Locus 5355

Sequence ID 3L_DroMel_CAF1
Location 14,768,585 – 14,768,696
Length 111
Max. P 0.944007
window8464

overview

Window 4

Location 14,768,585 – 14,768,696
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.47
Mean single sequence MFE -24.27
Consensus MFE -16.79
Energy contribution -16.72
Covariance contribution -0.07
Combinations/Pair 1.42
Mean z-score -2.07
Structure conservation index 0.69
SVM decision value 1.34
SVM RNA-class probability 0.944007
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14768585 111 + 23771897
AUUUGCAAAAUGCAACUAACUGUAAUUAACUGCUUUUUUAAUGCGACCGCAUUAAGAGCGGUUAAAAUUACCGAAAAUU-CUG--------UGAUCAGGCAACUCAUAAAAUCCUAGUCA
...(((.....)))((((.(.((((((((((((((..(((((((....))))))))))))))))..))))).)......-.((--------(((...(....))))))......)))).. ( -26.30)
>DroSec_CAF1 11610 111 + 1
AAUUGCGAAAAGUAACUAACUGUAAGUAACUGCGUUUAUAAUGCGACCGCAUUAAGAGCGGUUAAAAUUGCCGAAAAUA-UGA--------AGAUCAGGCAACUCAUAAAAUCCUAUUUA
..((((.....))))....(.((((.(((((((.(((.((((((....))))))))))))))))...)))).).(((((-.((--------..((.((....)).))....)).))))). ( -22.30)
>DroSim_CAF1 11767 111 + 1
AAUUGCGAAAAGUAACUAACUGUAAGUAACUGCUUUUAUAAUGCGACCGCAUUAAGAGCGGUUAAAAUUACCGAAAAUG-UAA--------UGAUCAGGCAACUCAUAAAAUCCUAUUUA
.((((((...(((.....)))((((.((((((((((((..((((....))))))))))))))))...))))......))-)))--------).((.((....)).))............. ( -24.50)
>DroEre_CAF1 11393 111 + 1
AUUUGCGAAAAGCAACUAACUGUAAGUUACUGCUUUGAUAAUGCGACCGCAUUAAGAGCGGUUAAAAUUACCGAAGAUU-CGA--------AGAUCAGGCAACUCAAAAAAUCCUAGUUA
..((((.....)))).(((((((((...((((((((..((((((....)))))))))))))).....))))....((((-...--------.))))((....))...........))))) ( -24.10)
>DroYak_CAF1 11590 110 + 1
AUUUGCGAAAAGCAACUAACUGUAAGUAACUGCUUUGAUAAUGCGACCGCAUUAAGAGCGGUUAAAAUUACCGAAGAUU-CGA--------UGAUCAGGCAACUCAUAAAAUCCUAGU-A
...(((.....)))((((.(.((((.((((((((((..((((((....))))))))))))))))...)))).)..((((-..(--------(((...(....)))))..)))).))))-. ( -30.20)
>DroAna_CAF1 11155 112 + 1
AAGAGCGAAAAUCCAAUAACUGUAAGAUACAGUUUCGAAAGUGUGACCGCCCCAAAAGCUAUAG-AAUUUUCUAAAAUCGUAAAAGAAGUUUGAUCUGGCAAUAGGUGGAAUC-------
....(((....((....(((((((...)))))))..))...)))..((((((((.(((((.(((-(....))))...((......)))))))....))).....)))))....------- ( -18.20)
>consensus
AAUUGCGAAAAGCAACUAACUGUAAGUAACUGCUUUGAUAAUGCGACCGCAUUAAGAGCGGUUAAAAUUACCGAAAAUU_CGA________UGAUCAGGCAACUCAUAAAAUCCUAGUUA
..((((.....))))......((((.((((((((((..((((((....))))))))))))))))...)))).........................((....))................ (-16.79 = -16.72 +  -0.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:05 2006