Locus 60

Sequence ID Eco_1
Location 3,069,291 – 3,069,419
Length 128
Max. P 0.989701
window190 window191 window192 window193

overview

Window 0

Location 3,069,291 – 3,069,411
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.39
Mean single sequence MFE -32.80
Consensus MFE -29.79
Energy contribution -31.13
Covariance contribution 1.34
Combinations/Pair 1.06
Mean z-score -3.22
Structure conservation index 0.91
SVM decision value 2.18
SVM RNA-class probability 0.989701
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3069291 120 + 1
CUUAUACUCGUCAUACUUCAAGUUGCAUGUGCUGCGUCUGCGUUCGCUCACCCCAGUCACUUACUUAUGUAAGCUCCUGGGGAUUCACUCUCUUGUCGCCUUCCUGCAACUCGAAUUAUU
............(((.(((.(((((((.(....(((.(.((....))...((((((...(((((....)))))...))))))............).)))...).))))))).))).))). ( -33.20)
>Sty_1 1 120 + 1
CUUAUACUCGUCAUACUUCAAGUUGCAUGUGCUGCGGCCGCGUUCCCUCACCCCAGUCACUUACUUUAGUAAGCUCCUGGGGAUUCGCUCGCUUGCCGCCUUCCUGCAACUCGAAUUAUU
............(((.(((.(((((((.(....(((((.(((........((((((...(((((....)))))...)))))).......)))..)))))...).))))))).))).))). ( -40.56)
>Ype_1 1 119 + 1
-UUAUACUCGUCAUACUUCAAGCUGCAUAUGCGUUGGCUGCUCUCUUUCACCCGAAUCACUUACUGCAGUAAGCUCAUCGGGACUCUCUCGCUUGCCGCCUUCCUGCAACUCGAAUUAUU
-...........(((.(((.((.((((...(.((.(((.((.........(((((....(((((....)))))....)))))........))..))))))....)))).)).))).))). ( -24.63)
>consensus
CUUAUACUCGUCAUACUUCAAGUUGCAUGUGCUGCGGCUGCGUUCCCUCACCCCAGUCACUUACUUAAGUAAGCUCCUGGGGAUUCACUCGCUUGCCGCCUUCCUGCAACUCGAAUUAUU
............(((.(((.(((((((......(((((.(((........((((((...(((((....)))))...)))))).......)))..))))).....))))))).))).))). (-29.79 = -31.13 +   1.34)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,069,291 – 3,069,411
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.39
Mean single sequence MFE -45.43
Consensus MFE -41.01
Energy contribution -41.68
Covariance contribution 0.67
Combinations/Pair 1.06
Mean z-score -4.99
Structure conservation index 0.90
SVM decision value 1.51
SVM RNA-class probability 0.960415
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3069291 120 - 1
AAUAAUUCGAGUUGCAGGAAGGCGACAAGAGAGUGAAUCCCCAGGAGCUUACAUAAGUAAGUGACUGGGGUGAGCGAACGCAGACGCAGCACAUGCAACUUGAAGUAUGACGAGUAUAAG
.(((.(((((((((((.(...(((..............((((((..((((((....))))))..))))))...((....))...)))..)...))))))))))).)))............ ( -43.80)
>Sty_1 1 120 - 1
AAUAAUUCGAGUUGCAGGAAGGCGGCAAGCGAGCGAAUCCCCAGGAGCUUACUAAAGUAAGUGACUGGGGUGAGGGAACGCGGCCGCAGCACAUGCAACUUGAAGUAUGACGAGUAUAAG
.(((.(((((((((((.(...(((((..(((..(....((((((..((((((....))))))..)))))).....)..))).)))))..)...))))))))))).)))............ ( -53.10)
>Ype_1 1 119 - 1
AAUAAUUCGAGUUGCAGGAAGGCGGCAAGCGAGAGAGUCCCGAUGAGCUUACUGCAGUAAGUGAUUCGGGUGAAAGAGAGCAGCCAACGCAUAUGCAGCUUGAAGUAUGACGAGUAUAA-
.(((.(((((((((((.(..(((.((...(....)...(((((...((((((....))))))...))))).........)).)))....)...))))))))))).)))...........- ( -39.40)
>consensus
AAUAAUUCGAGUUGCAGGAAGGCGGCAAGCGAGAGAAUCCCCAGGAGCUUACUAAAGUAAGUGACUGGGGUGAGAGAACGCAGCCGCAGCACAUGCAACUUGAAGUAUGACGAGUAUAAG
.(((.(((((((((((.(...(((((............((((((..((((((....))))))..))))))............)))))..)...))))))))))).)))............ (-41.01 = -41.68 +   0.67)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,069,299 – 3,069,419
