Multiple sequence alignment - TraesCS6D01G360100

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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 TraesCS6D01G360100 chr6D 100.000 2339 0 0 1 2339 452072050 452069712 0.000000e+00 4320.0
1 TraesCS6D01G360100 chr6D 98.504 2072 25 5 1 2068 462399751 462397682 0.000000e+00 3650.0
2 TraesCS6D01G360100 chr6D 99.270 274 2 0 2066 2339 452103164 452102891 1.610000e-136 496.0
3 TraesCS6D01G360100 chr6D 97.959 49 1 0 2093 2141 452101750 452101798 4.140000e-13 86.1
4 TraesCS6D01G360100 chr1D 98.023 1366 24 3 1 1363 176360145 176361510 0.000000e+00 2370.0
5 TraesCS6D01G360100 chr1D 97.222 1368 34 4 1 1365 356880591 356881957 0.000000e+00 2313.0
6 TraesCS6D01G360100 chr5B 96.193 1366 48 4 1 1363 684172820 684174184 0.000000e+00 2231.0
7 TraesCS6D01G360100 chr2B 95.684 1367 53 6 1 1364 325636804 325638167 0.000000e+00 2193.0
8 TraesCS6D01G360100 chr2A 95.611 1367 55 5 1 1364 382856648 382855284 0.000000e+00 2187.0
9 TraesCS6D01G360100 chr2A 95.033 1369 64 4 1 1366 77801818 77803185 0.000000e+00 2148.0
10 TraesCS6D01G360100 chr7D 95.468 1368 56 6 1 1364 219850275 219848910 0.000000e+00 2178.0
11 TraesCS6D01G360100 chr3D 95.095 1366 62 5 1 1363 177015447 177014084 0.000000e+00 2146.0
12 TraesCS6D01G360100 chr6A 84.423 719 74 22 1365 2068 609156725 609156030 0.000000e+00 673.0
13 TraesCS6D01G360100 chr6A 95.849 265 10 1 2075 2339 597858188 597857925 5.970000e-116 427.0
14 TraesCS6D01G360100 chr6B 94.079 152 9 0 2072 2223 686685760 686685609 5.030000e-57 231.0
15 TraesCS6D01G360100 chr6B 88.889 90 3 1 2257 2339 686685610 686685521 1.140000e-18 104.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G360100 chr6D 452069712 452072050 2338 True 4320 4320 100.000 1 2339 1 chr6D.!!$R1 2338
1 TraesCS6D01G360100 chr6D 462397682 462399751 2069 True 3650 3650 98.504 1 2068 1 chr6D.!!$R3 2067
2 TraesCS6D01G360100 chr1D 176360145 176361510 1365 False 2370 2370 98.023 1 1363 1 chr1D.!!$F1 1362
3 TraesCS6D01G360100 chr1D 356880591 356881957 1366 False 2313 2313 97.222 1 1365 1 chr1D.!!$F2 1364
4 TraesCS6D01G360100 chr5B 684172820 684174184 1364 False 2231 2231 96.193 1 1363 1 chr5B.!!$F1 1362
5 TraesCS6D01G360100 chr2B 325636804 325638167 1363 False 2193 2193 95.684 1 1364 1 chr2B.!!$F1 1363
6 TraesCS6D01G360100 chr2A 382855284 382856648 1364 True 2187 2187 95.611 1 1364 1 chr2A.!!$R1 1363
7 TraesCS6D01G360100 chr2A 77801818 77803185 1367 False 2148 2148 95.033 1 1366 1 chr2A.!!$F1 1365
8 TraesCS6D01G360100 chr7D 219848910 219850275 1365 True 2178 2178 95.468 1 1364 1 chr7D.!!$R1 1363
9 TraesCS6D01G360100 chr3D 177014084 177015447 1363 True 2146 2146 95.095 1 1363 1 chr3D.!!$R1 1362
10 TraesCS6D01G360100 chr6A 609156030 609156725 695 True 673 673 84.423 1365 2068 1 chr6A.!!$R2 703

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
398 402 2.02813 TGTGTCCGGCAAAAGTCAAAT 58.972 42.857 0.0 0.0 0.0 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2109 2131 0.033796 ACCTCATGCTGGGTTGGATG 60.034 55.0 8.97 0.0 37.16 3.51 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
18 19 3.430473 TGTGGGGAATGGACACAAC 57.570 52.632 0.00 0.00 41.65 3.32
109 110 5.221702 GGACAACTGTTAACTAAGGTGGGTA 60.222 44.000 13.76 0.00 35.33 3.69
157 158 5.186992 TCTTGGGACGAAGATCTGATTACAA 59.813 40.000 0.00 0.00 0.00 2.41
398 402 2.028130 TGTGTCCGGCAAAAGTCAAAT 58.972 42.857 0.00 0.00 0.00 2.32
578 583 2.203584 GGCTGGGGATGGATGATATCT 58.796 52.381 3.98 0.00 0.00 1.98
616 621 3.706373 GACCTTGCGGGAGAGGCA 61.706 66.667 2.42 0.00 36.48 4.75
837 843 2.292192 CCCCCAGGGCTTCTATGAAAAA 60.292 50.000 0.00 0.00 35.35 1.94
888 894 2.671888 TGTGAAACTTAACGTTGACGCA 59.328 40.909 11.99 0.68 39.82 5.24
1535 1543 3.199946 GGAGGGTGATCCACAGTTTGATA 59.800 47.826 0.00 0.00 39.34 2.15
1541 1549 4.872691 GTGATCCACAGTTTGATACCTCAG 59.127 45.833 0.00 0.00 34.08 3.35
2068 2090 3.263369 TGTGGTCTACCTACCTCCAAA 57.737 47.619 0.02 0.00 40.44 3.28
2069 2091 3.170717 TGTGGTCTACCTACCTCCAAAG 58.829 50.000 0.02 0.00 40.44 2.77
2070 2092 3.171528 GTGGTCTACCTACCTCCAAAGT 58.828 50.000 0.02 0.00 40.44 2.66
2071 2093 3.056035 GTGGTCTACCTACCTCCAAAGTG 60.056 52.174 0.02 0.00 40.44 3.16
2072 2094 2.500504 GGTCTACCTACCTCCAAAGTGG 59.499 54.545 0.00 0.00 39.43 4.00
2073 2095 3.438183 GTCTACCTACCTCCAAAGTGGA 58.562 50.000 0.00 0.00 45.98 4.02
2074 2096 7.547527 TGGTCTACCTACCTCCAAAGTGGAT 62.548 48.000 0.00 0.00 40.62 3.41
2075 2097 8.932502 TGGTCTACCTACCTCCAAAGTGGATT 62.933 46.154 0.00 0.00 40.62 3.01
2076 2098 9.630708 TGGTCTACCTACCTCCAAAGTGGATTA 62.631 44.444 0.00 0.00 40.62 1.75
2084 2106 4.202245 TCCAAAGTGGATTACCGAAGAG 57.798 45.455 0.00 0.00 42.67 2.85
2085 2107 3.835978 TCCAAAGTGGATTACCGAAGAGA 59.164 43.478 0.00 0.00 42.67 3.10
2086 2108 4.285003 TCCAAAGTGGATTACCGAAGAGAA 59.715 41.667 0.00 0.00 42.67 2.87
