Locus 456

Sequence ID 3R_DroMel_CAF1
Location 1,730,872 – 1,730,976
Length 104
Max. P 0.760194
window738

overview

Window 8

Location 1,730,872 – 1,730,976
Length 104
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 81.56
Mean single sequence MFE -21.17
Consensus MFE -14.68
Energy contribution -14.99
Covariance contribution 0.31
Combinations/Pair 1.32
Mean z-score -1.88
Structure conservation index 0.69
SVM decision value 0.50
SVM RNA-class probability 0.760194
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1730872 104 - 27905053
UUA--------CUGUACGUCACAGCCCAAUCCUUUCCUAAUCAAUUUAUGGAACUUCUUGGCUACUCUUUGAUGGCUAUUAAUGUUUUAUUCAGGCCUCUGAUUAAUGGCCA
...--------...........((((.......(((((((.....))).))))......)))).........((((((((((........((((....)))))))))))))) ( -20.32)
>DroSec_CAF1 40072 104 - 1
UUA--------CUCUACGUCACAGCCCAAUCCUUUCCUAAUCAAUUUAUGGAACUUAUUGGCUACUCUUUGAUGGCUAUUAAUGUUUUAUUCAGCCCGCUGAUUAAUGGCCA
...--------......((((.((.(((((...(((((((.....))).))))...))))).....)).))))(((((((((........((((....))))))))))))). ( -22.80)
>DroSim_CAF1 41206 104 - 1
UUA--------CUCUACGUCACAGCCCAAUCCUUUUCUAAUCAAUUUAUGGAACUUAUUGGCUACUCUUUGAUGGCUAUUAAUGUUUUAUUCAGCCCGCUGAUUAAUGGCCA
...--------......((((.((.(((((...(((((((.....))).))))...))))).....)).))))(((((((((........((((....))))))))))))). ( -19.90)
>DroEre_CAF1 39304 104 - 1
UUA--------CUGUACGUCACAGCCCAAUCCUUUCCUAAUCAAUUUAUGGAACUUAUUGGCUACUCCUCGAUGGCUAUUAAUGUUUUAUUCAGCCCGCUGAUUAAUGGCCA
...--------((((.....)))).(((((...(((((((.....))).))))...)))))...........((((((((((........((((....)))))))))))))) ( -22.90)
>DroYak_CAF1 39970 104 - 1
UUA--------AUCUACGUCACAGCCCAAUCCUUUCUUAAUCAAUUUAUGGAACUUAUUGGCUACUCUUUGAUGGCUAUUAAUGUUUUAUUCAGCCCGCUGAUUAAUGGCCA
...--------......((((.((.(((((..((((.(((.....))).))))...))))).....)).))))(((((((((........((((....))))))))))))). ( -20.20)
>DroAna_CAF1 35826 101 - 1
UUCAAGUCCCGAAGUUCGUCACACUUC------CUGCUGGCCUAUUUAAG-----CAUUCACAACACUUUGAUUGCCAUUAAUGUAUUAUUCAUUCAGGGGACUGAUGGAUA
(((((((((((((((.......)))))------...(((..........(-----((.(((........))).)))....((((.......)))))))))))))..)))).. ( -20.90)
>consensus
UUA________CUCUACGUCACAGCCCAAUCCUUUCCUAAUCAAUUUAUGGAACUUAUUGGCUACUCUUUGAUGGCUAUUAAUGUUUUAUUCAGCCCGCUGAUUAAUGGCCA
......................((((.......(((((((.....))).))))......)))).........((((((((((........((((....)))))))))))))) (-14.68 = -14.99 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:37 2006