497 50.000 19.95 11.75 40.87 3.06
2112 2172 3.702045 AGGAGAAGTCTTCTGGAATACGG 59.298 47.826 19.95 0.00 40.87 4.02
2113 2173 3.449632 GAGAAGTCTTCTGGAATACGGC 58.550 50.000 19.95 0.00 40.87 5.68
2114 2174 2.832129 AGAAGTCTTCTGGAATACGGCA 59.168 45.455 14.48 0.00 38.91 5.69
2115 2175 2.674796 AGTCTTCTGGAATACGGCAC 57.325 50.000 0.00 0.00 0.00 5.01
2116 2176 2.180276 AGTCTTCTGGAATACGGCACT 58.820 47.619 0.00 0.00 0.00 4.40
2117 2177 2.093973 AGTCTTCTGGAATACGGCACTG 60.094 50.000 0.00 0.00 0.00 3.66
2118 2178 1.009829 CTTCTGGAATACGGCACTGC 58.990 55.000 0.00 0.00 0.00 4.40
2119 2179 0.613260 TTCTGGAATACGGCACTGCT 59.387 50.000 0.00 0.00 0.00 4.24
2120 2180 0.613260 TCTGGAATACGGCACTGCTT 59.387 50.000 0.00 0.00 0.00 3.91
2121 2181 1.828595 TCTGGAATACGGCACTGCTTA 59.171 47.619 0.00 0.00 0.00 3.09
2122 2182 2.159099 TCTGGAATACGGCACTGCTTAG 60.159 50.000 0.00 0.00 0.00 2.18
2123 2183 0.938008 GGAATACGGCACTGCTTAGC 59.062 55.000 0.00 0.00 0.00 3.09
2124 2184 1.651987 GAATACGGCACTGCTTAGCA 58.348 50.000 6.76 6.76 36.92 3.49
2125 2185 2.213499 GAATACGGCACTGCTTAGCAT 58.787 47.619 7.58 0.00 38.13 3.79
2126 2186 3.390135 GAATACGGCACTGCTTAGCATA 58.610 45.455 7.58 0.00 38.13 3.14
2127 2187 2.509052 TACGGCACTGCTTAGCATAG 57.491 50.000 7.58 4.45 38.13 2.23
2128 2188 0.824109 ACGGCACTGCTTAGCATAGA 59.176 50.000 7.58 0.00 38.13 1.98
2129 2189 1.207089 ACGGCACTGCTTAGCATAGAA 59.793 47.619 7.58 0.00 38.13 2.10
2130 2190 1.594862 CGGCACTGCTTAGCATAGAAC 59.405 52.381 7.58 0.00 38.13 3.01
2131 2191 2.632377 GGCACTGCTTAGCATAGAACA 58.368 47.619 7.58 0.00 38.13 3.18
2132 2192 3.009723 GGCACTGCTTAGCATAGAACAA 58.990 45.455 7.58 0.00 38.13 2.83
2133 2193 3.440173 GGCACTGCTTAGCATAGAACAAA 59.560 43.478 7.58 0.00 38.13 2.83
2134 2194 4.096984 GGCACTGCTTAGCATAGAACAAAT 59.903 41.667 7.58 0.00 38.13 2.32
2135 2195 5.269313 GCACTGCTTAGCATAGAACAAATC 58.731 41.667 7.58 0.00 38.13 2.17
2136 2196 5.163723 GCACTGCTTAGCATAGAACAAATCA 60.164 40.000 7.58 0.00 38.13 2.57
2137 2197 6.484540 CACTGCTTAGCATAGAACAAATCAG 58.515 40.000 7.58 0.00 38.13 2.90
2138 2198 5.065731 ACTGCTTAGCATAGAACAAATCAGC 59.934 40.000 7.58 0.00 38.13 4.26
2139 2199 5.188434 TGCTTAGCATAGAACAAATCAGCT 58.812 37.500 1.39 0.00 36.98 4.24
2140 2200 5.295292 TGCTTAGCATAGAACAAATCAGCTC 59.705 40.000 1.39 0.00 35.47 4.09
2141 2201 5.526846 GCTTAGCATAGAACAAATCAGCTCT 59.473 40.000 0.00 0.00 35.47 4.09
2142 2202 6.038050 GCTTAGCATAGAACAAATCAGCTCTT 59.962 38.462 0.00 0.00 35.47 2.85
2143 2203 7.414984 GCTTAGCATAGAACAAATCAGCTCTTT 60.415 37.037 0.00 0.00 35.47 2.52
2144 2204 9.102757 CTTAGCATAGAACAAATCAGCTCTTTA 57.897 33.333 0.00 0.00 35.47 1.85
2145 2205 9.618890 TTAGCATAGAACAAATCAGCTCTTTAT 57.381 29.630 0.00 0.00 35.47 1.40
2146 2206 8.517062 AGCATAGAACAAATCAGCTCTTTATT 57.483 30.769 0.00 0.00 30.28 1.40
2147 2207 8.404000 AGCATAGAACAAATCAGCTCTTTATTG 58.596 33.333 0.00 0.00 30.28 1.90
2148 2208 7.167136 GCATAGAACAAATCAGCTCTTTATTGC 59.833 37.037 0.00 0.00 0.00 3.56
2149 2209 5.634896 AGAACAAATCAGCTCTTTATTGCG 58.365 37.500 0.00 0.00 0.00 4.85
2150 2210 5.412594 AGAACAAATCAGCTCTTTATTGCGA 59.587 36.000 0.00 0.00 0.00 5.10
2151 2211 5.824904 ACAAATCAGCTCTTTATTGCGAT 57.175 34.783 0.00 0.00 0.00 4.58
2152 2212 5.814783 ACAAATCAGCTCTTTATTGCGATC 58.185 37.500 0.00 0.00 0.00 3.69
2153 2213 5.587844 ACAAATCAGCTCTTTATTGCGATCT 59.412 36.000 0.00 0.00 0.00 2.75
2154 2214 6.763135 ACAAATCAGCTCTTTATTGCGATCTA 59.237 34.615 0.00 0.00 0.00 1.98
2155 2215 7.443575 ACAAATCAGCTCTTTATTGCGATCTAT 59.556 33.333 0.00 0.00 0.00 1.98
2156 2216 7.976135 AATCAGCTCTTTATTGCGATCTATT 57.024 32.000 0.00 0.00 0.00 1.73
2157 2217 6.775939 TCAGCTCTTTATTGCGATCTATTG 57.224 37.500 0.00 0.00 0.00 1.90
2158 2218 5.698089 TCAGCTCTTTATTGCGATCTATTGG 59.302 40.000 0.00 0.00 0.00 3.16
2159 2219 4.999950 AGCTCTTTATTGCGATCTATTGGG 59.000 41.667 0.00 0.00 0.00 4.12
2160 2220 4.154918 GCTCTTTATTGCGATCTATTGGGG 59.845 45.833 0.00 0.00 0.00 4.96
2161 2221 5.304686 TCTTTATTGCGATCTATTGGGGT 57.695 39.130 0.00 0.00 0.00 4.95
2162 2222 6.428083 TCTTTATTGCGATCTATTGGGGTA 57.572 37.500 0.00 0.00 0.00 3.69