2087 2109 5.045869 TCCAAAGTGGATTACCGAAGAGAAT 60.046 40.000 0.00 0.00 42.67 2.40
2088 2110 5.294552 CCAAAGTGGATTACCGAAGAGAATC 59.705 44.000 0.00 0.00 40.96 2.52
2089 2111 5.941555 AAGTGGATTACCGAAGAGAATCT 57.058 39.130 0.00 0.00 44.15 2.40
2090 2112 7.265673 CAAAGTGGATTACCGAAGAGAATCTA 58.734 38.462 0.00 0.00 42.11 1.98
2091 2113 6.642707 AGTGGATTACCGAAGAGAATCTAG 57.357 41.667 0.00 0.00 42.11 2.43
2092 2114 5.010213 AGTGGATTACCGAAGAGAATCTAGC 59.990 44.000 0.00 0.00 42.11 3.42
2093 2115 4.893524 TGGATTACCGAAGAGAATCTAGCA 59.106 41.667 0.00 0.00 42.11 3.49
2094 2116 5.010112 TGGATTACCGAAGAGAATCTAGCAG 59.990 44.000 0.00 0.00 42.11 4.24
2095 2117 8.401516 TGGATTACCGAAGAGAATCTAGCAGC 62.402 46.154 0.00 0.00 42.11 5.25
2118 2140 1.678101 GCATAACTGCTCATCCAACCC 59.322 52.381 0.00 0.00 45.32 4.11
2119 2141 2.945440 GCATAACTGCTCATCCAACCCA 60.945 50.000 0.00 0.00 45.32 4.51
2120 2142 2.787473 TAACTGCTCATCCAACCCAG 57.213 50.000 0.00 0.00 0.00 4.45
2121 2143 0.610232 AACTGCTCATCCAACCCAGC 60.610 55.000 0.00 0.00 0.00 4.85
2122 2144 1.001764 CTGCTCATCCAACCCAGCA 60.002 57.895 0.00 0.00 39.58 4.41
2123 2145 0.395311 CTGCTCATCCAACCCAGCAT 60.395 55.000 0.00 0.00 41.00 3.79
2124 2146 0.681887 TGCTCATCCAACCCAGCATG 60.682 55.000 0.00 0.00 36.96 4.06
2125 2147 0.394762 GCTCATCCAACCCAGCATGA 60.395 55.000 0.00 0.00 39.69 3.07
2126 2148 1.676746 CTCATCCAACCCAGCATGAG 58.323 55.000 0.00 0.00 39.69 2.90
2127 2149 0.256752 TCATCCAACCCAGCATGAGG 59.743 55.000 0.00 0.00 39.69 3.86
2128 2150 0.033796 CATCCAACCCAGCATGAGGT 60.034 55.000 0.00 0.00 40.64 3.85
2129 2151 1.212688 CATCCAACCCAGCATGAGGTA 59.787 52.381 0.00 0.00 38.46 3.08
2130 2152 1.595311 TCCAACCCAGCATGAGGTAT 58.405 50.000 0.00 0.00 38.46 2.73
2131 2153 1.490490 TCCAACCCAGCATGAGGTATC 59.510 52.381 0.00 0.00 38.46 2.24
2132 2154 1.212688 CCAACCCAGCATGAGGTATCA 59.787 52.381 0.00 0.00 38.46 2.15
2134 2156 3.144506 CAACCCAGCATGAGGTATCATC 58.855 50.000 0.00 0.00 44.58 2.92
2135 2157 2.411583 ACCCAGCATGAGGTATCATCA 58.588 47.619 0.00 0.00 44.58 3.07
2136 2158 2.984604 ACCCAGCATGAGGTATCATCAT 59.015 45.455 0.00 0.00 44.58 2.45
2137 2159 3.396946 ACCCAGCATGAGGTATCATCATT 59.603 43.478 0.00 0.00 44.58 2.57
2138 2160 4.598807 ACCCAGCATGAGGTATCATCATTA 59.401 41.667 0.00 0.00 44.58 1.90
2139 2161 5.183969 CCCAGCATGAGGTATCATCATTAG 58.816 45.833 0.00 0.00 44.58 1.73
2140 2162 4.634883 CCAGCATGAGGTATCATCATTAGC 59.365 45.833 0.00 0.00 44.58 3.09
2141 2163 4.329256 CAGCATGAGGTATCATCATTAGCG 59.671 45.833 0.00 0.00 44.58 4.26
2142 2164 4.020751 AGCATGAGGTATCATCATTAGCGT 60.021 41.667 0.00 0.00 44.58 5.07
2143 2165 4.692625 GCATGAGGTATCATCATTAGCGTT 59.307 41.667 0.00 0.00 44.58 4.84
2144 2166 5.180117 GCATGAGGTATCATCATTAGCGTTT 59.820 40.000 0.00 0.00 44.58 3.60
2145 2167 6.619446 GCATGAGGTATCATCATTAGCGTTTC 60.619 42.308 0.00 0.00 44.58 2.78
2146 2168 6.161855 TGAGGTATCATCATTAGCGTTTCT 57.838 37.500 0.00 0.00 0.00 2.52
2147 2169 6.582636 TGAGGTATCATCATTAGCGTTTCTT 58.417 36.000 0.00 0.00 0.00 2.52
2148 2170 7.047891 TGAGGTATCATCATTAGCGTTTCTTT 58.952 34.615 0.00 0.00 0.00 2.52
2149 2171 7.552687 TGAGGTATCATCATTAGCGTTTCTTTT 59.447 33.333 0.00 0.00 0.00 2.27
2150 2172 8.281212 AGGTATCATCATTAGCGTTTCTTTTT 57.719 30.769 0.00 0.00 0.00 1.94
2151 2173 9.391006 AGGTATCATCATTAGCGTTTCTTTTTA 57.609 29.630 0.00 0.00 0.00 1.52
2152 2174 9.651718 GGTATCATCATTAGCGTTTCTTTTTAG 57.348 33.333 0.00 0.00 0.00 1.85
2153 2175 9.651718 GTATCATCATTAGCGTTTCTTTTTAGG 57.348 33.333 0.00 0.00 0.00 2.69
2154 2176 6.551736 TCATCATTAGCGTTTCTTTTTAGGC 58.448 36.000 0.00 0.00 0.00 3.93
2155 2177 6.374333 TCATCATTAGCGTTTCTTTTTAGGCT 59.626 34.615 0.00 0.00 38.79 4.58
2156 2178 5.938322 TCATTAGCGTTTCTTTTTAGGCTG 58.062 37.500 0.00 0.00 36.32 4.85
2157 2179 4.759516 TTAGCGTTTCTTTTTAGGCTGG 57.240 40.909 0.00 0.00 36.32 4.85
2158 2180 2.858745 AGCGTTTCTTTTTAGGCTGGA 58.141 42.857 0.00 0.00 34.52 3.86
2159 2181 2.552743 AGCGTTTCTTTTTAGGCTGGAC 59.447 45.455 0.00 0.00 34.52 4.02
2160 2182 2.292292 GCGTTTCTTTTTAGGCTGGACA 59.708 45.455 0.00 0.00 0.00 4.02
2161 2183 3.243267 GCGTTTCTTTTTAGGCTGGACAA 60.243 43.478 0.00 0.00 0.00 3.18
2162 2184 4.287720 CGTTTCTTTTTAGGCTGGACAAC 58.712 43.478 0.00 0.00 0.00 3.32
2163 2185 4.617959 GTTTCTTTTTAGGCTGGACAACC 58.382 43.478 0.00 0.00 0.00 3.77
2164 2186 2.871453 TCTTTTTAGGCTGGACAACCC 58.129 47.619 0.00 0.00 34.81 4.11
2165 2187 2.175931 TCTTTTTAGGCTGGACAACCCA 59.824 45.455 0.00 0.00 44.25 4.51
2166 2188 1.989706 TTTTAGGCTGGACAACCCAC 58.010 50.000 0.00 0.00 40.82 4.61
2167 2189 1.145571 TTTAGGCTGGACAACCCACT 58.854 50.000 0.00 0.00 40.82 4.00
2168 2190 2.032965 TTAGGCTGGACAACCCACTA 57.967 50.000 0.00 0.00 40.82 2.74
2169 2191 2.032965 TAGGCTGGACAACCCACTAA 57.967 50.000 0.00 0.00 40.82 2.24
2170 2192 1.145571 AGGCTGGACAACCCACTAAA 58.854 50.000 0.00 0.00 40.82 1.85
2171 2193 1.202891 AGGCTGGACAACCCACTAAAC 60.203 52.381 0.00 0.00 40.82 2.01