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.39
Mean single sequence MFE -32.80
Consensus MFE -29.79
Energy contribution -31.13
Covariance contribution 1.34
Combinations/Pair 1.06
Mean z-score -2.04
Structure conservation index 0.91
SVM decision value 1.17
SVM RNA-class probability 0.925388
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3069299 120 + 1
CGUCAUACUUCAAGUUGCAUGUGCUGCGUCUGCGUUCGCUCACCCCAGUCACUUACUUAUGUAAGCUCCUGGGGAUUCACUCUCUUGUCGCCUUCCUGCAACUCGAAUUAUUUAGAGUAU
....(((.(((.(((((((.(....(((.(.((....))...((((((...(((((....)))))...))))))............).)))...).))))))).))).)))......... ( -33.20)
>Sty_1 9 120 + 1
CGUCAUACUUCAAGUUGCAUGUGCUGCGGCCGCGUUCCCUCACCCCAGUCACUUACUUUAGUAAGCUCCUGGGGAUUCGCUCGCUUGCCGCCUUCCUGCAACUCGAAUUAUUUAGAGUAU
....(((.(((.(((((((.(....(((((.(((........((((((...(((((....)))))...)))))).......)))..)))))...).))))))).))).)))......... ( -40.56)
>Ype_1 8 120 + 1
CGUCAUACUUCAAGCUGCAUAUGCGUUGGCUGCUCUCUUUCACCCGAAUCACUUACUGCAGUAAGCUCAUCGGGACUCUCUCGCUUGCCGCCUUCCUGCAACUCGAAUUAUUUAGGGUAU
....(((.(((.((.((((...(.((.(((.((.........(((((....(((((....)))))....)))))........))..))))))....)))).)).))).)))......... ( -24.63)
>consensus
CGUCAUACUUCAAGUUGCAUGUGCUGCGGCUGCGUUCCCUCACCCCAGUCACUUACUUAAGUAAGCUCCUGGGGAUUCACUCGCUUGCCGCCUUCCUGCAACUCGAAUUAUUUAGAGUAU
....(((.(((.(((((((......(((((.(((........((((((...(((((....)))))...)))))).......)))..))))).....))))))).))).)))......... (-29.79 = -31.13 +   1.34)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,069,299 – 3,069,419
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.39
Mean single sequence MFE -45.43
Consensus MFE -41.01
Energy contribution -41.68
Covariance contribution 0.67
Combinations/Pair 1.06
Mean z-score -4.36
Structure conservation index 0.90
SVM decision value 1.93
SVM RNA-class probability 0.982923
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3069299 120 - 1
AUACUCUAAAUAAUUCGAGUUGCAGGAAGGCGACAAGAGAGUGAAUCCCCAGGAGCUUACAUAAGUAAGUGACUGGGGUGAGCGAACGCAGACGCAGCACAUGCAACUUGAAGUAUGACG
.........(((.(((((((((((.(...(((..............((((((..((((((....))))))..))))))...((....))...)))..)...))))))))))).))).... ( -43.80)
>Sty_1 9 120 - 1
AUACUCUAAAUAAUUCGAGUUGCAGGAAGGCGGCAAGCGAGCGAAUCCCCAGGAGCUUACUAAAGUAAGUGACUGGGGUGAGGGAACGCGGCCGCAGCACAUGCAACUUGAAGUAUGACG
.........(((.(((((((((((.(...(((((..(((..(....((((((..((((((....))))))..)))))).....)..))).)))))..)...))))))))))).))).... ( -53.10)
>Ype_1 8 120 - 1
AUACCCUAAAUAAUUCGAGUUGCAGGAAGGCGGCAAGCGAGAGAGUCCCGAUGAGCUUACUGCAGUAAGUGAUUCGGGUGAAAGAGAGCAGCCAACGCAUAUGCAGCUUGAAGUAUGACG
.........(((.(((((((((((.(..(((.((...(....)...(((((...((((((....))))))...))))).........)).)))....)...))))))))))).))).... ( -39.40)
>consensus
AUACUCUAAAUAAUUCGAGUUGCAGGAAGGCGGCAAGCGAGAGAAUCCCCAGGAGCUUACUAAAGUAAGUGACUGGGGUGAGAGAACGCAGCCGCAGCACAUGCAACUUGAAGUAUGACG
.........(((.(((((((((((.(...(((((............((((((..((((((....))))))..))))))............)))))..)...))))))))))).))).... (-41.01 = -41.68 +   0.67)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:04:47 2006