Locus 72

Sequence ID Eco_1
Location 3,424,002 – 3,424,280
Length 278
Max. P 0.998520
window218 window219 window220

overview

Window 8

Location 3,424,002 – 3,424,122
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -41.10
Consensus MFE -41.59
Energy contribution -39.27
Covariance contribution -2.32
Combinations/Pair 1.21
Mean z-score -3.44
Structure conservation index 1.01
SVM decision value 2.91
SVM RNA-class probability 0.997669
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3424002 120 - 1
AUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUUAGCGGAUGACUUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUA
..(((((((..((((((((...((((((......))))))....))))...(((.(((((........)))))))).)).))..)))))))((.(....).))................. ( -40.00)
>Lpn_1 360 120 - 1
AUCUAGCCAUGUGCAGGAUGAAGGUUGGGUAACACCAACUGGAGGUCCGAACCGGGUAAUGUUGAAAAAUUAUCGGAUGACGUGUGGCUAGGAGUGAAAGGCUAAUCAAGCCCGGAGAUA
.((((((((..((((((((...((((((......))))))....))))...((((.((((........)))))))).)).))..)))))))).......((((.....))))........ ( -41.40)
>Sty_1 360 120 - 1
AUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUUAGCGGAUGACCUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUA
..(((((((((((((((((...((((((......))))))....))))...(((.(((((........)))))))).)).)))))))))))((.(....).))................. ( -41.90)
>consensus
AUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUUAGCGGAUGACCUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUA
.((((((((..((((((((...((((((......))))))....))))...(((.(((((........)))))))).)).))..))))))))(((.....)))................. (-41.59 = -39.27 +  -2.32)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,424,122 – 3,424,242
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.94
Mean single sequence MFE -39.87
Consensus MFE -41.94
Energy contribution -39.28
Covariance contribution -2.66
Combinations/Pair 1.19
Mean z-score -2.06
Structure conservation index 1.05
SVM decision value 3.13
SVM RNA-class probability 0.998520
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3424122 120 - 1
CUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGCCGAAGGGAAACCGAGUCUUAACUGGGCGUUAAGUUGCAGGGUAUAGACCCGAAACCCGGUG
...........(((((...((..((((((((((((((..((((..((.....))..))))...((....))..((((.....)))).....))))))))))))))...))..)))))... ( -41.00)
>Lpn_1 480 119 - 1
CUUUUGUAUAAUGGGUCAGCGAGUUACUUUCAGUGGCGAGGUUAACUGAAUAAGGGAGCCGUAGAGAAAUCGAGUCUGAAUAGGGCGAU-AGUCGCUGGGAGUAGACCCGAAACCGGGCG
...........((((((.......((((..(((((((..((((..((.....))..))))...((....))..((((.....))))...-.)))))))..)))))))))).......... ( -38.31)
>Sty_1 480 120 - 1
CUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGUAUAGGGGAGCCGUAGGGAAACCGAGUCUUAACCGGGCGUUAAGUUGCAGGGUAUAGACCCGAAACCCGGUG
...........(((((...((..((((((((((((((..((((..((.....))..))))...((....))..((((.....)))).....))))))))))))))...))..)))))... ( -40.30)
>consensus
CUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGCCGUAGGGAAACCGAGUCUUAACAGGGCGUUAAGUUGCAGGGUAUAGACCCGAAACCCGGUG
...........((((((.......(((((((((((((..((((..((.....))..))))...((....))..((((.....)))).....))))))))))))))))))).......... (-41.94 = -39.28 +  -2.66)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,424,162 – 3,424,280
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.94
Mean single sequence MFE -38.50
Consensus MFE -34.44
Energy contribution -34.33
Covariance contribution -0.10
Combinations/Pair 1.17
Mean z-score -1.87
Structure conservation index 0.89
SVM decision value 0.74
SVM RNA-class probability 0.837800
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3424162 118 - 1
CAAGCAGUGGGAGCAC--GCUUAGGCGUGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGCCGAAGGGAAACCGAGUCUUAA
...((.(..(..((((--((....))))))..)..)(.((((..........))))).))(((((..............((((..((.....))..))))...((....))))))).... ( -40.60)
>Lpn_1 519 120 - 1
CAAGCAGUGGGAGCAUGGUUUAGGCUGUGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGAGUUACUUUCAGUGGCGAGGUUAACUGAAUAAGGGAGCCGUAGAGAAAUCGAGUCUGAA
...(((((..((((...))))..)))))((((((((..((((..........))))..)).)))))).(((((...(..((((..((.....))..))))...((....)))...))))) ( -32.50)
>Sty_1 520 120 - 1
CAAGCAGUGGGAGCACAGGUUUACCUGUGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGUAUAGGGGAGCCGUAGGGAAACCGAGUCUUAA
...((.(..(..(((((((....)))))))..)..)(.((((..........))))).))(((((..............((((..((.....))..))))...((....))))))).... ( -42.40)
>consensus
CAAGCAGUGGGAGCAC_GGUUUAGCUGUGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGCCGUAGGGAAACCGAGUCUUAA
...((.(..(..(((((((....)))))))..)..)(.((((..........))))).))(((((..............((((..((.....))..))))...((....))))))).... (-34.44 = -34.33 +  -0.10)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:05:11 2006