2172 2194 1.244816 GCTGGACAACCCACTAAACC 58.755 55.000 0.00 0.00 40.82 3.27
2173 2195 1.477923 GCTGGACAACCCACTAAACCA 60.478 52.381 0.00 0.00 40.82 3.67
2174 2196 2.504367 CTGGACAACCCACTAAACCAG 58.496 52.381 0.00 0.00 40.82 4.00
2175 2197 1.847737 TGGACAACCCACTAAACCAGT 59.152 47.619 0.00 0.00 40.82 4.00
2176 2198 3.047115 TGGACAACCCACTAAACCAGTA 58.953 45.455 0.00 0.00 40.82 2.74
2177 2199 3.181452 TGGACAACCCACTAAACCAGTAC 60.181 47.826 0.00 0.00 40.82 2.73
2178 2200 3.062042 GACAACCCACTAAACCAGTACG 58.938 50.000 0.00 0.00 34.98 3.67
2179 2201 2.699846 ACAACCCACTAAACCAGTACGA 59.300 45.455 0.00 0.00 34.98 3.43
2180 2202 3.243975 ACAACCCACTAAACCAGTACGAG 60.244 47.826 0.00 0.00 34.98 4.18
2181 2203 2.880443 ACCCACTAAACCAGTACGAGA 58.120 47.619 0.00 0.00 34.98 4.04
2182 2204 2.560105 ACCCACTAAACCAGTACGAGAC 59.440 50.000 0.00 0.00 34.98 3.36
2183 2205 2.824341 CCCACTAAACCAGTACGAGACT 59.176 50.000 0.00 0.00 39.82 3.24
2184 2206 3.257624 CCCACTAAACCAGTACGAGACTT 59.742 47.826 0.00 0.00 35.64 3.01
2185 2207 4.235360 CCACTAAACCAGTACGAGACTTG 58.765 47.826 0.00 0.00 35.64 3.16
2186 2208 4.235360 CACTAAACCAGTACGAGACTTGG 58.765 47.826 0.00 0.00 35.64 3.61
2187 2209 3.893813 ACTAAACCAGTACGAGACTTGGT 59.106 43.478 0.00 0.00 39.70 3.67
2188 2210 2.814280 AACCAGTACGAGACTTGGTG 57.186 50.000 3.21 0.00 38.68 4.17
2189 2211 1.700955 ACCAGTACGAGACTTGGTGT 58.299 50.000 1.66 0.00 37.84 4.16
2190 2212 2.037144 ACCAGTACGAGACTTGGTGTT 58.963 47.619 1.66 0.00 37.84 3.32
2191 2213 2.433239 ACCAGTACGAGACTTGGTGTTT 59.567 45.455 1.66 0.00 37.84 2.83
2192 2214 3.638160 ACCAGTACGAGACTTGGTGTTTA 59.362 43.478 1.66 0.00 37.84 2.01
2193 2215 4.235360 CCAGTACGAGACTTGGTGTTTAG 58.765 47.826 0.00 0.00 35.64 1.85
2194 2216 4.022589 CCAGTACGAGACTTGGTGTTTAGA 60.023 45.833 0.00 0.00 35.64 2.10
2195 2217 5.154932 CAGTACGAGACTTGGTGTTTAGAG 58.845 45.833 0.00 0.00 35.64 2.43
2196 2218 5.048921 CAGTACGAGACTTGGTGTTTAGAGA 60.049 44.000 0.00 0.00 35.64 3.10
2197 2219 4.931661 ACGAGACTTGGTGTTTAGAGAA 57.068 40.909 0.00 0.00 0.00 2.87
2198 2220 5.272283 ACGAGACTTGGTGTTTAGAGAAA 57.728 39.130 0.00 0.00 0.00 2.52
2199 2221 5.667466 ACGAGACTTGGTGTTTAGAGAAAA 58.333 37.500 0.00 0.00 0.00 2.29
2200 2222 5.753921 ACGAGACTTGGTGTTTAGAGAAAAG 59.246 40.000 0.00 0.00 0.00 2.27
2201 2223 5.983720 CGAGACTTGGTGTTTAGAGAAAAGA 59.016 40.000 0.00 0.00 0.00 2.52
2202 2224 6.479001 CGAGACTTGGTGTTTAGAGAAAAGAA 59.521 38.462 0.00 0.00 0.00 2.52
2203 2225 7.011109 CGAGACTTGGTGTTTAGAGAAAAGAAA 59.989 37.037 0.00 0.00 0.00 2.52
2204 2226 8.214721 AGACTTGGTGTTTAGAGAAAAGAAAG 57.785 34.615 0.00 0.00 0.00 2.62
2205 2227 8.047310 AGACTTGGTGTTTAGAGAAAAGAAAGA 58.953 33.333 0.00 0.00 0.00 2.52
2206 2228 8.753497 ACTTGGTGTTTAGAGAAAAGAAAGAT 57.247 30.769 0.00 0.00 0.00 2.40
2207 2229 8.841300 ACTTGGTGTTTAGAGAAAAGAAAGATC 58.159 33.333 0.00 0.00 0.00 2.75
2208 2230 8.746052 TTGGTGTTTAGAGAAAAGAAAGATCA 57.254 30.769 0.00 0.00 0.00 2.92
2209 2231 8.383318 TGGTGTTTAGAGAAAAGAAAGATCAG 57.617 34.615 0.00 0.00 0.00 2.90
2210 2232 7.041098 TGGTGTTTAGAGAAAAGAAAGATCAGC 60.041 37.037 0.00 0.00 0.00 4.26
2211 2233 7.041098 GGTGTTTAGAGAAAAGAAAGATCAGCA 60.041 37.037 0.00 0.00 0.00 4.41
2212 2234 8.345565 GTGTTTAGAGAAAAGAAAGATCAGCAA 58.654 33.333 0.00 0.00 0.00 3.91
2213 2235 8.902806 TGTTTAGAGAAAAGAAAGATCAGCAAA 58.097 29.630 0.00 0.00 0.00 3.68
2214 2236 9.905171 GTTTAGAGAAAAGAAAGATCAGCAAAT 57.095 29.630 0.00 0.00 0.00 2.32
2216 2238 7.756395 AGAGAAAAGAAAGATCAGCAAATCA 57.244 32.000 0.00 0.00 0.00 2.57
2217 2239 8.350852 AGAGAAAAGAAAGATCAGCAAATCAT 57.649 30.769 0.00 0.00 0.00 2.45
2218 2240 8.804204 AGAGAAAAGAAAGATCAGCAAATCATT 58.196 29.630 0.00 0.00 0.00 2.57
2219 2241 9.420551 GAGAAAAGAAAGATCAGCAAATCATTT 57.579 29.630 0.00 0.40 0.00 2.32
2224 2246 9.635520 AAGAAAGATCAGCAAATCATTTACTTG 57.364 29.630 0.00 0.00 0.00 3.16
2225 2247 9.017509 AGAAAGATCAGCAAATCATTTACTTGA 57.982 29.630 0.00 0.00 0.00 3.02
2226 2248 9.798994 GAAAGATCAGCAAATCATTTACTTGAT 57.201 29.630 0.00 3.91 37.96 2.57
2227 2249 9.798994 AAAGATCAGCAAATCATTTACTTGATC 57.201 29.630 15.98 15.98 35.29 2.92
2228 2250 8.749026 AGATCAGCAAATCATTTACTTGATCT 57.251 30.769 18.52 18.52 35.29 2.75
2229 2251 8.838365 AGATCAGCAAATCATTTACTTGATCTC 58.162 33.333 18.52 5.79 35.34 2.75
2230 2252 8.749026 ATCAGCAAATCATTTACTTGATCTCT 57.251 30.769 0.00 0.00 35.29 3.10
2231 2253 7.982224 TCAGCAAATCATTTACTTGATCTCTG 58.018 34.615 0.00 0.00 35.29 3.35
2232 2254 7.609146 TCAGCAAATCATTTACTTGATCTCTGT 59.391 33.333 0.00 0.00 35.29 3.41
2233 2255 7.696872 CAGCAAATCATTTACTTGATCTCTGTG 59.303 37.037 0.00 0.00 35.29 3.66
2234 2256 7.392673 AGCAAATCATTTACTTGATCTCTGTGT 59.607 33.333 0.00 0.00 35.29 3.72
2235 2257 8.025445 GCAAATCATTTACTTGATCTCTGTGTT 58.975 33.333 0.00 0.00 35.29 3.32
2236 2258 9.903682 CAAATCATTTACTTGATCTCTGTGTTT 57.096 29.630 0.00 0.00 35.29 2.83