2163 2223 6.228258 TCTTTATTGCGATCTATTGGGGTAC 58.772 40.000 0.00 0.00 0.00 3.34
2164 2224 5.554437 TTATTGCGATCTATTGGGGTACA 57.446 39.130 0.00 0.00 0.00 2.90
2165 2225 3.916359 TTGCGATCTATTGGGGTACAA 57.084 42.857 0.00 0.00 44.54 2.41
2166 2226 3.469008 TGCGATCTATTGGGGTACAAG 57.531 47.619 0.00 0.00 43.48 3.16
2167 2227 2.104111 TGCGATCTATTGGGGTACAAGG 59.896 50.000 0.00 0.00 43.48 3.61
2168 2228 2.550208 GCGATCTATTGGGGTACAAGGG 60.550 54.545 0.00 0.00 43.48 3.95
2169 2229 2.038557 CGATCTATTGGGGTACAAGGGG 59.961 54.545 0.00 0.00 43.48 4.79
2170 2230 2.974285 TCTATTGGGGTACAAGGGGA 57.026 50.000 0.00 0.00 43.48 4.81
2171 2231 3.448277 TCTATTGGGGTACAAGGGGAT 57.552 47.619 0.00 0.00 43.48 3.85
2172 2232 3.754976 TCTATTGGGGTACAAGGGGATT 58.245 45.455 0.00 0.00 43.48 3.01
2173 2233 4.910515 TCTATTGGGGTACAAGGGGATTA 58.089 43.478 0.00 0.00 43.48 1.75
2174 2234 3.965470 ATTGGGGTACAAGGGGATTAC 57.035 47.619 0.00 0.00 43.48 1.89
2175 2235 2.362797 TGGGGTACAAGGGGATTACA 57.637 50.000 0.00 0.00 0.00 2.41
2176 2236 2.866515 TGGGGTACAAGGGGATTACAT 58.133 47.619 0.00 0.00 0.00 2.29
2177 2237 2.781174 TGGGGTACAAGGGGATTACATC 59.219 50.000 0.00 0.00 0.00 3.06
2178 2238 2.224450 GGGGTACAAGGGGATTACATCG 60.224 54.545 0.00 0.00 0.00 3.84
2179 2239 2.224450 GGGTACAAGGGGATTACATCGG 60.224 54.545 0.00 0.00 0.00 4.18
2180 2240 2.490991 GTACAAGGGGATTACATCGGC 58.509 52.381 0.00 0.00 0.00 5.54
2181 2241 0.916086 ACAAGGGGATTACATCGGCA 59.084 50.000 0.00 0.00 0.00 5.69
2182 2242 1.308998 CAAGGGGATTACATCGGCAC 58.691 55.000 0.00 0.00 0.00 5.01
2207 2267 3.118454 CTACGCCTGCCACGGTTG 61.118 66.667 0.00 0.00 34.00 3.77
2212 2272 2.662596 CCTGCCACGGTTGCTCTA 59.337 61.111 5.76 0.00 0.00 2.43
2213 2273 1.448540 CCTGCCACGGTTGCTCTAG 60.449 63.158 5.76 0.00 0.00 2.43
2214 2274 1.448540 CTGCCACGGTTGCTCTAGG 60.449 63.158 5.76 0.00 0.00 3.02
2215 2275 2.820037 GCCACGGTTGCTCTAGGC 60.820 66.667 0.00 0.00 42.22 3.93
2232 2292 2.877396 GCAAGCAGCAGAACAACAC 58.123 52.632 0.00 0.00 44.79 3.32
2233 2293 0.931662 GCAAGCAGCAGAACAACACG 60.932 55.000 0.00 0.00 44.79 4.49
2234 2294 0.657312 CAAGCAGCAGAACAACACGA 59.343 50.000 0.00 0.00 0.00 4.35
2235 2295 0.657840 AAGCAGCAGAACAACACGAC 59.342 50.000 0.00 0.00 0.00 4.34
2236 2296 1.083401 GCAGCAGAACAACACGACG 60.083 57.895 0.00 0.00 0.00 5.12
2237 2297 1.083401 CAGCAGAACAACACGACGC 60.083 57.895 0.00 0.00 0.00 5.19
2238 2298 1.520564 AGCAGAACAACACGACGCA 60.521 52.632 0.00 0.00 0.00 5.24
2239 2299 1.083401 GCAGAACAACACGACGCAG 60.083 57.895 0.00 0.00 0.00 5.18
2258 2318 1.065854 AGTGGAATGACTACTGGCAGC 60.066 52.381 15.89 0.00 38.85 5.25
2259 2319 0.108186 TGGAATGACTACTGGCAGCG 60.108 55.000 15.89 8.70 0.00 5.18
2260 2320 0.811616 GGAATGACTACTGGCAGCGG 60.812 60.000 15.89 10.08 0.00 5.52
2261 2321 0.175760 GAATGACTACTGGCAGCGGA 59.824 55.000 15.89 0.00 0.00 5.54
2262 2322 0.613260 AATGACTACTGGCAGCGGAA 59.387 50.000 15.89 0.00 0.00 4.30
2263 2323 0.108138 ATGACTACTGGCAGCGGAAC 60.108 55.000 15.89 3.47 0.00 3.62
2264 2324 1.292223 GACTACTGGCAGCGGAACA 59.708 57.895 15.89 0.00 0.00 3.18
2265 2325 0.320421 GACTACTGGCAGCGGAACAA 60.320 55.000 15.89 0.00 0.00 2.83
2266 2326 0.602905 ACTACTGGCAGCGGAACAAC 60.603 55.000 15.89 0.00 0.00 3.32
2267 2327 1.626654 CTACTGGCAGCGGAACAACG 61.627 60.000 15.89 0.00 0.00 4.10
2268 2328 2.089887 TACTGGCAGCGGAACAACGA 62.090 55.000 15.89 0.00 35.47 3.85
2269 2329 2.954753 CTGGCAGCGGAACAACGAC 61.955 63.158 0.00 0.00 35.47 4.34
2270 2330 2.970324 GGCAGCGGAACAACGACA 60.970 61.111 0.00 0.00 35.47 4.35
2271 2331 2.539338 GGCAGCGGAACAACGACAA 61.539 57.895 0.00 0.00 35.47 3.18
2272 2332 1.368850 GCAGCGGAACAACGACAAC 60.369 57.895 0.00 0.00 35.47 3.32
2273 2333 1.083657 CAGCGGAACAACGACAACG 60.084 57.895 0.00 0.00 45.75 4.10
2274 2334 2.241880 AGCGGAACAACGACAACGG 61.242 57.895 0.00 0.00 44.46 4.44
2275 2335 2.527867 GCGGAACAACGACAACGGT 61.528 57.895 0.00 0.00 44.46 4.83
2281 2341 4.937193 AACGACAACGGTGGTGAA 57.063 50.000 4.97 0.00 44.46 3.18
2282 2342 2.386272 AACGACAACGGTGGTGAAC 58.614 52.632 4.97 0.00 44.46 3.18
2283 2343 0.108041 AACGACAACGGTGGTGAACT 60.108 50.000 4.97 0.00 44.46 3.01
