Locus 8264

Sequence ID X_DroMel_CAF1
Location 20,545,512 – 20,545,629
Length 117
Max. P 0.882986
window13573

overview

Window 3

Location 20,545,512 – 20,545,629
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.46
Mean single sequence MFE -41.18
Consensus MFE -31.46
Energy contribution -32.42
Covariance contribution 0.96
Combinations/Pair 1.04
Mean z-score -2.06
Structure conservation index 0.76
SVM decision value 0.92
SVM RNA-class probability 0.882986
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20545512 117 - 22224390
CUCCAAGCAAGAGGUGGCUCCCUAUCACCCUGAGCCUCGGGCCCAGGCGCAGGCCACCUCCAAGGUGAUAAGGAAGGGCCGCAAGCCCAAGUCGUCAACCAAAACCAACACGCCCAG
......((..(((((((((.........((((.(((...))).))))....)))))))))...((((((...((.(((.(....))))...))))).)))...........)).... ( -37.62)
>DroSec_CAF1 113105 117 - 1
CUCCAAGCAAGAGGUGCCUCCCUAUCACCCUGAGCCCCGGGCCCAGGCCCAUGCCACCUCCAAGGUGGUGAGGAAGGGCCGCAAGCCCAAGUCCUCAACCAAAACCUACACGCCCAG
......((..((((((.(((...........)))....((((....))))....))))))..((((((((((((.(((.(....))))...))))).)))...))))....)).... ( -41.60)
>DroSim_CAF1 125786 117 - 1
CUCCAAGCAAGAGGUGCCUCCCUAUCACCCUGAGCCCCGGGCCCAGGCCCAUGCCACCUCCAAGGUGGUGAGGAAGGGCCGCAAGCCCAAGUCCUCAACCAAAACCUACACGCCCAG
......((..((((((.(((...........)))....((((....))))....))))))..((((((((((((.(((.(....))))...))))).)))...))))....)).... ( -41.60)
>DroEre_CAF1 112145 111 - 1
GUCCACGCAAGAGGUGGCUCCCUAUCACCCAGAGCCACGGGCCCAG------GCCACCUCCAAGGUGGUGAGGAAGGGCCGCAAGUCCAGGUCCUCGUCCAAAACCUACACGCCCAG
.....(....)..(((((((...........)))))))((((....------((((((.....))))))(((((..((.(....).))...)))))...............)))).. ( -45.00)
>DroYak_CAF1 115247 111 - 1
GUCCCCGCACGUAGCCGCUCCCUAUCACCCCGAGCCGAGGGCCCAA------GCCACCUCCAAGGUGGUGAGGAAGGGGCGCAAGUCCAAGUCCUCAUCCAAAACCUACACGCCCAG
......((.....)).((((...........))))...((((....------((((((.....))))))(((((..((((....))))...)))))...............)))).. ( -40.10)
>consensus
CUCCAAGCAAGAGGUGGCUCCCUAUCACCCUGAGCCCCGGGCCCAGGC_CA_GCCACCUCCAAGGUGGUGAGGAAGGGCCGCAAGCCCAAGUCCUCAACCAAAACCUACACGCCCAG
...............(((((...........)))))..((((..........((((((.....))))))(((((.(((.(....))))...)))))...............)))).. (-31.46 = -32.42 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:41 2006