2239 2261 8.099364 TCATTTACTTGATCTCTGTGTTTTCC 57.901 34.615 0.00 0.00 0.00 3.13
2240 2262 7.719193 TCATTTACTTGATCTCTGTGTTTTCCA 59.281 33.333 0.00 0.00 0.00 3.53
2241 2263 7.496529 TTTACTTGATCTCTGTGTTTTCCAG 57.503 36.000 0.00 0.00 0.00 3.86
2242 2264 5.296151 ACTTGATCTCTGTGTTTTCCAGA 57.704 39.130 0.00 0.00 37.40 3.86
2248 2270 3.904800 TCTGTGTTTTCCAGAGTGTCA 57.095 42.857 0.00 0.00 35.94 3.58
2249 2271 3.531538 TCTGTGTTTTCCAGAGTGTCAC 58.468 45.455 0.00 0.00 35.94 3.67
2250 2272 2.614057 CTGTGTTTTCCAGAGTGTCACC 59.386 50.000 0.00 0.00 29.96 4.02
2251 2273 2.026729 TGTGTTTTCCAGAGTGTCACCA 60.027 45.455 0.00 0.00 0.00 4.17
2252 2274 3.013921 GTGTTTTCCAGAGTGTCACCAA 58.986 45.455 0.00 0.00 0.00 3.67
2253 2275 3.632145 GTGTTTTCCAGAGTGTCACCAAT 59.368 43.478 0.00 0.00 0.00 3.16
2254 2276 3.631686 TGTTTTCCAGAGTGTCACCAATG 59.368 43.478 0.00 0.00 0.00 2.82
2255 2277 2.566833 TTCCAGAGTGTCACCAATGG 57.433 50.000 10.93 10.93 0.00 3.16
2256 2278 0.036732 TCCAGAGTGTCACCAATGGC 59.963 55.000 0.00 0.00 0.00 4.40
2257 2279 0.037303 CCAGAGTGTCACCAATGGCT 59.963 55.000 0.00 0.00 0.00 4.75
2258 2280 1.162698 CAGAGTGTCACCAATGGCTG 58.837 55.000 0.00 0.00 0.00 4.85
2266 2288 4.679412 CCAATGGCTGGTGCAAAC 57.321 55.556 0.00 0.00 40.78 2.93
2267 2289 1.373246 CCAATGGCTGGTGCAAACG 60.373 57.895 0.00 0.00 40.78 3.60
2268 2290 1.373246 CAATGGCTGGTGCAAACGG 60.373 57.895 0.00 0.00 41.91 4.44
2269 2291 1.530419 AATGGCTGGTGCAAACGGA 60.530 52.632 2.82 0.00 41.91 4.69
2270 2292 1.112315 AATGGCTGGTGCAAACGGAA 61.112 50.000 2.82 0.00 41.91 4.30
2271 2293 1.526575 ATGGCTGGTGCAAACGGAAG 61.527 55.000 2.82 0.00 41.91 3.46
2272 2294 2.193536 GGCTGGTGCAAACGGAAGT 61.194 57.895 2.82 0.00 44.75 3.01
2273 2295 1.008538 GCTGGTGCAAACGGAAGTG 60.009 57.895 2.82 0.00 41.56 3.16
2274 2296 1.724582 GCTGGTGCAAACGGAAGTGT 61.725 55.000 2.82 0.00 41.56 3.55
2275 2297 3.212894 GCTGGTGCAAACGGAAGTGTT 62.213 52.381 2.82 0.00 41.56 3.32
2282 2304 4.977393 ACGGAAGTGTTGTTGGCT 57.023 50.000 0.00 0.00 46.97 4.75
2283 2305 3.184736 ACGGAAGTGTTGTTGGCTT 57.815 47.368 0.00 0.00 46.97 4.35
2284 2306 0.738389 ACGGAAGTGTTGTTGGCTTG 59.262 50.000 0.00 0.00 46.97 4.01
2285 2307 0.738389 CGGAAGTGTTGTTGGCTTGT 59.262 50.000 0.00 0.00 0.00 3.16
2286 2308 1.134175 CGGAAGTGTTGTTGGCTTGTT 59.866 47.619 0.00 0.00 0.00 2.83
2287 2309 2.539476 GGAAGTGTTGTTGGCTTGTTG 58.461 47.619 0.00 0.00 0.00 3.33
2288 2310 1.926510 GAAGTGTTGTTGGCTTGTTGC 59.073 47.619 0.00 0.00 41.94 4.17
2289 2311 0.894141 AGTGTTGTTGGCTTGTTGCA 59.106 45.000 0.00 0.00 45.15 4.08
2290 2312 0.998669 GTGTTGTTGGCTTGTTGCAC 59.001 50.000 0.00 0.00 45.15 4.57
2291 2313 0.457509 TGTTGTTGGCTTGTTGCACG 60.458 50.000 0.00 0.00 45.15 5.34
2292 2314 0.179150 GTTGTTGGCTTGTTGCACGA 60.179 50.000 0.00 0.00 45.15 4.35
2293 2315 0.743688 TTGTTGGCTTGTTGCACGAT 59.256 45.000 0.00 0.00 45.15 3.73
2294 2316 0.310543 TGTTGGCTTGTTGCACGATC 59.689 50.000 0.00 0.00 45.15 3.69
2295 2317 0.387239 GTTGGCTTGTTGCACGATCC 60.387 55.000 0.00 0.00 45.15 3.36
2296 2318 0.821301 TTGGCTTGTTGCACGATCCA 60.821 50.000 0.00 0.00 45.15 3.41
2297 2319 0.821301 TGGCTTGTTGCACGATCCAA 60.821 50.000 0.00 0.00 45.15 3.53
2298 2320 0.313672 GGCTTGTTGCACGATCCAAA 59.686 50.000 0.00 0.00 45.15 3.28
2299 2321 1.408422 GCTTGTTGCACGATCCAAAC 58.592 50.000 0.00 0.00 42.31 2.93
2300 2322 1.001378 GCTTGTTGCACGATCCAAACT 60.001 47.619 0.00 0.00 42.31 2.66
2301 2323 2.225491 GCTTGTTGCACGATCCAAACTA 59.775 45.455 0.00 0.00 42.31 2.24
2302 2324 3.667960 GCTTGTTGCACGATCCAAACTAG 60.668 47.826 0.00 0.00 42.31 2.57
2303 2325 3.394674 TGTTGCACGATCCAAACTAGA 57.605 42.857 0.00 0.00 0.00 2.43
2304 2326 3.937814 TGTTGCACGATCCAAACTAGAT 58.062 40.909 0.00 0.00 0.00 1.98
2305 2327 5.079689 TGTTGCACGATCCAAACTAGATA 57.920 39.130 0.00 0.00 0.00 1.98
2306 2328 5.109210 TGTTGCACGATCCAAACTAGATAG 58.891 41.667 0.00 0.00 0.00 2.08
2307 2329 5.105513 TGTTGCACGATCCAAACTAGATAGA 60.106 40.000 0.00 0.00 0.00 1.98
2308 2330 5.592104 TGCACGATCCAAACTAGATAGAA 57.408 39.130 0.00 0.00 0.00 2.10
2309 2331 5.972935 TGCACGATCCAAACTAGATAGAAA 58.027 37.500 0.00 0.00 0.00 2.52
2310 2332 5.810587 TGCACGATCCAAACTAGATAGAAAC 59.189 40.000 0.00 0.00 0.00 2.78
2311 2333 5.810587 GCACGATCCAAACTAGATAGAAACA 59.189 40.000 0.00 0.00 0.00 2.83
2312 2334 6.237861 GCACGATCCAAACTAGATAGAAACAC 60.238 42.308 0.00 0.00 0.00 3.32
2313 2335 6.255887 CACGATCCAAACTAGATAGAAACACC 59.744 42.308 0.00 0.00 0.00 4.16
2314 2336 6.070995 ACGATCCAAACTAGATAGAAACACCA 60.071 38.462 0.00 0.00 0.00 4.17
2315 2337 6.477033 CGATCCAAACTAGATAGAAACACCAG 59.523 42.308 0.00 0.00 0.00 4.00
2316 2338 5.488341 TCCAAACTAGATAGAAACACCAGC 58.512 41.667 0.00 0.00 0.00 4.85
2317 2339 5.248477 TCCAAACTAGATAGAAACACCAGCT 59.752 40.000 0.00 0.00 0.00 4.24
2318 2340 6.439375 TCCAAACTAGATAGAAACACCAGCTA 59.561 38.462 0.00 0.00 0.00 3.32