2284 2344 0.529119 ACGACAACGGTGGTGAACTC 60.529 55.000 4.97 0.00 44.46 3.01
2285 2345 1.219522 CGACAACGGTGGTGAACTCC 61.220 60.000 4.97 0.00 35.72 3.85
2286 2346 0.179067 GACAACGGTGGTGAACTCCA 60.179 55.000 4.97 0.00 32.91 3.86
2292 2352 4.771127 TGGTGAACTCCACTTCGC 57.229 55.556 0.00 0.00 45.03 4.70
2293 2353 1.826709 TGGTGAACTCCACTTCGCA 59.173 52.632 0.00 0.00 45.03 5.10
2294 2354 0.249868 TGGTGAACTCCACTTCGCAG 60.250 55.000 0.00 0.00 45.03 5.18
2295 2355 0.951040 GGTGAACTCCACTTCGCAGG 60.951 60.000 0.00 0.00 45.03 4.85
2296 2356 0.951040 GTGAACTCCACTTCGCAGGG 60.951 60.000 0.00 0.00 42.44 4.45
2297 2357 1.118965 TGAACTCCACTTCGCAGGGA 61.119 55.000 0.00 0.00 0.00 4.20
2298 2358 0.670854 GAACTCCACTTCGCAGGGAC 60.671 60.000 0.00 0.00 0.00 4.46
2299 2359 1.122019 AACTCCACTTCGCAGGGACT 61.122 55.000 0.00 0.00 43.88 3.85
2300 2360 1.216710 CTCCACTTCGCAGGGACTC 59.783 63.158 0.00 0.00 34.60 3.36
2301 2361 1.228894 TCCACTTCGCAGGGACTCT 60.229 57.895 0.00 0.00 34.60 3.24
2302 2362 1.079543 CCACTTCGCAGGGACTCTG 60.080 63.158 0.00 0.00 46.03 3.35
2303 2363 1.079543 CACTTCGCAGGGACTCTGG 60.080 63.158 4.07 0.00 43.54 3.86
2304 2364 2.125350 CTTCGCAGGGACTCTGGC 60.125 66.667 4.07 0.00 43.54 4.85
2305 2365 2.604686 TTCGCAGGGACTCTGGCT 60.605 61.111 4.07 0.00 43.54 4.75
2306 2366 2.849120 CTTCGCAGGGACTCTGGCTG 62.849 65.000 4.07 0.00 43.54 4.85
2307 2367 4.463879 CGCAGGGACTCTGGCTGG 62.464 72.222 4.07 0.00 43.54 4.85
2308 2368 3.005539 GCAGGGACTCTGGCTGGA 61.006 66.667 4.07 0.00 43.54 3.86
2309 2369 2.596851 GCAGGGACTCTGGCTGGAA 61.597 63.158 4.07 0.00 43.54 3.53
2310 2370 1.919600 GCAGGGACTCTGGCTGGAAT 61.920 60.000 4.07 0.00 43.54 3.01
2311 2371 0.107312 CAGGGACTCTGGCTGGAATG 60.107 60.000 0.00 0.00 39.76 2.67
2312 2372 1.452833 GGGACTCTGGCTGGAATGC 60.453 63.158 0.00 0.00 0.00 3.56
2313 2373 1.606531 GGACTCTGGCTGGAATGCT 59.393 57.895 0.00 0.00 0.00 3.79
2314 2374 0.034670 GGACTCTGGCTGGAATGCTT 60.035 55.000 0.00 0.00 0.00 3.91
2315 2375 1.210478 GGACTCTGGCTGGAATGCTTA 59.790 52.381 0.00 0.00 0.00 3.09
2316 2376 2.158696 GGACTCTGGCTGGAATGCTTAT 60.159 50.000 0.00 0.00 0.00 1.73
2317 2377 3.137533 GACTCTGGCTGGAATGCTTATC 58.862 50.000 0.00 0.00 0.00 1.75
2318 2378 2.158696 ACTCTGGCTGGAATGCTTATCC 60.159 50.000 0.00 0.00 37.48 2.59
2319 2379 2.106166 CTCTGGCTGGAATGCTTATCCT 59.894 50.000 4.94 0.00 37.85 3.24
2320 2380 3.317406 TCTGGCTGGAATGCTTATCCTA 58.683 45.455 4.94 0.00 37.85 2.94
2321 2381 3.326006 TCTGGCTGGAATGCTTATCCTAG 59.674 47.826 4.94 0.00 37.85 3.02
2322 2382 2.224621 TGGCTGGAATGCTTATCCTAGC 60.225 50.000 13.51 13.51 38.89 3.42
2323 2383 2.039613 GGCTGGAATGCTTATCCTAGCT 59.960 50.000 17.51 0.00 41.76 3.32
2324 2384 3.333804 GCTGGAATGCTTATCCTAGCTC 58.666 50.000 0.00 0.00 41.76 4.09
2325 2385 3.583806 CTGGAATGCTTATCCTAGCTCG 58.416 50.000 0.00 0.00 41.76 5.03
2326 2386 2.289072 TGGAATGCTTATCCTAGCTCGC 60.289 50.000 0.00 0.00 41.76 5.03
2327 2387 2.289072 GGAATGCTTATCCTAGCTCGCA 60.289 50.000 0.00 0.00 41.76 5.10
2328 2388 3.393800 GAATGCTTATCCTAGCTCGCAA 58.606 45.455 0.00 0.00 41.76 4.85
2329 2389 2.979814 TGCTTATCCTAGCTCGCAAA 57.020 45.000 0.00 0.00 41.76 3.68
2330 2390 2.550978 TGCTTATCCTAGCTCGCAAAC 58.449 47.619 0.00 0.00 41.76 2.93
2331 2391 2.093711 TGCTTATCCTAGCTCGCAAACA 60.094 45.455 0.00 0.00 41.76 2.83
2332 2392 2.936498 GCTTATCCTAGCTCGCAAACAA 59.064 45.455 0.00 0.00 38.15 2.83
2333 2393 3.001736 GCTTATCCTAGCTCGCAAACAAG 59.998 47.826 0.00 0.00 38.15 3.16
2334 2394 2.029838 ATCCTAGCTCGCAAACAAGG 57.970 50.000 0.00 0.00 0.00 3.61
2335 2395 0.036388 TCCTAGCTCGCAAACAAGGG 60.036 55.000 0.00 0.00 0.00 3.95
2336 2396 0.036388 CCTAGCTCGCAAACAAGGGA 60.036 55.000 0.00 0.00 0.00 4.20
2337 2397 1.407437 CCTAGCTCGCAAACAAGGGAT 60.407 52.381 0.00 0.00 0.00 3.85
2338 2398 1.936547 CTAGCTCGCAAACAAGGGATC 59.063 52.381 0.00 0.00 0.00 3.36
2339 2399 0.678048 AGCTCGCAAACAAGGGATCC 60.678 55.000 1.92 1.92 0.00 3.36
2340 2400 0.960364 GCTCGCAAACAAGGGATCCA 60.960 55.000 15.23 0.00 0.00 3.41
2341 2401 0.804989 CTCGCAAACAAGGGATCCAC 59.195 55.000 15.23 2.86 0.00 4.02
