Locus 4474

Sequence ID 3L_DroMel_CAF1
Location 12,966,603 – 12,966,723
Length 120
Max. P 0.984715
window6974 window6975

overview

Window 4

Location 12,966,603 – 12,966,723
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.17
Mean single sequence MFE -32.28
Consensus MFE -29.68
Energy contribution -29.88
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.32
Structure conservation index 0.92
SVM decision value 0.27
SVM RNA-class probability 0.662421
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12966603 120 + 23771897
AUCGAAUAGUUAAUUAUGCCCAGCAUGCAACAGGCCAAGUCAAAGGCGCUCCCAUUUAGUUUUCAUUACGAGUUUUGGGGUUGCACGUGAUGGGCAUGGAUAAAUGAAGACAAAUAACUG
......((((((.(((((((((((.((((((..(((........)))...((((....((.......))......)))))))))).))..))))))))).....((....))..)))))) ( -33.40)
>DroSec_CAF1 83842 120 + 1
AUCGAAUAGUUAAUUAUGCCCAGCAUGCAACAGGCCAAGUCAAUGGCGCUACCAUUUAGUUUUCAUUACGAGUUUUGGGGUUGCACGUGAUGGGCAUGGAUAAAUGAAGACAAAUAACUG
......((((((.(((((((((((.((((((((((((......)))).)).(((....((.......))......))).)))))).))..))))))))).....((....))..)))))) ( -32.00)
>DroSim_CAF1 88744 120 + 1
AUCGAAUAGUUAAUUAUGCCCAGCAUGCAACAGGCCAAGUCAAAGGCGCUACCAUUUAGUUUUCAUUACGAGUUUUGGGGUUGCACGUGAUGGGCAUGGAUAAAUGAAGACAAAUAACUG
......((((((.(((((((((((.(((((((((((........))).)).(((....((.......))......))).)))))).))..))))))))).....((....))..)))))) ( -30.90)
>DroEre_CAF1 89663 120 + 1
AUCGAAUAGUUAAUUAUGCCCAGCAUGCAACAGGCCAGGUCAAAGGCGCUCCCAUUUAGUUUUCAUUACGAGUUUGGGGGUUGCACGUGAUGGGCAUGGAUAAAUGAAGACAAAUAACUG
......((((((.(((((((((((.((((((..(((........)))..(((((....((.......)).....))))))))))).))..))))))))).....((....))..)))))) ( -34.50)
>DroYak_CAF1 87784 120 + 1
AUCGAAUAGUUAAUUAUGCCCAGCAUGCAACAGGCCAAGUCAAAGGCGCUCACAUUUAGUUUUCAUUACGAGUUUUGGGGUUGCACGUGAUGGGCAUGGAUAAAUGAAGACAAAUAACUG
......((((((.(((((((((((.((((((..(((........))).((((......((.......))......)))))))))).))..))))))))).....((....))..)))))) ( -30.60)
>consensus
AUCGAAUAGUUAAUUAUGCCCAGCAUGCAACAGGCCAAGUCAAAGGCGCUCCCAUUUAGUUUUCAUUACGAGUUUUGGGGUUGCACGUGAUGGGCAUGGAUAAAUGAAGACAAAUAACUG
......((((((.(((((((((((.(((((((((((........))).))....(((((..(((.....)))..))))))))))).))..))))))))).....((....))..)))))) (-29.68 = -29.88 +   0.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 12,966,603 – 12,966,723
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.17
Mean single sequence MFE -29.66
Consensus MFE -27.08
Energy contribution -27.68
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.91
SVM decision value 1.98
SVM RNA-class probability 0.984715
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12966603 120 - 23771897
CAGUUAUUUGUCUUCAUUUAUCCAUGCCCAUCACGUGCAACCCCAAAACUCGUAAUGAAAACUAAAUGGGAGCGCCUUUGACUUGGCCUGUUGCAUGCUGGGCAUAAUUAACUAUUCGAU
.(((((..((....)).......(((((((...((((((((((((.....................))))((.(((........))))))))))))).)))))))...)))))....... ( -31.50)
>DroSec_CAF1 83842 120 - 1
CAGUUAUUUGUCUUCAUUUAUCCAUGCCCAUCACGUGCAACCCCAAAACUCGUAAUGAAAACUAAAUGGUAGCGCCAUUGACUUGGCCUGUUGCAUGCUGGGCAUAAUUAACUAUUCGAU
.(((((..((....)).......(((((((...((((((((...................(((....)))((.((((......)))))))))))))).)))))))...)))))....... ( -29.30)
>DroSim_CAF1 88744 120 - 1
CAGUUAUUUGUCUUCAUUUAUCCAUGCCCAUCACGUGCAACCCCAAAACUCGUAAUGAAAACUAAAUGGUAGCGCCUUUGACUUGGCCUGUUGCAUGCUGGGCAUAAUUAACUAUUCGAU
.(((((..((....)).......(((((((...((((((((...................(((....)))((.(((........))))))))))))).)))))))...)))))....... ( -27.90)
>DroEre_CAF1 89663 120 - 1
CAGUUAUUUGUCUUCAUUUAUCCAUGCCCAUCACGUGCAACCCCCAAACUCGUAAUGAAAACUAAAUGGGAGCGCCUUUGACCUGGCCUGUUGCAUGCUGGGCAUAAUUAACUAUUCGAU
.(((((..((....)).......(((((((...((((((((.((((.....((.......))....))))((.(((........))))))))))))).)))))))...)))))....... ( -31.70)
>DroYak_CAF1 87784 120 - 1
CAGUUAUUUGUCUUCAUUUAUCCAUGCCCAUCACGUGCAACCCCAAAACUCGUAAUGAAAACUAAAUGUGAGCGCCUUUGACUUGGCCUGUUGCAUGCUGGGCAUAAUUAACUAUUCGAU
.(((((..((....)).......(((((((...((((((((.......((((((.(........).)))))).(((........)))..)))))))).)))))))...)))))....... ( -27.90)
>consensus
CAGUUAUUUGUCUUCAUUUAUCCAUGCCCAUCACGUGCAACCCCAAAACUCGUAAUGAAAACUAAAUGGGAGCGCCUUUGACUUGGCCUGUUGCAUGCUGGGCAUAAUUAACUAUUCGAU
.(((((..((....)).......(((((((...((((((((.......(((((............)))))((.(((........))))))))))))).)))))))...)))))....... (-27.08 = -27.68 +   0.60)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:10 2006