Locus 2489

Sequence ID 3R_DroMel_CAF1
Location 6,820,107 – 6,820,221
Length 114
Max. P 0.669335
window4078

overview

Window 8

Location 6,820,107 – 6,820,221
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.88
Mean single sequence MFE -23.91
Consensus MFE -17.24
Energy contribution -18.32
Covariance contribution 1.08
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.72
SVM decision value 0.29
SVM RNA-class probability 0.669335
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6820107 114 + 27905053
UAAUAAACGCCAAUG--CUGGCCACAAAUCCACAAAAGCGUCACCUGUGUCACCUCCGAUGCUCCAGGACGCCAGGAUGUCAGGAUGUCCACCAUUCCCAUCCUCUGUCCAUUCAC----
........((((...--.))))...............(((((....(((((......))))).....)))))..(((((..((((((...........)))))).)))))......---- ( -27.90)
>DroSec_CAF1 79237 116 + 1
UAAUAAACGCCAAUGCGCUGGCCACAAAUCCACAAAAGCGUCACCUGUGUCACCUCCGAUGCUCCAGGACGCCACGAUGCCAGGAUGUCCACCAUCCCCAUCCACCGUCCAUUCAC----
........((((......))))..............((((((...............))))))...(((((....((((...(((((.....))))).))))...)))))......---- ( -26.86)
>DroSim_CAF1 85137 114 + 1
UAAUAAACGCCAAUG--CUGGCCACAAAUCCACAAAAGCGUCACCUGUGUCACCUCCGAUGCUCCAGGACGCCACGAUGCCAGGAUGUCCACCAUCCCCAUCCACCGUCCGUUCAC----
........((((...--.))))..............((((((...............))))))...(((((....((((...(((((.....))))).))))...)))))......---- ( -26.66)
>DroEre_CAF1 64137 118 + 1
UAAUAAACGCCAAUG--CUGGCCACAAAUCCACAAAAGCGUCACCUGUGUCAGCUCCGAUGCUCCAGUAUGCCAGUGUACCAGGAUGCCCAUCGUCCCCAUCCACCAACCAUCUACCAAC
......((((..(((--((((...............((((((....((....))...)))))))))))))....))))....(((((...........)))))................. ( -21.56)
>DroYak_CAF1 77419 98 + 1
UAAUAAACGCCAAUG--UUGGCCACAAAUCCACAAAAGCGUCACCUGUGUCACCUCCGAUGCUCC----------------AGGAUGCCCAUCAUCCCCAUCCGCCAUCCAUAUAC----
............(((--.((((..............((((((...............))))))..----------------.(((((...........)))))))))..)))....---- ( -16.56)
>consensus
UAAUAAACGCCAAUG__CUGGCCACAAAUCCACAAAAGCGUCACCUGUGUCACCUCCGAUGCUCCAGGACGCCACGAUGCCAGGAUGUCCACCAUCCCCAUCCACCGUCCAUUCAC____
........((((......))))...............(((((....(((((......))))).....)))))..........(((((...........)))))................. (-17.24 = -18.32 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:41 2006