2342 2402 0.953471 TCGCAAACAAGGGATCCACG 60.953 55.000 15.23 3.25 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.887152 ACTGAATGCTTTCCACCTGTTC 59.113 45.455 9.63 0.00 0.00 3.18
41 42 7.389607 CGAACTTTTCAGGAGAAGGGTAAATAA 59.610 37.037 4.82 0.00 34.71 1.40
45 46 4.345837 TCGAACTTTTCAGGAGAAGGGTAA 59.654 41.667 4.82 0.00 34.71 2.85
471 498 6.748333 TTTCAGCATCAAGTAATTCTGGAG 57.252 37.500 0.00 0.00 28.53 3.86
620 653 3.959535 AGAGGAAGAGAAGTGCAGAAG 57.040 47.619 0.00 0.00 0.00 2.85
806 842 7.916914 AAAAATTAGTTCTCTTAAGCGCCTA 57.083 32.000 2.29 0.00 0.00 3.93
856 893 8.567948 TCTGCGTTGAAATAGATCTTTTCTTTT 58.432 29.630 20.90 8.48 35.79 2.27
857 894 8.017946 GTCTGCGTTGAAATAGATCTTTTCTTT 58.982 33.333 20.90 10.14 35.79 2.52
858 895 7.522374 GTCTGCGTTGAAATAGATCTTTTCTT 58.478 34.615 20.90 5.44 35.79 2.52
860 897 5.954349 CGTCTGCGTTGAAATAGATCTTTTC 59.046 40.000 16.84 16.84 34.40 2.29
861 898 5.637810 TCGTCTGCGTTGAAATAGATCTTTT 59.362 36.000 0.00 0.00 39.49 2.27
862 899 5.168569 TCGTCTGCGTTGAAATAGATCTTT 58.831 37.500 0.00 0.00 39.49 2.52
863 900 4.744570 TCGTCTGCGTTGAAATAGATCTT 58.255 39.130 0.00 0.00 39.49 2.40
885 923 6.767902 CGGCCAATTATATTAGCATCAGGTAT 59.232 38.462 2.24 0.00 0.00 2.73
919 957 0.327924 AGCCGTGTTGGATGGATTGA 59.672 50.000 0.00 0.00 42.00 2.57
921 959 1.837439 TCTAGCCGTGTTGGATGGATT 59.163 47.619 0.00 0.00 38.90 3.01
957 995 0.989164 TTGACGCGAGAAATAGCACG 59.011 50.000 15.93 0.00 0.00 5.34
1488 1538 4.286549 TCAGAATGGGCCATTTGTTTTGAT 59.713 37.500 31.17 7.27 33.90 2.57
1570 1620 3.128242 GGATTTTGGACACTGCTGAGATG 59.872 47.826 0.00 0.00 0.00 2.90
1607 1657 9.626045 GAACGTAAAAATGAGGAAAATCTGATT 57.374 29.630 0.00 0.00 0.00 2.57
1608 1658 9.014297 AGAACGTAAAAATGAGGAAAATCTGAT 57.986 29.630 0.00 0.00 0.00 2.90
1768 1824 9.136323 ACAAGAAGAAATGACCTTGTAAGATTT 57.864 29.630 0.00 0.00 44.93 2.17
1770 1826 8.697507 AACAAGAAGAAATGACCTTGTAAGAT 57.302 30.769 0.00 0.00 45.71 2.40
2041 2101 2.593956 GGTTTCTCTGAGCCGGGGT 61.594 63.158 2.18 0.00 0.00 4.95
2042 2102 2.269241 GGTTTCTCTGAGCCGGGG 59.731 66.667 2.18 0.00 0.00 5.73
2043 2103 2.125512 CGGTTTCTCTGAGCCGGG 60.126 66.667 2.18 0.00 40.45 5.73
2045 2105 1.014564 GTTCCGGTTTCTCTGAGCCG 61.015 60.000 13.25 13.25 43.40 5.52
2046 2106 1.014564 CGTTCCGGTTTCTCTGAGCC 61.015 60.000 0.00 0.00 0.00 4.70
2047 2107 1.627550 GCGTTCCGGTTTCTCTGAGC 61.628 60.000 0.00 0.00 0.00 4.26
2048 2108 1.014564 GGCGTTCCGGTTTCTCTGAG 61.015 60.000 0.00 0.00 0.00 3.35
2049 2109 1.005394 GGCGTTCCGGTTTCTCTGA 60.005 57.895 0.00 0.00 0.00 3.27
2050 2110 2.033194 GGGCGTTCCGGTTTCTCTG 61.033 63.158 0.00 0.00 0.00 3.35
2051 2111 2.346365 GGGCGTTCCGGTTTCTCT 59.654 61.111 0.00 0.00 0.00 3.10
2052 2112 2.745100 GGGGCGTTCCGGTTTCTC 60.745 66.667 0.00 0.00 36.01 2.87
2053 2113 4.692475 CGGGGCGTTCCGGTTTCT 62.692 66.667 0.00 0.00 45.78 2.52
2060 2120 1.523032 CTGGAATACGGGGCGTTCC 60.523 63.158 0.00 0.00 41.54 3.62
2061 2121 2.178235 GCTGGAATACGGGGCGTTC 61.178 63.158 0.00 0.00 41.54 3.95
2062 2122 2.124860 GCTGGAATACGGGGCGTT 60.125 61.111 0.00 0.00 41.54 4.84
2063 2123 4.171103 GGCTGGAATACGGGGCGT 62.171 66.667 0.00 0.00 44.35 5.68
2064 2124 4.929707 GGGCTGGAATACGGGGCG 62.930 72.222 0.00 0.00 0.00 6.13
2065 2125 3.774599 CTGGGCTGGAATACGGGGC 62.775 68.421 0.00 0.00 0.00 5.80
2066 2126 2.044806 CTCTGGGCTGGAATACGGGG 62.045 65.000 0.00 0.00 0.00 5.73
2067 2127 1.048724 TCTCTGGGCTGGAATACGGG 61.049 60.000 0.00 0.00 0.00 5.28
2068 2128 1.001406 GATCTCTGGGCTGGAATACGG 59.999 57.143 0.00 0.00 0.00 4.02
2069 2129 1.336332 CGATCTCTGGGCTGGAATACG 60.336 57.143 0.00 0.00 0.00 3.06
2070 2130 1.964223 TCGATCTCTGGGCTGGAATAC 59.036 52.381 0.00 0.00 0.00 1.89
2071 2131 2.242926 CTCGATCTCTGGGCTGGAATA 58.757 52.381 0.00 0.00 0.00 1.75
2072 2132 1.047002 CTCGATCTCTGGGCTGGAAT 58.953 55.000 0.00 0.00 0.00 3.01
2073 2133 1.045350 CCTCGATCTCTGGGCTGGAA 61.045 60.000 0.00 0.00 0.00 3.53
2074 2134 1.456518 CCTCGATCTCTGGGCTGGA 60.457 63.158 0.00 0.00 0.00 3.86
2075 2135 1.456518 TCCTCGATCTCTGGGCTGG 60.457 63.158 0.00 0.00 0.00 4.85
2076 2136 0.467106 TCTCCTCGATCTCTGGGCTG 60.467 60.000 0.00 0.00 0.00 4.85
2077 2137 0.260230 TTCTCCTCGATCTCTGGGCT 59.740 55.000 0.00 0.00 0.00 5.19
