Locus 1903

Sequence ID 3R_DroMel_CAF1
Location 5,428,878 – 5,428,993
Length 115
Max. P 0.777745
window3130

overview

Window 0

Location 5,428,878 – 5,428,993
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.26
Mean single sequence MFE -33.25
Consensus MFE -23.22
Energy contribution -23.17
Covariance contribution -0.05
Combinations/Pair 1.12
Mean z-score -2.59
Structure conservation index 0.70
SVM decision value 0.55
SVM RNA-class probability 0.777745
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5428878 115 + 27905053
GGUUUUUUAAUGCCCUGGAAAAAAAAGGG-GGUUGUCCAUCC----AAUAAGGUCUAUGAGAAUUUGAUUUCAUAUAAUCGAAUUCAUGGAAUUUUUUACCCCAACUUUUGGGCGCGGCC
..........(((((..(((.......((-(((..(((((((----.....)).......((((((((((......))))))))))))))).......)))))...)))..)).)))... ( -31.20)
>DroSec_CAF1 15659 112 + 1
GGUUUUUUAAUGCCCUGGAAA---AGGGG-GGUUGUCCAUCC----AAUAAGGUCUAUGAGAAUUUGAUUUCAUAUAAUCGAAUUCAUGGAAUUUUUUAACCCAACUUUUGGGCGCGGCC
...........((((...(((---((..(-((((((((((((----.....)).......((((((((((......)))))))))))))))......))))))..)))))))))...... ( -33.50)
>DroSim_CAF1 10641 112 + 1
GGUUUUUUAAUGCCCUGGAAA---AAGGG-GGUUGUCCAUCC----AAUAAGGUCUAUGAGAAUUUGAUUUCAUAUAAUCGAAUUCAUGGAAUUUUUUAACCCAACUUUUGGGCGCGGCC
((.....((((.((((.....---.))))-.)))).....))----.....((((.....((((((((((......))))))))))..............((((.....))))...)))) ( -30.60)
>DroEre_CAF1 16078 112 + 1
GGUUUUUUAAUGCCCUGGAAAA--AAGGG-GGUUGUCCAUCC----AAUAAGGUCUAUGAGAAUUUGAUUUCUUAUAAUCGAAUUCAUGGAAUUUUU-ACCCCAACUUUGGGGCGCGGCC
...........((((..((...--...((-(((..(((((((----.....)).......((((((((((......)))))))))))))))......-)))))...))..))))...... ( -35.00)
>DroYak_CAF1 16377 117 + 1
GGUUUUUUAAUGCCCUGGAAAA--AAGGGCGGUUGUCCAUCCAUUCAAUAAGGUCUAUGAGAAUUUGAUUUCUUAUAAUCGAAUUCAUGGAAUUUUU-UACCCAACUUUGGGGCGCGGCC
...........(((((......--.)))))((((((.(.((((((((..........)))((((((((((......)))))))))))))))......-..((((....))))).)))))) ( -34.30)
>DroPer_CAF1 19187 96 + 1
GGUA-------GCC---GACAG-AGUGGU-AGGAGUCUGUC---------GCGUCUAUGAGAAUUUGAUUUCUUAUAAUCAGAUUCAUGGAAUUUGUGU---GUGUUUUUAGGCGCGGCU
...(-------(((---(((((-(.(...-...).))))))---------(((((((...((((((((((......))))))))))..(((((......---..)))))))))))))))) ( -34.90)
>consensus
GGUUUUUUAAUGCCCUGGAAAA__AAGGG_GGUUGUCCAUCC____AAUAAGGUCUAUGAGAAUUUGAUUUCAUAUAAUCGAAUUCAUGGAAUUUUUUAACCCAACUUUUGGGCGCGGCC
...........((((..((.......(((.((....)).)))...........(((((((..((((((((......)))))))))))))))...............))..))))...... (-23.22 = -23.17 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:26 2006