Locus 2386

Sequence ID X_DroMel_CAF1
Location 6,370,681 – 6,370,786
Length 105
Max. P 0.730445
window3883

overview

Window 3

Location 6,370,681 – 6,370,786
Length 105
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 83.26
Mean single sequence MFE -40.20
Consensus MFE -27.56
Energy contribution -26.88
Covariance contribution -0.69
Combinations/Pair 1.19
Mean z-score -1.81
Structure conservation index 0.69
SVM decision value 0.42
SVM RNA-class probability 0.730445
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6370681 105 + 22224390
CGUCGUCAUCGAGCGAUGAUUCGAGUGAUGACUCCUCCACAUCGAGCGAUUCGUCUGA------AUCGGAUUCCAGCGACAACGAGGAGUCCAGCACCAGUGAAUCGGAUG
(((((((((((..(((....)))..)))))))..(((......)))(((((((.(((.------...(((((((..((....)).))))))).....)))))))))))))) ( -37.80)
>DroSec_CAF1 757 105 + 1
CGUCGUCAUCGAGCGAUGAUUCGAGUGAUGACUCCUCCACGUCGAGCGAUUCGUCCGA------AUCCGAUUCCAGCGACAACGAGGAGUCCAGCACCAGUGAAUCGGAUG
.(((((......)))))((((((.(((..((((((((...((((...((.(((.....------...))).))...))))...))))))))...)))...))))))..... ( -37.10)
>DroEre_CAF1 1265 100 + 1
--------UCG---GACGACUCGAGUGAUGAGUCCACCUCGUCGGGCGAUUCGUCCGAGUCCGAGUCCGAUUCCAGCGAUAACGAGGAGUCCAGCACCAGUGAAUCGGAUG
--------(((---(((((.(((..(((((((.....)))))))..))).))))))))((((((.((.((((((..((....)).))))))..((....)))).)))))). ( -42.60)
>DroYak_CAF1 23001 108 + 1
CGUCGUCAUCG---GACGACUCGAGUGAGGACUCCACCACGUCGGGCGAUUCGUCCGAGUCCGAGUCCGAUUCCAGCGACAAUGAGGAGUCGAGCACCAGUGAAUCGGACG
..(((...(((---(((((((((((((..(....)..))).)))))....))))))))...)))(((((((((...((((........)))).((....))))))))))). ( -43.30)
>consensus
CGUCGUCAUCG___GACGACUCGAGUGAUGACUCCACCACGUCGAGCGAUUCGUCCGA______AUCCGAUUCCAGCGACAACGAGGAGUCCAGCACCAGUGAAUCGGAUG
........(((...(((((.(((..(((((.........)))))..))).))))))))......((((((((((.(((((........)))..))....).))))))))). (-27.56 = -26.88 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:16 2006