2078 2138 0.673437 CTTCTCCTCGATCTCTGGGC 59.327 60.000 0.00 0.00 0.00 5.36
2079 2139 1.953686 GACTTCTCCTCGATCTCTGGG 59.046 57.143 0.00 0.00 0.00 4.45
2080 2140 2.930950 AGACTTCTCCTCGATCTCTGG 58.069 52.381 0.00 0.00 0.00 3.86
2081 2141 4.035558 CAGAAGACTTCTCCTCGATCTCTG 59.964 50.000 14.99 0.00 38.11 3.35
2082 2142 4.199310 CAGAAGACTTCTCCTCGATCTCT 58.801 47.826 14.99 0.00 38.11 3.10
2083 2143 3.315191 CCAGAAGACTTCTCCTCGATCTC 59.685 52.174 14.99 0.00 38.11 2.75
2084 2144 3.053991 TCCAGAAGACTTCTCCTCGATCT 60.054 47.826 14.99 0.00 38.11 2.75
2085 2145 3.283751 TCCAGAAGACTTCTCCTCGATC 58.716 50.000 14.99 0.00 38.11 3.69
2086 2146 3.374042 TCCAGAAGACTTCTCCTCGAT 57.626 47.619 14.99 0.00 38.11 3.59
2087 2147 2.881111 TCCAGAAGACTTCTCCTCGA 57.119 50.000 14.99 5.85 38.11 4.04
2088 2148 4.496673 CGTATTCCAGAAGACTTCTCCTCG 60.497 50.000 14.99 10.05 38.11 4.63
2089 2149 4.202070 CCGTATTCCAGAAGACTTCTCCTC 60.202 50.000 14.99 2.85 38.11 3.71
2090 2150 3.702045 CCGTATTCCAGAAGACTTCTCCT 59.298 47.826 14.99 3.19 38.11 3.69
2091 2151 3.738590 GCCGTATTCCAGAAGACTTCTCC 60.739 52.174 14.99 0.00 38.11 3.71
2092 2152 3.119101 TGCCGTATTCCAGAAGACTTCTC 60.119 47.826 14.99 2.29 38.11 2.87
2093 2153 2.832129 TGCCGTATTCCAGAAGACTTCT 59.168 45.455 12.12 12.12 41.70 2.85
2094 2154 2.930682 GTGCCGTATTCCAGAAGACTTC 59.069 50.000 7.14 7.14 30.88 3.01
2095 2155 2.567615 AGTGCCGTATTCCAGAAGACTT 59.432 45.455 3.89 0.00 30.88 3.01
2096 2156 2.093973 CAGTGCCGTATTCCAGAAGACT 60.094 50.000 3.89 0.00 30.88 3.24
2097 2157 2.271800 CAGTGCCGTATTCCAGAAGAC 58.728 52.381 0.00 0.00 0.00 3.01
2098 2158 1.405526 GCAGTGCCGTATTCCAGAAGA 60.406 52.381 2.85 0.00 0.00 2.87
2099 2159 1.009829 GCAGTGCCGTATTCCAGAAG 58.990 55.000 2.85 0.00 0.00 2.85
2100 2160 0.613260 AGCAGTGCCGTATTCCAGAA 59.387 50.000 12.58 0.00 0.00 3.02
2101 2161 0.613260 AAGCAGTGCCGTATTCCAGA 59.387 50.000 12.58 0.00 0.00 3.86
2102 2162 2.205074 CTAAGCAGTGCCGTATTCCAG 58.795 52.381 12.58 0.00 0.00 3.86
2103 2163 1.742411 GCTAAGCAGTGCCGTATTCCA 60.742 52.381 12.58 0.00 0.00 3.53
2104 2164 0.938008 GCTAAGCAGTGCCGTATTCC 59.062 55.000 12.58 0.00 0.00 3.01
2105 2165 1.651987 TGCTAAGCAGTGCCGTATTC 58.348 50.000 12.58 0.00 33.32 1.75
2106 2166 2.332063 ATGCTAAGCAGTGCCGTATT 57.668 45.000 12.58 1.60 43.65 1.89
2107 2167 2.628178 TCTATGCTAAGCAGTGCCGTAT 59.372 45.455 12.58 8.34 43.65 3.06
2108 2168 2.028876 TCTATGCTAAGCAGTGCCGTA 58.971 47.619 12.58 3.60 43.65 4.02
2109 2169 0.824109 TCTATGCTAAGCAGTGCCGT 59.176 50.000 12.58 2.37 43.65 5.68
2110 2170 1.594862 GTTCTATGCTAAGCAGTGCCG 59.405 52.381 12.58 1.57 43.65 5.69
2111 2171 2.632377 TGTTCTATGCTAAGCAGTGCC 58.368 47.619 12.58 0.00 43.65 5.01
2112 2172 4.685169 TTTGTTCTATGCTAAGCAGTGC 57.315 40.909 7.13 7.13 43.65 4.40
2113 2173 6.426980 TGATTTGTTCTATGCTAAGCAGTG 57.573 37.500 0.00 0.00 43.65 3.66
2114 2174 5.065731 GCTGATTTGTTCTATGCTAAGCAGT 59.934 40.000 0.00 0.00 43.65 4.40
2115 2175 5.296283 AGCTGATTTGTTCTATGCTAAGCAG 59.704 40.000 0.00 0.00 43.65 4.24
2116 2176 5.188434 AGCTGATTTGTTCTATGCTAAGCA 58.812 37.500 0.00 0.00 44.86 3.91
2117 2177 5.526846 AGAGCTGATTTGTTCTATGCTAAGC 59.473 40.000 0.00 0.00 0.00 3.09
2118 2178 7.551035 AAGAGCTGATTTGTTCTATGCTAAG 57.449 36.000 0.00 0.00 0.00 2.18
2119 2179 7.928307 AAAGAGCTGATTTGTTCTATGCTAA 57.072 32.000 0.00 0.00 0.00 3.09
2120 2180 9.618890 AATAAAGAGCTGATTTGTTCTATGCTA 57.381 29.630 0.00 0.00 0.00 3.49
2121 2181 8.404000 CAATAAAGAGCTGATTTGTTCTATGCT 58.596 33.333 0.00 0.00 0.00 3.79
2122 2182 7.167136 GCAATAAAGAGCTGATTTGTTCTATGC 59.833 37.037 0.00 0.00 0.00 3.14
2123 2183 7.375280 CGCAATAAAGAGCTGATTTGTTCTATG 59.625 37.037 0.00 0.00 0.00 2.23
2124 2184 7.280876 TCGCAATAAAGAGCTGATTTGTTCTAT 59.719 33.333 0.00 0.00 0.00 1.98
2125 2185 6.593770 TCGCAATAAAGAGCTGATTTGTTCTA 59.406 34.615 0.00 0.00 0.00 2.10
2126 2186 5.412594 TCGCAATAAAGAGCTGATTTGTTCT 59.587 36.000 0.00 0.00 0.00 3.01
2127 2187 5.631026 TCGCAATAAAGAGCTGATTTGTTC 58.369 37.500 0.00 0.00 0.00 3.18
2128 2188 5.627499 TCGCAATAAAGAGCTGATTTGTT 57.373 34.783 0.00 0.00 0.00 2.83
2129 2189 5.587844 AGATCGCAATAAAGAGCTGATTTGT 59.412 36.000 0.00 0.00 31.32 2.83
