Locus 7230

Sequence ID 3R_DroMel_CAF1
Location 19,047,259 – 19,047,360
Length 101
Max. P 0.500000
window11705

overview

Window 5

Location 19,047,259 – 19,047,360
Length 101
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 79.99
Mean single sequence MFE -24.84
Consensus MFE -17.04
Energy contribution -17.96
Covariance contribution 0.92
Combinations/Pair 1.15
Mean z-score -1.15
Structure conservation index 0.69
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19047259 101 + 27905053
CUGUUGGUCGUUGUUGUUUUGAUUGCCUUUAAC-CCACCACC---CCCACCGACAGUACCACCACCACACAAUGAGUUGCACUUAUUUAGUGGGGCAUGCAACAU
((((((((.(.((.((..((((......)))).-.)).))..---.).)))))))).....((.((((..((((((.....))))))..)))))).......... ( -23.50)
>DroSec_CAF1 60005 100 + 1
CUGUUGGUCGUUGUUGUUUUGAUUGCCUUUA-A-CCACCACC---CCCACCGUCAGCAGCACCACCCCGCAAUGAGUUGCACUUAUUUAGUGGGGCAUGCAAUAU
.(((((((.(((((((...............-.-........---........)))))))))))((((((((((((.....))))))..))))))...))).... ( -24.55)
>DroSim_CAF1 61744 101 + 1
CUGUUGGUCGUUGUUGUUUUGAUUGCCUUUAAA-CCACCACC---CCCACCGUCAGCAGCACCACCCCGCAAUGAGUUGCACUUAUUUAGUGGGGCAUGCAACAU
(((.((((.(.((.((.(((((......)))))-.)).))..---.).)))).)))..(((...((((((((((((.....))))))..))))))..)))..... ( -25.30)
>DroEre_CAF1 63057 90 + 1
CUGUUGGUCGUUGUUG-----UUUGACUUUAAC-CCACC---------ACCGCCAGCAGCACCACCCCGCAAUGAGUUGCACUUAUUUGGUGGGGCAUGCAACAU
.(((((((.((.((.(-----((.......)))-..)).---------)).)))))))(((...((((((.(((((.....)))))...))))))..)))..... ( -28.40)
>DroWil_CAF1 79034 85 + 1
UUGUUGGUUGUUGUUGUUGCUAUU------AAUGCUGCUGGU----UCAUC--------CACCAC--CACAAUGAAUUGCAUUUAUUUAGUGGUGCAUGCAACAA
.............(((((((....------.((((....(((----.....--------.)))((--((((((((((...)))))))..)))))))))))))))) ( -19.00)
>DroYak_CAF1 63552 104 + 1
CUGUUGGUCGUUGUUGUUUUGUUUGACUUUAAC-CCACCACCGAUACCACCGCCAGCAGCACCACCCCGCAAUGAGUUGCACUUAUUUAGUGGGGCAUGCAACAU
.(((((((.((((..(((......)))..))))-........(....)...)))))))(((...((((((((((((.....))))))..))))))..)))..... ( -28.30)
>consensus
CUGUUGGUCGUUGUUGUUUUGAUUGCCUUUAAC_CCACCACC___CCCACCGCCAGCAGCACCACCCCGCAAUGAGUUGCACUUAUUUAGUGGGGCAUGCAACAU
.(((((((.(((((((.....................................)))))))))).((((((((((((.....))))))..)))))).....)))). (-17.04 = -17.96 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:49 2006