Locus 7910

Sequence ID 3R_DroMel_CAF1
Location 21,227,430 – 21,227,523
Length 93
Max. P 0.999018
window12740 window12741

overview

Window 0

Location 21,227,430 – 21,227,523
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 95.27
Mean single sequence MFE -29.48
Consensus MFE -25.50
Energy contribution -25.58
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -2.72
Structure conservation index 0.86
SVM decision value 3.33
SVM RNA-class probability 0.999018
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21227430 93 + 27905053
GGCAACAAAAGAAAUAUUGAUUGCUAUUUUGCAUCGUUAGUGAGGAAGCCCAAAGCGAGGCCAGUGUCCAGAAUGGAUUAUGGCCCAAAGGGG
((((((((.(....).))).))))).(((((..(((((..((.((...)))).)))))(((((..((((.....))))..))))))))))... ( -25.60)
>DroSec_CAF1 52155 93 + 1
GGCAACAAAAGAAAUAUUGAUUGCCACUUUGCAUCGUUAGUGAGGAAGCCCAGAGCGAGGCCAGUGUCCAGAAUGGAUUAUGGCCUAAAGGGG
((((((((.(....).))).))))).(((..(.......)..)))...(((......((((((..((((.....))))..))))))....))) ( -32.20)
>DroSim_CAF1 54314 93 + 1
GGCAACAAAAGAAAUAUUGAUUGCCACUUUGCAUCGUUAGUGAGGAAGCCCAGAGCGAGGCCAGUGUCCAGAAUGGAUUAUGGCCUAAUGGGG
((((((((.(....).))).))))).(((..(.......)..)))...((((.....((((((..((((.....))))..))))))..)))). ( -34.70)
>DroEre_CAF1 55572 93 + 1
GGCAACAAAAGAAAUAUUGAUUGCCACUUUGCAUCGUUAGCGAGAAAACCCAGAGCGAAGCCAGUGUCCAGAAUGGAUUAUGGCCCAAAGGGG
((((((((.(....).))).))))).(((((..(((((...(........)..))))).((((..((((.....))))..)))).)))))... ( -25.60)
>DroYak_CAF1 56534 93 + 1
GGCAACAAAAGAAAUAUUGAUUGCCACUUUGCAUCGUUAGCGAGGAAACCCAGAGCGAAGCCAGUGUCCAGAAUGGAUUAUGGCCCAAAGGGG
((((((((.(....).))).))))).(((((..(((((...(.(....))...))))).((((..((((.....))))..)))).)))))... ( -29.30)
>consensus
GGCAACAAAAGAAAUAUUGAUUGCCACUUUGCAUCGUUAGUGAGGAAGCCCAGAGCGAGGCCAGUGUCCAGAAUGGAUUAUGGCCCAAAGGGG
((((((((........))).))))).((((((.......))))))...(((.......(((((..((((.....))))..))))).....))) (-25.50 = -25.58 +   0.08)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,227,430 – 21,227,523
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 95.27
Mean single sequence MFE -22.22
Consensus MFE -21.04
Energy contribution -20.76
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.57
Structure conservation index 0.95
SVM decision value 1.94
SVM RNA-class probability 0.983205
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21227430 93 - 27905053
CCCCUUUGGGCCAUAAUCCAUUCUGGACACUGGCCUCGCUUUGGGCUUCCUCACUAACGAUGCAAAAUAGCAAUCAAUAUUUCUUUUGUUGCC
.(((...((((((...(((.....)))...))))))......)))........................((((.(((........))))))). ( -20.40)
>DroSec_CAF1 52155 93 - 1
CCCCUUUAGGCCAUAAUCCAUUCUGGACACUGGCCUCGCUCUGGGCUUCCUCACUAACGAUGCAAAGUGGCAAUCAAUAUUUCUUUUGUUGCC
.(((...((((((...(((.....)))...))))))......))).......................(((((.(((........)))))))) ( -22.70)
>DroSim_CAF1 54314 93 - 1
CCCCAUUAGGCCAUAAUCCAUUCUGGACACUGGCCUCGCUCUGGGCUUCCUCACUAACGAUGCAAAGUGGCAAUCAAUAUUUCUUUUGUUGCC
.((((..((((((...(((.....)))...)))))).....)))).......................(((((.(((........)))))))) ( -23.60)
>DroEre_CAF1 55572 93 - 1
CCCCUUUGGGCCAUAAUCCAUUCUGGACACUGGCUUCGCUCUGGGUUUUCUCGCUAACGAUGCAAAGUGGCAAUCAAUAUUUCUUUUGUUGCC
...((((((((((...(((.....)))...)))))(((...((((....))))....)))..))))).(((((.(((........)))))))) ( -22.40)
>DroYak_CAF1 56534 93 - 1
CCCCUUUGGGCCAUAAUCCAUUCUGGACACUGGCUUCGCUCUGGGUUUCCUCGCUAACGAUGCAAAGUGGCAAUCAAUAUUUCUUUUGUUGCC
...((((((((((...(((.....)))...)))))..((...((....))..))........))))).(((((.(((........)))))))) ( -22.00)
>consensus
CCCCUUUGGGCCAUAAUCCAUUCUGGACACUGGCCUCGCUCUGGGCUUCCUCACUAACGAUGCAAAGUGGCAAUCAAUAUUUCUUUUGUUGCC
.(((...((((((...(((.....)))...))))))......))).......................(((((.(((........)))))))) (-21.04 = -20.76 +  -0.28)

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 12:57:50 2006