2130 2190 6.057627 AGATCGCAATAAAGAGCTGATTTG 57.942 37.500 0.00 0.00 31.32 2.32
2131 2191 7.976135 ATAGATCGCAATAAAGAGCTGATTT 57.024 32.000 0.00 0.00 34.69 2.17
2132 2192 7.094890 CCAATAGATCGCAATAAAGAGCTGATT 60.095 37.037 0.00 0.00 34.69 2.57
2133 2193 6.370994 CCAATAGATCGCAATAAAGAGCTGAT 59.629 38.462 0.00 0.00 34.69 2.90
2134 2194 5.698089 CCAATAGATCGCAATAAAGAGCTGA 59.302 40.000 0.00 0.00 34.69 4.26
2135 2195 5.106791 CCCAATAGATCGCAATAAAGAGCTG 60.107 44.000 0.00 0.00 34.69 4.24
2136 2196 4.999950 CCCAATAGATCGCAATAAAGAGCT 59.000 41.667 0.00 0.00 36.96 4.09
2137 2197 4.154918 CCCCAATAGATCGCAATAAAGAGC 59.845 45.833 0.00 0.00 0.00 4.09
2138 2198 5.308825 ACCCCAATAGATCGCAATAAAGAG 58.691 41.667 0.00 0.00 0.00 2.85
2139 2199 5.304686 ACCCCAATAGATCGCAATAAAGA 57.695 39.130 0.00 0.00 0.00 2.52
2140 2200 5.995282 TGTACCCCAATAGATCGCAATAAAG 59.005 40.000 0.00 0.00 0.00 1.85
2141 2201 5.931294 TGTACCCCAATAGATCGCAATAAA 58.069 37.500 0.00 0.00 0.00 1.40
2142 2202 5.554437 TGTACCCCAATAGATCGCAATAA 57.446 39.130 0.00 0.00 0.00 1.40
2143 2203 5.512404 CCTTGTACCCCAATAGATCGCAATA 60.512 44.000 0.00 0.00 31.20 1.90
2144 2204 4.389374 CTTGTACCCCAATAGATCGCAAT 58.611 43.478 0.00 0.00 31.20 3.56
2145 2205 3.433031 CCTTGTACCCCAATAGATCGCAA 60.433 47.826 0.00 0.00 31.20 4.85
2146 2206 2.104111 CCTTGTACCCCAATAGATCGCA 59.896 50.000 0.00 0.00 31.20 5.10
2147 2207 2.550208 CCCTTGTACCCCAATAGATCGC 60.550 54.545 0.00 0.00 31.20 4.58
2148 2208 2.038557 CCCCTTGTACCCCAATAGATCG 59.961 54.545 0.00 0.00 31.20 3.69
2149 2209 3.323775 TCCCCTTGTACCCCAATAGATC 58.676 50.000 0.00 0.00 31.20 2.75
2150 2210 3.448277 TCCCCTTGTACCCCAATAGAT 57.552 47.619 0.00 0.00 31.20 1.98
2151 2211 2.974285 TCCCCTTGTACCCCAATAGA 57.026 50.000 0.00 0.00 31.20 1.98
2152 2212 4.414182 TGTAATCCCCTTGTACCCCAATAG 59.586 45.833 0.00 0.00 31.20 1.73
2153 2213 4.381708 TGTAATCCCCTTGTACCCCAATA 58.618 43.478 0.00 0.00 31.20 1.90
2154 2214 3.203059 TGTAATCCCCTTGTACCCCAAT 58.797 45.455 0.00 0.00 31.20 3.16
2155 2215 2.645320 TGTAATCCCCTTGTACCCCAA 58.355 47.619 0.00 0.00 0.00 4.12
2156 2216 2.362797 TGTAATCCCCTTGTACCCCA 57.637 50.000 0.00 0.00 0.00 4.96
2157 2217 2.224450 CGATGTAATCCCCTTGTACCCC 60.224 54.545 0.00 0.00 41.39 4.95
2158 2218 2.224450 CCGATGTAATCCCCTTGTACCC 60.224 54.545 0.00 0.00 41.39 3.69
2159 2219 2.809299 GCCGATGTAATCCCCTTGTACC 60.809 54.545 0.00 0.00 41.39 3.34
2160 2220 2.158871 TGCCGATGTAATCCCCTTGTAC 60.159 50.000 0.00 0.00 41.39 2.90
2161 2221 2.120312 TGCCGATGTAATCCCCTTGTA 58.880 47.619 0.00 0.00 41.39 2.41
2162 2222 0.916086 TGCCGATGTAATCCCCTTGT 59.084 50.000 0.00 0.00 41.39 3.16
2163 2223 1.308998 GTGCCGATGTAATCCCCTTG 58.691 55.000 0.00 0.00 41.39 3.61
2164 2224 0.179056 CGTGCCGATGTAATCCCCTT 60.179 55.000 0.00 0.00 41.39 3.95
2165 2225 1.445942 CGTGCCGATGTAATCCCCT 59.554 57.895 0.00 0.00 41.39 4.79
2166 2226 1.597027 CCGTGCCGATGTAATCCCC 60.597 63.158 0.00 0.00 41.39 4.81
2167 2227 2.251642 GCCGTGCCGATGTAATCCC 61.252 63.158 0.00 0.00 41.39 3.85
2168 2228 2.594962 CGCCGTGCCGATGTAATCC 61.595 63.158 0.00 0.00 41.39 3.01
2169 2229 1.590525 TCGCCGTGCCGATGTAATC 60.591 57.895 0.00 0.00 40.89 1.75
2170 2230 1.881252 GTCGCCGTGCCGATGTAAT 60.881 57.895 0.00 0.00 39.67 1.89
2171 2231 2.507547 GTCGCCGTGCCGATGTAA 60.508 61.111 0.00 0.00 39.67 2.41
2172 2232 4.840288 CGTCGCCGTGCCGATGTA 62.840 66.667 0.00 0.00 39.67 2.29
2190 2250 3.118454 CAACCGTGGCAGGCGTAG 61.118 66.667 0.70 0.00 33.69 3.51
2194 2254 3.605749 TAGAGCAACCGTGGCAGGC 62.606 63.158 0.00 0.00 33.69 4.85
2195 2255 1.448540 CTAGAGCAACCGTGGCAGG 60.449 63.158 0.00 0.00 37.30 4.85
2196 2256 1.448540 CCTAGAGCAACCGTGGCAG 60.449 63.158 0.00 0.00 0.00 4.85
2197 2257 2.662596 CCTAGAGCAACCGTGGCA 59.337 61.111 0.00 0.00 0.00 4.92
2198 2258 2.820037 GCCTAGAGCAACCGTGGC 60.820 66.667 0.00 0.00 42.97 5.01
2207 2267 0.392193 TTCTGCTGCTTGCCTAGAGC 60.392 55.000 0.00 0.00 42.00 4.09
2208 2268 1.338484 TGTTCTGCTGCTTGCCTAGAG 60.338 52.381 0.00 0.00 42.00 2.43
2209 2269 0.686789 TGTTCTGCTGCTTGCCTAGA 59.313 50.000 0.00 0.00 42.00 2.43
2210 2270 1.198637 GTTGTTCTGCTGCTTGCCTAG 59.801 52.381 0.00 0.00 42.00 3.02