2319 2341 7.038587 TCCAAACTAGATAGAAACACCAGCTAA 60.039 37.037 0.00 0.00 0.00 3.09
2320 2342 7.064728 CCAAACTAGATAGAAACACCAGCTAAC 59.935 40.741 0.00 0.00 0.00 2.34
2321 2343 6.223351 ACTAGATAGAAACACCAGCTAACC 57.777 41.667 0.00 0.00 0.00 2.85
2322 2344 5.720041 ACTAGATAGAAACACCAGCTAACCA 59.280 40.000 0.00 0.00 0.00 3.67
2323 2345 5.700402 AGATAGAAACACCAGCTAACCAT 57.300 39.130 0.00 0.00 0.00 3.55
2324 2346 5.431765 AGATAGAAACACCAGCTAACCATG 58.568 41.667 0.00 0.00 0.00 3.66
2325 2347 3.508845 AGAAACACCAGCTAACCATGT 57.491 42.857 0.00 0.00 0.00 3.21
2326 2348 4.634012 AGAAACACCAGCTAACCATGTA 57.366 40.909 0.00 0.00 0.00 2.29
2327 2349 4.980573 AGAAACACCAGCTAACCATGTAA 58.019 39.130 0.00 0.00 0.00 2.41
2328 2350 5.003804 AGAAACACCAGCTAACCATGTAAG 58.996 41.667 0.00 0.00 0.00 2.34
2329 2351 4.367039 AACACCAGCTAACCATGTAAGT 57.633 40.909 0.00 0.00 0.00 2.24
2330 2352 3.674997 ACACCAGCTAACCATGTAAGTG 58.325 45.455 0.00 0.00 0.00 3.16
2331 2353 3.009723 CACCAGCTAACCATGTAAGTGG 58.990 50.000 0.00 0.00 45.04 4.00
2332 2354 2.026262 ACCAGCTAACCATGTAAGTGGG 60.026 50.000 0.00 0.00 43.77 4.61
2333 2355 2.026262 CCAGCTAACCATGTAAGTGGGT 60.026 50.000 0.00 0.00 43.77 4.51
2334 2356 3.199071 CCAGCTAACCATGTAAGTGGGTA 59.801 47.826 0.00 0.00 43.77 3.69
2335 2357 4.323945 CCAGCTAACCATGTAAGTGGGTAA 60.324 45.833 0.00 0.00 40.77 2.85
2336 2358 4.876107 CAGCTAACCATGTAAGTGGGTAAG 59.124 45.833 0.00 0.00 40.77 2.34
2337 2359 3.626217 GCTAACCATGTAAGTGGGTAAGC 59.374 47.826 0.00 0.27 40.77 3.09
2338 2360 2.396590 ACCATGTAAGTGGGTAAGCG 57.603 50.000 0.00 0.00 43.77 4.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 7.654520 CAGGCATCTTCCCAAATATTTATGTTG 59.345 37.037 0.00 1.00 0.00 3.33
18 19 6.494491 TCCAGGCATCTTCCCAAATATTTATG 59.506 38.462 0.00 1.55 0.00 1.90
378 382 1.464734 TTTGACTTTTGCCGGACACA 58.535 45.000 5.05 0.00 0.00 3.72
433 438 3.177249 GCGAGCGTAACCCGACAC 61.177 66.667 0.00 0.00 39.56 3.67
578 583 5.288804 GTCAACCTTGCAAGCTTTATCAAA 58.711 37.500 21.43 0.00 0.00 2.69
616 621 5.361285 CAGAAGTAGTAGGTATTCCAGCACT 59.639 44.000 0.00 0.00 35.89 4.40
837 843 1.151587 AGGACATGACCAACCCCCT 60.152 57.895 16.63 0.00 0.00 4.79
888 894 4.618920 AAGTAGGTCGTGGTCAAAAGAT 57.381 40.909 0.00 0.00 0.00 2.40
969 975 2.288666 GCGCAATAGTCAATCTTCCCA 58.711 47.619 0.30 0.00 0.00 4.37
1459 1466 4.465446 AGGCTAGGGCGCTCCTCA 62.465 66.667 19.04 7.14 44.06 3.86
1535 1543 1.686587 TGTCGTGAATCACACTGAGGT 59.313 47.619 14.24 0.00 46.24 3.85
1541 1549 4.035017 CCAAAAACTGTCGTGAATCACAC 58.965 43.478 14.24 10.83 45.11 3.82
2068 2090 5.010213 GCTAGATTCTCTTCGGTAATCCACT 59.990 44.000 0.00 0.00 31.35 4.00
2069 2091 5.221263 TGCTAGATTCTCTTCGGTAATCCAC 60.221 44.000 0.00 0.00 31.35 4.02
2070 2092 4.893524 TGCTAGATTCTCTTCGGTAATCCA 59.106 41.667 0.00 0.00 31.35 3.41
2071 2093 5.455056 TGCTAGATTCTCTTCGGTAATCC 57.545 43.478 0.00 0.00 31.35 3.01
2072 2094 4.920927 GCTGCTAGATTCTCTTCGGTAATC 59.079 45.833 0.00 0.00 0.00 1.75
2073 2095 4.262249 GGCTGCTAGATTCTCTTCGGTAAT 60.262 45.833 0.00 0.00 0.00 1.89
2074 2096 3.068307 GGCTGCTAGATTCTCTTCGGTAA 59.932 47.826 0.00 0.00 0.00 2.85
2075 2097 2.623889 GGCTGCTAGATTCTCTTCGGTA 59.376 50.000 0.00 0.00 0.00 4.02
2076 2098 1.410882 GGCTGCTAGATTCTCTTCGGT 59.589 52.381 0.00 0.00 0.00 4.69
2077 2099 1.686052 AGGCTGCTAGATTCTCTTCGG 59.314 52.381 0.00 0.00 0.00 4.30
2078 2100 2.741612 CAGGCTGCTAGATTCTCTTCG 58.258 52.381 0.00 0.00 0.00 3.79
2079 2101 2.158986 TGCAGGCTGCTAGATTCTCTTC 60.159 50.000 36.50 6.99 45.31 2.87
2080 2102 1.836166 TGCAGGCTGCTAGATTCTCTT 59.164 47.619 36.50 0.00 45.31 2.85
2081 2103 1.493861 TGCAGGCTGCTAGATTCTCT 58.506 50.000 36.50 0.00 45.31 3.10
2082 2104 2.547299 ATGCAGGCTGCTAGATTCTC 57.453 50.000 36.50 8.46 45.31 2.87
2083 2105 3.390639 AGTTATGCAGGCTGCTAGATTCT 59.609 43.478 36.50 23.31 45.31 2.40
2084 2106 3.497640 CAGTTATGCAGGCTGCTAGATTC 59.502 47.826 36.50 21.74 45.31 2.52
2085 2107 3.474600 CAGTTATGCAGGCTGCTAGATT 58.525 45.455 36.50 18.65 45.31 2.40
2086 2108 3.123157 CAGTTATGCAGGCTGCTAGAT 57.877 47.619 36.50 25.02 45.31 1.98
2087 2109 2.609427 CAGTTATGCAGGCTGCTAGA 57.391 50.000 36.50 20.09 45.31 2.43
2099 2121 2.947652 CTGGGTTGGATGAGCAGTTATG 59.052 50.000 0.00 0.00 0.00 1.90
2100 2122 2.684927 GCTGGGTTGGATGAGCAGTTAT 60.685 50.000 0.00 0.00 0.00 1.89
2101 2123 1.340017 GCTGGGTTGGATGAGCAGTTA 60.340 52.381 0.00 0.00 0.00 2.24
2102 2124 0.610232 GCTGGGTTGGATGAGCAGTT 60.610 55.000 0.00 0.00 0.00 3.16
2103 2125 1.001641 GCTGGGTTGGATGAGCAGT 60.002 57.895 0.00 0.00 0.00 4.40
2104 2126 0.395311 ATGCTGGGTTGGATGAGCAG 60.395 55.000 0.00 0.00 44.30 4.24
2105 2127 0.681887 CATGCTGGGTTGGATGAGCA 60.682 55.000 0.00 0.00 45.12 4.26
2106 2128 0.394762 TCATGCTGGGTTGGATGAGC 60.395 55.000 0.00 0.00 39.31 4.26
2107 2129 3.888424 TCATGCTGGGTTGGATGAG 57.112 52.632 0.00 0.00 39.31 2.90
2108 2130 0.256752 CCTCATGCTGGGTTGGATGA 59.743 55.000 0.00 0.00 41.34 2.92
