Locus 4363

Sequence ID X_DroMel_CAF1
Location 11,464,722 – 11,464,819
Length 97
Max. P 0.946737
window7166 window7167

overview

Window 6

Location 11,464,722 – 11,464,819
Length 97
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 96.63
Mean single sequence MFE -26.86
Consensus MFE -26.47
Energy contribution -26.22
Covariance contribution -0.25
Combinations/Pair 1.04
Mean z-score -2.11
Structure conservation index 0.99
SVM decision value 1.37
SVM RNA-class probability 0.946737
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11464722 97 + 22224390
AGAAAAGAACCGAAAAUGAAAUUGCUCUAACGGUGUUUGCUCCCGUGAGGCGUUUUUCGAUUCACCCACUAU---UUAUAAGGGUGACUUUUCGGCACAA
.........((((((((((((.(((.((.((((.(......))))).)))))..)))))..((((((.....---......)))))).)))))))..... ( -27.40)
>DroSec_CAF1 10054 97 + 1
UGAAAAGAACCGAAAACGAAAUUGCUCUAACGGUGUUUGCUCCCGUGAGGCGUUUUUCGAUUCACCCACUAU---UUAUAAGGGUGACUUUUCCGCACAA
.((((((.........(((((.(((.((.((((.(......))))).)))))..)))))..((((((.....---......))))))))))))....... ( -27.10)
>DroEre_CAF1 9907 100 + 1
AGAAAAGAACCGAAAACGAAAUUGCUCUAACGGUGUUUGCUCCCGUGAGGCGUUUUUCGAUUCACCCACUAUUAUUUAUAAGGGUGACUUUUCCGCACAA
.((((((.........(((((.(((.((.((((.(......))))).)))))..)))))..((((((..............))))))))))))....... ( -27.04)
>DroYak_CAF1 9896 98 + 1
AGAAAAGAACCGAAAAUGAAAUUGCUCUAACGGUGUUUGCUCCCGUGAGGCGUUUUUCGAUUCACCCACUAUU--UUAUAAGGGUGACUUUUCCGCACAA
.((((((...((((((......(((.((.((((.(......))))).))))).))))))..((((((......--......))))))))))))....... ( -25.90)
>consensus
AGAAAAGAACCGAAAACGAAAUUGCUCUAACGGUGUUUGCUCCCGUGAGGCGUUUUUCGAUUCACCCACUAU___UUAUAAGGGUGACUUUUCCGCACAA
.((((((.........(((((.(((.((.((((.(......))))).)))))..)))))..((((((..............))))))))))))....... (-26.47 = -26.22 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 11,464,722 – 11,464,819
Length 97
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 96.63
Mean single sequence MFE -27.65
Consensus MFE -26.90
Energy contribution -26.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.97
SVM decision value 1.36
SVM RNA-class probability 0.946407
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11464722 97 - 22224390
UUGUGCCGAAAAGUCACCCUUAUAA---AUAGUGGGUGAAUCGAAAAACGCCUCACGGGAGCAAACACCGUUAGAGCAAUUUCAUUUUCGGUUCUUUUCU
..(.((((((((.((((((......---.....))))))...((((...((((.((((.........)))).)).))..)))).)))))))).)...... ( -29.00)
>DroSec_CAF1 10054 97 - 1
UUGUGCGGAAAAGUCACCCUUAUAA---AUAGUGGGUGAAUCGAAAAACGCCUCACGGGAGCAAACACCGUUAGAGCAAUUUCGUUUUCGGUUCUUUUCA
.......((((((((((((......---.....))))))((((((((..((((.((((.........)))).)).)).......)))))))).)))))). ( -27.20)
>DroEre_CAF1 9907 100 - 1
UUGUGCGGAAAAGUCACCCUUAUAAAUAAUAGUGGGUGAAUCGAAAAACGCCUCACGGGAGCAAACACCGUUAGAGCAAUUUCGUUUUCGGUUCUUUUCU
......(((((((((((((((((.....)))).))))))((((((((..((((.((((.........)))).)).)).......)))))))).))))))) ( -28.20)
>DroYak_CAF1 9896 98 - 1
UUGUGCGGAAAAGUCACCCUUAUAA--AAUAGUGGGUGAAUCGAAAAACGCCUCACGGGAGCAAACACCGUUAGAGCAAUUUCAUUUUCGGUUCUUUUCU
......(((((((((((((......--......))))))((((((((..((((.((((.........)))).)).)).......)))))))).))))))) ( -26.20)
>consensus
UUGUGCGGAAAAGUCACCCUUAUAA___AUAGUGGGUGAAUCGAAAAACGCCUCACGGGAGCAAACACCGUUAGAGCAAUUUCAUUUUCGGUUCUUUUCU
.......((((((((((((((((.....)))).))))))((((((((..((((.((((.........)))).)).)).......)))))))).)))))). (-26.90 = -26.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:08 2006