2211 2271 1.238439 GTTGTTCTGCTGCTTGCCTA 58.762 50.000 0.00 0.00 42.00 3.93
2212 2272 0.752743 TGTTGTTCTGCTGCTTGCCT 60.753 50.000 0.00 0.00 42.00 4.75
2213 2273 0.595825 GTGTTGTTCTGCTGCTTGCC 60.596 55.000 0.00 0.00 42.00 4.52
2214 2274 0.931662 CGTGTTGTTCTGCTGCTTGC 60.932 55.000 0.00 0.00 43.25 4.01
2215 2275 0.657312 TCGTGTTGTTCTGCTGCTTG 59.343 50.000 0.00 0.00 0.00 4.01
2216 2276 0.657840 GTCGTGTTGTTCTGCTGCTT 59.342 50.000 0.00 0.00 0.00 3.91
2217 2277 1.490693 CGTCGTGTTGTTCTGCTGCT 61.491 55.000 0.00 0.00 0.00 4.24
2218 2278 1.083401 CGTCGTGTTGTTCTGCTGC 60.083 57.895 0.00 0.00 0.00 5.25
2219 2279 1.083401 GCGTCGTGTTGTTCTGCTG 60.083 57.895 0.00 0.00 0.00 4.41
2220 2280 1.490693 CTGCGTCGTGTTGTTCTGCT 61.491 55.000 0.00 0.00 0.00 4.24
2221 2281 1.083401 CTGCGTCGTGTTGTTCTGC 60.083 57.895 0.00 0.00 0.00 4.26
2222 2282 0.043053 CACTGCGTCGTGTTGTTCTG 60.043 55.000 0.00 0.00 0.00 3.02
2223 2283 1.151777 CCACTGCGTCGTGTTGTTCT 61.152 55.000 0.00 0.00 33.07 3.01
2224 2284 1.149361 TCCACTGCGTCGTGTTGTTC 61.149 55.000 0.00 0.00 33.07 3.18
2225 2285 0.741574 TTCCACTGCGTCGTGTTGTT 60.742 50.000 0.00 0.00 33.07 2.83
2226 2286 0.531974 ATTCCACTGCGTCGTGTTGT 60.532 50.000 0.00 0.00 33.07 3.32
2227 2287 0.110688 CATTCCACTGCGTCGTGTTG 60.111 55.000 0.00 0.00 33.07 3.33
2228 2288 0.249699 TCATTCCACTGCGTCGTGTT 60.250 50.000 0.00 0.00 33.07 3.32
2229 2289 0.944311 GTCATTCCACTGCGTCGTGT 60.944 55.000 0.00 0.00 33.07 4.49
2230 2290 0.667487 AGTCATTCCACTGCGTCGTG 60.667 55.000 0.00 0.07 34.71 4.35
2231 2291 0.885879 TAGTCATTCCACTGCGTCGT 59.114 50.000 0.00 0.00 0.00 4.34
2232 2292 1.135373 AGTAGTCATTCCACTGCGTCG 60.135 52.381 0.00 0.00 34.41 5.12
2233 2293 2.263077 CAGTAGTCATTCCACTGCGTC 58.737 52.381 0.00 0.00 34.41 5.19
2234 2294 1.066858 CCAGTAGTCATTCCACTGCGT 60.067 52.381 0.00 0.00 38.67 5.24
2235 2295 1.645034 CCAGTAGTCATTCCACTGCG 58.355 55.000 0.00 0.00 38.67 5.18
2236 2296 1.339055 TGCCAGTAGTCATTCCACTGC 60.339 52.381 0.00 0.00 38.67 4.40
2237 2297 2.625737 CTGCCAGTAGTCATTCCACTG 58.374 52.381 0.00 0.00 39.50 3.66
2238 2298 1.065854 GCTGCCAGTAGTCATTCCACT 60.066 52.381 0.00 0.00 0.00 4.00
2239 2299 1.373570 GCTGCCAGTAGTCATTCCAC 58.626 55.000 0.00 0.00 0.00 4.02
2240 2300 0.108186 CGCTGCCAGTAGTCATTCCA 60.108 55.000 0.00 0.00 0.00 3.53
2241 2301 0.811616 CCGCTGCCAGTAGTCATTCC 60.812 60.000 0.00 0.00 0.00 3.01
2242 2302 0.175760 TCCGCTGCCAGTAGTCATTC 59.824 55.000 0.00 0.00 0.00 2.67
2243 2303 0.613260 TTCCGCTGCCAGTAGTCATT 59.387 50.000 0.00 0.00 0.00 2.57
2244 2304 0.108138 GTTCCGCTGCCAGTAGTCAT 60.108 55.000 0.00 0.00 0.00 3.06
2245 2305 1.292223 GTTCCGCTGCCAGTAGTCA 59.708 57.895 0.00 0.00 0.00 3.41
2246 2306 0.320421 TTGTTCCGCTGCCAGTAGTC 60.320 55.000 0.00 0.00 0.00 2.59
2247 2307 0.602905 GTTGTTCCGCTGCCAGTAGT 60.603 55.000 0.00 0.00 0.00 2.73
2248 2308 1.626654 CGTTGTTCCGCTGCCAGTAG 61.627 60.000 0.00 0.00 0.00 2.57
2249 2309 1.666553 CGTTGTTCCGCTGCCAGTA 60.667 57.895 0.00 0.00 0.00 2.74
2250 2310 2.972505 CGTTGTTCCGCTGCCAGT 60.973 61.111 0.00 0.00 0.00 4.00
2251 2311 2.664851 TCGTTGTTCCGCTGCCAG 60.665 61.111 0.00 0.00 0.00 4.85
2252 2312 2.970324 GTCGTTGTTCCGCTGCCA 60.970 61.111 0.00 0.00 0.00 4.92
2253 2313 2.539338 TTGTCGTTGTTCCGCTGCC 61.539 57.895 0.00 0.00 0.00 4.85
2254 2314 1.368850 GTTGTCGTTGTTCCGCTGC 60.369 57.895 0.00 0.00 0.00 5.25
2255 2315 1.083657 CGTTGTCGTTGTTCCGCTG 60.084 57.895 0.00 0.00 0.00 5.18
2256 2316 2.241880 CCGTTGTCGTTGTTCCGCT 61.242 57.895 0.00 0.00 35.01 5.52
2257 2317 2.247267 CCGTTGTCGTTGTTCCGC 59.753 61.111 0.00 0.00 35.01 5.54
2258 2318 1.274476 CACCGTTGTCGTTGTTCCG 59.726 57.895 0.00 0.00 35.01 4.30
2259 2319 1.091197 ACCACCGTTGTCGTTGTTCC 61.091 55.000 0.00 0.00 35.01 3.62
2260 2320 0.027063 CACCACCGTTGTCGTTGTTC 59.973 55.000 0.00 0.00 35.01 3.18
2261 2321 0.391395 TCACCACCGTTGTCGTTGTT 60.391 50.000 0.00 0.00 35.01 2.83
2262 2322 0.391395 TTCACCACCGTTGTCGTTGT 60.391 50.000 0.00 0.00 35.01 3.32
2263 2323 0.027063 GTTCACCACCGTTGTCGTTG 59.973 55.000 0.00 0.00 35.01 4.10
2264 2324 0.108041 AGTTCACCACCGTTGTCGTT 60.108 50.000 0.00 0.00 35.01 3.85