2109 2131 0.033796 ACCTCATGCTGGGTTGGATG 60.034 55.000 8.97 0.00 37.16 3.51
2110 2132 1.595311 TACCTCATGCTGGGTTGGAT 58.405 50.000 9.44 0.00 37.07 3.41
2111 2133 1.490490 GATACCTCATGCTGGGTTGGA 59.510 52.381 9.44 0.00 37.07 3.53
2112 2134 1.212688 TGATACCTCATGCTGGGTTGG 59.787 52.381 9.44 0.00 37.07 3.77
2113 2135 2.715749 TGATACCTCATGCTGGGTTG 57.284 50.000 9.44 0.00 37.07 3.77
2114 2136 2.779430 TGATGATACCTCATGCTGGGTT 59.221 45.455 9.44 0.00 42.27 4.11
2115 2137 2.411583 TGATGATACCTCATGCTGGGT 58.588 47.619 8.97 9.09 42.27 4.51
2116 2138 3.715638 ATGATGATACCTCATGCTGGG 57.284 47.619 8.97 4.11 42.27 4.45
2117 2139 4.634883 GCTAATGATGATACCTCATGCTGG 59.365 45.833 3.48 3.48 42.27 4.85
2118 2140 4.329256 CGCTAATGATGATACCTCATGCTG 59.671 45.833 0.00 0.00 42.27 4.41
2119 2141 4.020751 ACGCTAATGATGATACCTCATGCT 60.021 41.667 0.00 0.00 42.27 3.79
2120 2142 4.248859 ACGCTAATGATGATACCTCATGC 58.751 43.478 0.00 0.00 42.27 4.06
2121 2143 6.648310 AGAAACGCTAATGATGATACCTCATG 59.352 38.462 0.00 0.00 42.27 3.07
2122 2144 6.763355 AGAAACGCTAATGATGATACCTCAT 58.237 36.000 0.00 0.00 44.93 2.90
2123 2145 6.161855 AGAAACGCTAATGATGATACCTCA 57.838 37.500 0.00 0.00 35.41 3.86
2124 2146 7.484035 AAAGAAACGCTAATGATGATACCTC 57.516 36.000 0.00 0.00 0.00 3.85
2125 2147 7.865706 AAAAGAAACGCTAATGATGATACCT 57.134 32.000 0.00 0.00 0.00 3.08
2126 2148 9.651718 CTAAAAAGAAACGCTAATGATGATACC 57.348 33.333 0.00 0.00 0.00 2.73
2127 2149 9.651718 CCTAAAAAGAAACGCTAATGATGATAC 57.348 33.333 0.00 0.00 0.00 2.24
2128 2150 8.342634 GCCTAAAAAGAAACGCTAATGATGATA 58.657 33.333 0.00 0.00 0.00 2.15
2129 2151 7.067494 AGCCTAAAAAGAAACGCTAATGATGAT 59.933 33.333 0.00 0.00 0.00 2.45
2130 2152 6.374333 AGCCTAAAAAGAAACGCTAATGATGA 59.626 34.615 0.00 0.00 0.00 2.92
2131 2153 6.470235 CAGCCTAAAAAGAAACGCTAATGATG 59.530 38.462 0.00 0.00 0.00 3.07
2132 2154 6.404734 CCAGCCTAAAAAGAAACGCTAATGAT 60.405 38.462 0.00 0.00 0.00 2.45
2133 2155 5.106317 CCAGCCTAAAAAGAAACGCTAATGA 60.106 40.000 0.00 0.00 0.00 2.57
2134 2156 5.095490 CCAGCCTAAAAAGAAACGCTAATG 58.905 41.667 0.00 0.00 0.00 1.90
2135 2157 5.007682 TCCAGCCTAAAAAGAAACGCTAAT 58.992 37.500 0.00 0.00 0.00 1.73
2136 2158 4.214758 GTCCAGCCTAAAAAGAAACGCTAA 59.785 41.667 0.00 0.00 0.00 3.09
2137 2159 3.749609 GTCCAGCCTAAAAAGAAACGCTA 59.250 43.478 0.00 0.00 0.00 4.26
2138 2160 2.552743 GTCCAGCCTAAAAAGAAACGCT 59.447 45.455 0.00 0.00 0.00 5.07
2139 2161 2.292292 TGTCCAGCCTAAAAAGAAACGC 59.708 45.455 0.00 0.00 0.00 4.84
2140 2162 4.287720 GTTGTCCAGCCTAAAAAGAAACG 58.712 43.478 0.00 0.00 0.00 3.60
2141 2163 4.500887 GGGTTGTCCAGCCTAAAAAGAAAC 60.501 45.833 0.06 0.00 40.32 2.78
2142 2164 3.639561 GGGTTGTCCAGCCTAAAAAGAAA 59.360 43.478 0.06 0.00 40.32 2.52
2143 2165 3.227614 GGGTTGTCCAGCCTAAAAAGAA 58.772 45.455 0.06 0.00 40.32 2.52
2144 2166 2.175931 TGGGTTGTCCAGCCTAAAAAGA 59.824 45.455 0.06 0.00 44.37 2.52
2145 2167 2.593026 TGGGTTGTCCAGCCTAAAAAG 58.407 47.619 0.06 0.00 44.37 2.27
2146 2168 2.757894 TGGGTTGTCCAGCCTAAAAA 57.242 45.000 0.06 0.00 44.37 1.94
2155 2177 1.847737 ACTGGTTTAGTGGGTTGTCCA 59.152 47.619 0.00 0.00 44.79 4.02
2156 2178 2.651382 ACTGGTTTAGTGGGTTGTCC 57.349 50.000 0.00 0.00 38.49 4.02
2157 2179 3.062042 CGTACTGGTTTAGTGGGTTGTC 58.938 50.000 0.00 0.00 40.65 3.18
2158 2180 2.699846 TCGTACTGGTTTAGTGGGTTGT 59.300 45.455 0.00 0.00 40.65 3.32
2159 2181 3.006110 TCTCGTACTGGTTTAGTGGGTTG 59.994 47.826 0.00 0.00 40.65 3.77
2160 2182 3.006217 GTCTCGTACTGGTTTAGTGGGTT 59.994 47.826 0.00 0.00 40.65 4.11
2161 2183 2.560105 GTCTCGTACTGGTTTAGTGGGT 59.440 50.000 0.00 0.00 40.65 4.51
2162 2184 2.824341 AGTCTCGTACTGGTTTAGTGGG 59.176 50.000 0.00 0.00 40.65 4.61
2163 2185 4.235360 CAAGTCTCGTACTGGTTTAGTGG 58.765 47.826 0.00 0.00 40.65 4.00
2164 2186 4.235360 CCAAGTCTCGTACTGGTTTAGTG 58.765 47.826 0.00 0.00 40.65 2.74
2165 2187 3.893813 ACCAAGTCTCGTACTGGTTTAGT 59.106 43.478 0.00 0.00 43.56 2.24
2166 2188 4.235360 CACCAAGTCTCGTACTGGTTTAG 58.765 47.826 0.00 0.00 38.88 1.85
2167 2189 3.638160 ACACCAAGTCTCGTACTGGTTTA 59.362 43.478 0.00 0.00 38.88 2.01
2168 2190 2.433239 ACACCAAGTCTCGTACTGGTTT 59.567 45.455 0.00 0.00 38.88 3.27
2169 2191 2.037144 ACACCAAGTCTCGTACTGGTT 58.963 47.619 0.00 0.00 38.88 3.67
2170 2192 1.700955 ACACCAAGTCTCGTACTGGT 58.299 50.000 0.00 0.00 38.88 4.00
2171 2193 2.814280 AACACCAAGTCTCGTACTGG 57.186 50.000 0.00 0.00 38.88 4.00
2172 2194 5.048921 TCTCTAAACACCAAGTCTCGTACTG 60.049 44.000 0.00 0.00 38.88 2.74
2173 2195 5.068636 TCTCTAAACACCAAGTCTCGTACT 58.931 41.667 0.00 0.00 41.49 2.73
2174 2196 5.368256 TCTCTAAACACCAAGTCTCGTAC 57.632 43.478 0.00 0.00 0.00 3.67
2175 2197 6.395426 TTTCTCTAAACACCAAGTCTCGTA 57.605 37.500 0.00 0.00 0.00 3.43
2176 2198 4.931661 TTCTCTAAACACCAAGTCTCGT 57.068 40.909 0.00 0.00 0.00 4.18
2177 2199 5.983720 TCTTTTCTCTAAACACCAAGTCTCG 59.016 40.000 0.00 0.00 0.00 4.04