2265 2325 0.529119 GAGTTCACCACCGTTGTCGT 60.529 55.000 0.00 0.00 35.01 4.34
2266 2326 1.219522 GGAGTTCACCACCGTTGTCG 61.220 60.000 0.00 0.00 0.00 4.35
2267 2327 0.179067 TGGAGTTCACCACCGTTGTC 60.179 55.000 0.00 0.00 34.77 3.18
2268 2328 1.909228 TGGAGTTCACCACCGTTGT 59.091 52.632 0.00 0.00 34.77 3.32
2269 2329 4.868026 TGGAGTTCACCACCGTTG 57.132 55.556 0.00 0.00 34.77 4.10
2277 2337 0.951040 CCCTGCGAAGTGGAGTTCAC 60.951 60.000 0.00 0.00 46.39 3.18
2278 2338 1.118965 TCCCTGCGAAGTGGAGTTCA 61.119 55.000 0.00 0.00 33.44 3.18
2279 2339 0.670854 GTCCCTGCGAAGTGGAGTTC 60.671 60.000 1.10 0.00 33.44 3.01
2280 2340 1.122019 AGTCCCTGCGAAGTGGAGTT 61.122 55.000 1.10 0.00 33.44 3.01
2281 2341 1.534235 AGTCCCTGCGAAGTGGAGT 60.534 57.895 1.10 2.17 33.44 3.85
2282 2342 1.216710 GAGTCCCTGCGAAGTGGAG 59.783 63.158 1.10 0.00 35.45 3.86
2283 2343 1.228894 AGAGTCCCTGCGAAGTGGA 60.229 57.895 0.00 0.00 0.00 4.02
2284 2344 1.079543 CAGAGTCCCTGCGAAGTGG 60.080 63.158 0.00 0.00 35.89 4.00
2285 2345 1.079543 CCAGAGTCCCTGCGAAGTG 60.080 63.158 0.00 0.00 41.57 3.16
2286 2346 2.948720 GCCAGAGTCCCTGCGAAGT 61.949 63.158 0.00 0.00 41.57 3.01
2287 2347 2.125350 GCCAGAGTCCCTGCGAAG 60.125 66.667 0.00 0.00 41.57 3.79
2288 2348 2.604686 AGCCAGAGTCCCTGCGAA 60.605 61.111 0.00 0.00 41.57 4.70
2289 2349 3.385384 CAGCCAGAGTCCCTGCGA 61.385 66.667 0.00 0.00 41.57 5.10
2290 2350 4.463879 CCAGCCAGAGTCCCTGCG 62.464 72.222 0.00 0.00 41.57 5.18
2291 2351 1.919600 ATTCCAGCCAGAGTCCCTGC 61.920 60.000 0.00 0.00 41.57 4.85
2292 2352 0.107312 CATTCCAGCCAGAGTCCCTG 60.107 60.000 0.00 0.00 42.55 4.45
2293 2353 1.919600 GCATTCCAGCCAGAGTCCCT 61.920 60.000 0.00 0.00 0.00 4.20
2294 2354 1.452833 GCATTCCAGCCAGAGTCCC 60.453 63.158 0.00 0.00 0.00 4.46
2295 2355 0.034670 AAGCATTCCAGCCAGAGTCC 60.035 55.000 0.00 0.00 34.23 3.85
2296 2356 2.698855 TAAGCATTCCAGCCAGAGTC 57.301 50.000 0.00 0.00 34.23 3.36
2297 2357 2.158696 GGATAAGCATTCCAGCCAGAGT 60.159 50.000 0.00 0.00 33.21 3.24
2298 2358 2.106166 AGGATAAGCATTCCAGCCAGAG 59.894 50.000 2.90 0.00 35.59 3.35
2299 2359 2.130193 AGGATAAGCATTCCAGCCAGA 58.870 47.619 2.90 0.00 35.59 3.86
2300 2360 2.653234 AGGATAAGCATTCCAGCCAG 57.347 50.000 2.90 0.00 35.59 4.85
2301 2361 2.224621 GCTAGGATAAGCATTCCAGCCA 60.225 50.000 0.00 0.00 42.30 4.75
2302 2362 2.039613 AGCTAGGATAAGCATTCCAGCC 59.960 50.000 14.40 0.00 45.30 4.85
2303 2363 3.333804 GAGCTAGGATAAGCATTCCAGC 58.666 50.000 12.06 12.06 45.30 4.85
2304 2364 3.583806 CGAGCTAGGATAAGCATTCCAG 58.416 50.000 0.00 0.56 45.30 3.86
2305 2365 2.289072 GCGAGCTAGGATAAGCATTCCA 60.289 50.000 0.00 0.00 45.30 3.53
2306 2366 2.289072 TGCGAGCTAGGATAAGCATTCC 60.289 50.000 0.00 0.00 45.30 3.01
2307 2367 3.032017 TGCGAGCTAGGATAAGCATTC 57.968 47.619 0.00 0.00 45.30 2.67
2308 2368 3.475566 TTGCGAGCTAGGATAAGCATT 57.524 42.857 0.00 0.00 45.30 3.56
2309 2369 3.134458 GTTTGCGAGCTAGGATAAGCAT 58.866 45.455 0.00 0.00 45.30 3.79
2310 2370 2.093711 TGTTTGCGAGCTAGGATAAGCA 60.094 45.455 0.00 0.00 45.30 3.91
2311 2371 2.550978 TGTTTGCGAGCTAGGATAAGC 58.449 47.619 0.00 0.00 43.11 3.09
2312 2372 3.557595 CCTTGTTTGCGAGCTAGGATAAG 59.442 47.826 12.02 0.00 32.27 1.73
2313 2373 3.531538 CCTTGTTTGCGAGCTAGGATAA 58.468 45.455 12.02 0.00 32.27 1.75
2314 2374 2.158957 CCCTTGTTTGCGAGCTAGGATA 60.159 50.000 17.79 0.00 32.27 2.59
2315 2375 1.407437 CCCTTGTTTGCGAGCTAGGAT 60.407 52.381 17.79 0.00 32.27 3.24
2316 2376 0.036388 CCCTTGTTTGCGAGCTAGGA 60.036 55.000 17.79 0.00 32.27 2.94
2317 2377 0.036388 TCCCTTGTTTGCGAGCTAGG 60.036 55.000 10.69 10.69 0.00 3.02
2318 2378 1.936547 GATCCCTTGTTTGCGAGCTAG 59.063 52.381 0.00 0.00 0.00 3.42
2319 2379 1.406887 GGATCCCTTGTTTGCGAGCTA 60.407 52.381 0.00 0.00 0.00 3.32
2320 2380 0.678048 GGATCCCTTGTTTGCGAGCT 60.678 55.000 0.00 0.00 0.00 4.09
2321 2381 0.960364 TGGATCCCTTGTTTGCGAGC 60.960 55.000 9.90 0.00 0.00 5.03
2322 2382 0.804989 GTGGATCCCTTGTTTGCGAG 59.195 55.000 9.90 0.00 0.00 5.03
2323 2383 0.953471 CGTGGATCCCTTGTTTGCGA 60.953 55.000 9.90 0.00 0.00 5.10
2324 2384 1.501741 CGTGGATCCCTTGTTTGCG 59.498 57.895 9.90 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.