2178 2200 7.787725 TTCTTTTCTCTAAACACCAAGTCTC 57.212 36.000 0.00 0.00 0.00 3.36
2179 2201 8.047310 TCTTTCTTTTCTCTAAACACCAAGTCT 58.953 33.333 0.00 0.00 0.00 3.24
2180 2202 8.209917 TCTTTCTTTTCTCTAAACACCAAGTC 57.790 34.615 0.00 0.00 0.00 3.01
2181 2203 8.753497 ATCTTTCTTTTCTCTAAACACCAAGT 57.247 30.769 0.00 0.00 0.00 3.16
2182 2204 8.840321 TGATCTTTCTTTTCTCTAAACACCAAG 58.160 33.333 0.00 0.00 0.00 3.61
2183 2205 8.746052 TGATCTTTCTTTTCTCTAAACACCAA 57.254 30.769 0.00 0.00 0.00 3.67
2184 2206 7.041098 GCTGATCTTTCTTTTCTCTAAACACCA 60.041 37.037 0.00 0.00 0.00 4.17
2185 2207 7.041098 TGCTGATCTTTCTTTTCTCTAAACACC 60.041 37.037 0.00 0.00 0.00 4.16
2186 2208 7.865707 TGCTGATCTTTCTTTTCTCTAAACAC 58.134 34.615 0.00 0.00 0.00 3.32
2187 2209 8.450578 TTGCTGATCTTTCTTTTCTCTAAACA 57.549 30.769 0.00 0.00 0.00 2.83
2188 2210 9.905171 ATTTGCTGATCTTTCTTTTCTCTAAAC 57.095 29.630 0.00 0.00 0.00 2.01
2190 2212 9.288576 TGATTTGCTGATCTTTCTTTTCTCTAA 57.711 29.630 0.00 0.00 0.00 2.10
2191 2213 8.853077 TGATTTGCTGATCTTTCTTTTCTCTA 57.147 30.769 0.00 0.00 0.00 2.43
2192 2214 7.756395 TGATTTGCTGATCTTTCTTTTCTCT 57.244 32.000 0.00 0.00 0.00 3.10
2193 2215 8.983307 AATGATTTGCTGATCTTTCTTTTCTC 57.017 30.769 0.00 0.00 0.00 2.87
2198 2220 9.635520 CAAGTAAATGATTTGCTGATCTTTCTT 57.364 29.630 9.24 0.00 35.71 2.52
2199 2221 9.017509 TCAAGTAAATGATTTGCTGATCTTTCT 57.982 29.630 9.24 0.00 35.71 2.52
2200 2222 9.798994 ATCAAGTAAATGATTTGCTGATCTTTC 57.201 29.630 9.24 0.00 36.67 2.62
2201 2223 9.798994 GATCAAGTAAATGATTTGCTGATCTTT 57.201 29.630 23.70 5.86 40.08 2.52
2202 2224 9.186837 AGATCAAGTAAATGATTTGCTGATCTT 57.813 29.630 25.66 17.80 41.39 2.40
2203 2225 8.749026 AGATCAAGTAAATGATTTGCTGATCT 57.251 30.769 25.66 25.66 40.58 2.75
2204 2226 8.838365 AGAGATCAAGTAAATGATTTGCTGATC 58.162 33.333 23.63 23.63 40.08 2.92
2205 2227 8.622157 CAGAGATCAAGTAAATGATTTGCTGAT 58.378 33.333 9.24 12.86 40.08 2.90
2206 2228 7.609146 ACAGAGATCAAGTAAATGATTTGCTGA 59.391 33.333 9.24 9.23 40.08 4.26
2207 2229 7.696872 CACAGAGATCAAGTAAATGATTTGCTG 59.303 37.037 9.24 4.63 40.08 4.41
2208 2230 7.392673 ACACAGAGATCAAGTAAATGATTTGCT 59.607 33.333 2.55 2.55 40.08 3.91
2209 2231 7.533426 ACACAGAGATCAAGTAAATGATTTGC 58.467 34.615 0.00 0.00 40.08 3.68
2210 2232 9.903682 AAACACAGAGATCAAGTAAATGATTTG 57.096 29.630 0.00 0.00 40.08 2.32
2213 2235 8.734386 GGAAAACACAGAGATCAAGTAAATGAT 58.266 33.333 0.00 0.00 42.62 2.45
2214 2236 7.719193 TGGAAAACACAGAGATCAAGTAAATGA 59.281 33.333 0.00 0.00 0.00 2.57
2215 2237 7.874940 TGGAAAACACAGAGATCAAGTAAATG 58.125 34.615 0.00 0.00 0.00 2.32
2216 2238 7.939039 TCTGGAAAACACAGAGATCAAGTAAAT 59.061 33.333 0.00 0.00 39.87 1.40
2217 2239 7.279615 TCTGGAAAACACAGAGATCAAGTAAA 58.720 34.615 0.00 0.00 39.87 2.01
2218 2240 6.826668 TCTGGAAAACACAGAGATCAAGTAA 58.173 36.000 0.00 0.00 39.87 2.24
2219 2241 6.419484 TCTGGAAAACACAGAGATCAAGTA 57.581 37.500 0.00 0.00 39.87 2.24
2220 2242 5.296151 TCTGGAAAACACAGAGATCAAGT 57.704 39.130 0.00 0.00 39.87 3.16
2228 2250 3.531538 GTGACACTCTGGAAAACACAGA 58.468 45.455 0.00 0.00 42.31 3.41
2229 2251 2.614057 GGTGACACTCTGGAAAACACAG 59.386 50.000 5.39 0.00 37.30 3.66
2230 2252 2.026729 TGGTGACACTCTGGAAAACACA 60.027 45.455 5.39 0.00 33.40 3.72
2231 2253 2.639065 TGGTGACACTCTGGAAAACAC 58.361 47.619 5.39 0.00 33.40 3.32
2232 2254 3.358111 TTGGTGACACTCTGGAAAACA 57.642 42.857 5.39 0.00 42.67 2.83
2233 2255 3.004734 CCATTGGTGACACTCTGGAAAAC 59.995 47.826 5.39 0.00 42.67 2.43
2234 2256 3.221771 CCATTGGTGACACTCTGGAAAA 58.778 45.455 5.39 0.00 42.67 2.29
2235 2257 2.862541 CCATTGGTGACACTCTGGAAA 58.137 47.619 5.39 0.00 42.67 3.13
2236 2258 1.545428 GCCATTGGTGACACTCTGGAA 60.545 52.381 19.27 2.77 42.67 3.53
2237 2259 0.036732 GCCATTGGTGACACTCTGGA 59.963 55.000 19.27 0.00 42.67 3.86
2238 2260 0.037303 AGCCATTGGTGACACTCTGG 59.963 55.000 5.39 10.67 42.67 3.86
2239 2261 1.162698 CAGCCATTGGTGACACTCTG 58.837 55.000 5.39 0.00 42.66 3.35
2240 2262 0.037303 CCAGCCATTGGTGACACTCT 59.963 55.000 5.39 0.00 42.66 3.24
2241 2263 2.559785 CCAGCCATTGGTGACACTC 58.440 57.895 5.39 0.00 42.66 3.51
2242 2264 4.828409 CCAGCCATTGGTGACACT 57.172 55.556 5.39 0.00 42.66 3.55
2250 2272 1.373246 CCGTTTGCACCAGCCATTG 60.373 57.895 0.00 0.00 41.13 2.82
2251 2273 1.112315 TTCCGTTTGCACCAGCCATT 61.112 50.000 0.00 0.00 41.13 3.16
2252 2274 1.526575 CTTCCGTTTGCACCAGCCAT 61.527 55.000 0.00 0.00 41.13 4.40
2253 2275 2.124109 TTCCGTTTGCACCAGCCA 60.124 55.556 0.00 0.00 41.13 4.75
2254 2276 2.193536 ACTTCCGTTTGCACCAGCC 61.194 57.895 0.00 0.00 41.13 4.85
2255 2277 1.008538 CACTTCCGTTTGCACCAGC 60.009 57.895 0.00 0.00 42.57 4.85
2256 2278 0.738389 AACACTTCCGTTTGCACCAG 59.262 50.000 0.00 0.00 0.00 4.00
2257 2279 0.453793 CAACACTTCCGTTTGCACCA 59.546 50.000 0.00 0.00 0.00 4.17
2258 2280 0.454196 ACAACACTTCCGTTTGCACC 59.546 50.000 0.00 0.00 0.00 5.01
2259 2281 1.917303 CAACAACACTTCCGTTTGCAC 59.083 47.619 0.00 0.00 0.00 4.57
2260 2282 1.135257 CCAACAACACTTCCGTTTGCA 60.135 47.619 0.00 0.00 0.00 4.08
2261 2283 1.555477 CCAACAACACTTCCGTTTGC 58.445 50.000 0.00 0.00 0.00 3.68
2262 2284 1.134175 AGCCAACAACACTTCCGTTTG 59.866 47.619 0.00 0.00 0.00 2.93
2263 2285 1.470051 AGCCAACAACACTTCCGTTT 58.530 45.000 0.00 0.00 0.00 3.60
2264 2286 1.134175 CAAGCCAACAACACTTCCGTT 59.866 47.619 0.00 0.00 0.00 4.44
2265 2287 0.738389 CAAGCCAACAACACTTCCGT 59.262 50.000 0.00 0.00 0.00 4.69
2266 2288 0.738389 ACAAGCCAACAACACTTCCG 59.262 50.000 0.00 0.00 0.00 4.30
2267 2289 2.539476 CAACAAGCCAACAACACTTCC 58.461 47.619 0.00 0.00 0.00 3.46
2268 2290 1.926510 GCAACAAGCCAACAACACTTC 59.073 47.619 0.00 0.00 37.23 3.01
2269 2291 1.274728 TGCAACAAGCCAACAACACTT 59.725 42.857 0.00 0.00 44.83 3.16
2270 2292 0.894141 TGCAACAAGCCAACAACACT 59.106 45.000 0.00 0.00 44.83 3.55
2271 2293 0.998669 GTGCAACAAGCCAACAACAC 59.001 50.000 0.00 0.00 44.83 3.32
2272 2294 0.457509 CGTGCAACAAGCCAACAACA 60.458 50.000 0.00 0.00 44.83 3.33
2273 2295 0.179150 TCGTGCAACAAGCCAACAAC 60.179 50.000 0.00 0.00 44.83 3.32
2274 2296 0.743688 ATCGTGCAACAAGCCAACAA 59.256 45.000 0.00 0.00 44.83 2.83
2275 2297 0.310543 GATCGTGCAACAAGCCAACA 59.689 50.000 0.00 0.00 44.83 3.33
2276 2298 0.387239 GGATCGTGCAACAAGCCAAC 60.387 55.000 0.00 0.00 44.83 3.77
2277 2299 0.821301 TGGATCGTGCAACAAGCCAA 60.821 50.000 0.00 0.00 44.83 4.52
2278 2300 0.821301 TTGGATCGTGCAACAAGCCA 60.821 50.000 0.00 0.00 44.83 4.75
2279 2301 0.313672 TTTGGATCGTGCAACAAGCC 59.686 50.000 0.00 0.00 44.83 4.35
2280 2302 1.001378 AGTTTGGATCGTGCAACAAGC 60.001 47.619 0.00 0.00 45.96 4.01
2281 2303 3.745975 TCTAGTTTGGATCGTGCAACAAG 59.254 43.478 0.00 0.00 35.74 3.16
2282 2304 3.734463 TCTAGTTTGGATCGTGCAACAA 58.266 40.909 0.00 0.00 35.74 2.83
2283 2305 3.394674 TCTAGTTTGGATCGTGCAACA 57.605 42.857 0.00 0.00 35.74 3.33
2284 2306 5.348986 TCTATCTAGTTTGGATCGTGCAAC 58.651 41.667 0.00 0.00 0.00 4.17
2285 2307 5.592104 TCTATCTAGTTTGGATCGTGCAA 57.408 39.130 0.00 0.00 0.00 4.08
2286 2308 5.592104 TTCTATCTAGTTTGGATCGTGCA 57.408 39.130 0.00 0.00 0.00 4.57
2287 2309 5.810587 TGTTTCTATCTAGTTTGGATCGTGC 59.189 40.000 0.00 0.00 0.00 5.34
2288 2310 6.255887 GGTGTTTCTATCTAGTTTGGATCGTG 59.744 42.308 0.00 0.00 0.00 4.35
2289 2311 6.070995 TGGTGTTTCTATCTAGTTTGGATCGT 60.071 38.462 0.00 0.00 0.00 3.73
2290 2312 6.338146 TGGTGTTTCTATCTAGTTTGGATCG 58.662 40.000 0.00 0.00 0.00 3.69
2291 2313 6.258947 GCTGGTGTTTCTATCTAGTTTGGATC 59.741 42.308 0.00 0.00 0.00 3.36
2292 2314 6.069963 AGCTGGTGTTTCTATCTAGTTTGGAT 60.070 38.462 0.00 0.00 0.00 3.41
2293 2315 5.248477 AGCTGGTGTTTCTATCTAGTTTGGA 59.752 40.000 0.00 0.00 0.00 3.53
2294 2316 5.491982 AGCTGGTGTTTCTATCTAGTTTGG 58.508 41.667 0.00 0.00 0.00 3.28
2295 2317 7.064728 GGTTAGCTGGTGTTTCTATCTAGTTTG 59.935 40.741 0.00 0.00 0.00 2.93
2296 2318 7.104290 GGTTAGCTGGTGTTTCTATCTAGTTT 58.896 38.462 0.00 0.00 0.00 2.66
2297 2319 6.212791 TGGTTAGCTGGTGTTTCTATCTAGTT 59.787 38.462 0.00 0.00 0.00 2.24
2298 2320 5.720041 TGGTTAGCTGGTGTTTCTATCTAGT 59.280 40.000 0.00 0.00 0.00 2.57
2299 2321 6.222038 TGGTTAGCTGGTGTTTCTATCTAG 57.778 41.667 0.00 0.00 0.00 2.43
2300 2322 6.156256 ACATGGTTAGCTGGTGTTTCTATCTA 59.844 38.462 0.00 0.00 0.00 1.98
2301 2323 5.045578 ACATGGTTAGCTGGTGTTTCTATCT 60.046 40.000 0.00 0.00 0.00 1.98
2302 2324 5.186198 ACATGGTTAGCTGGTGTTTCTATC 58.814 41.667 0.00 0.00 0.00 2.08
2303 2325 5.179452 ACATGGTTAGCTGGTGTTTCTAT 57.821 39.130 0.00 0.00 0.00 1.98
2304 2326 4.634012 ACATGGTTAGCTGGTGTTTCTA 57.366 40.909 0.00 0.00 0.00 2.10
2305 2327 3.508845 ACATGGTTAGCTGGTGTTTCT 57.491 42.857 0.00 0.00 0.00 2.52
2306 2328 4.760204 ACTTACATGGTTAGCTGGTGTTTC 59.240 41.667 0.00 0.00 0.00 2.78
2307 2329 4.518970 CACTTACATGGTTAGCTGGTGTTT 59.481 41.667 0.00 0.00 0.00 2.83
2308 2330 4.072131 CACTTACATGGTTAGCTGGTGTT 58.928 43.478 0.00 0.00 0.00 3.32
2309 2331 3.559171 CCACTTACATGGTTAGCTGGTGT 60.559 47.826 0.00 0.00 34.77 4.16
2310 2332 3.009723 CCACTTACATGGTTAGCTGGTG 58.990 50.000 0.00 0.00 34.77 4.17
2311 2333 2.026262 CCCACTTACATGGTTAGCTGGT 60.026 50.000 0.00 0.00 38.16 4.00
2312 2334 2.026262 ACCCACTTACATGGTTAGCTGG 60.026 50.000 0.00 2.52 38.16 4.85
2313 2335 3.350219 ACCCACTTACATGGTTAGCTG 57.650 47.619 0.00 0.00 38.16 4.24
2314 2336 4.625564 GCTTACCCACTTACATGGTTAGCT 60.626 45.833 10.64 0.00 46.17 3.32
2315 2337 3.626217 GCTTACCCACTTACATGGTTAGC 59.374 47.826 0.00 3.53 44.47 3.09
2316 2338 3.869246 CGCTTACCCACTTACATGGTTAG 59.131 47.826 0.00 0.00 38.16 2.34
2317 2339 3.864243 CGCTTACCCACTTACATGGTTA 58.136 45.455 0.00 0.00 38.16 2.85
2318 2340 2.706890 CGCTTACCCACTTACATGGTT 58.293 47.619 0.00 0.00 38.16 3.67
2319 2341 2.396590 CGCTTACCCACTTACATGGT 57.603 50.000 0.00 0.00 38.16 3.55


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

AutoCloner maintained by Alex Coulton.