Locus 10222

Sequence ID 3R_DroMel_CAF1
Location 27,405,068 – 27,405,176
Length 108
Max. P 0.906191
window16285

overview

Window 5

Location 27,405,068 – 27,405,176
Length 108
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 83.15
Mean single sequence MFE -49.90
Consensus MFE -41.12
Energy contribution -40.80
Covariance contribution -0.32
Combinations/Pair 1.27
Mean z-score -1.98
Structure conservation index 0.82
SVM decision value 1.05
SVM RNA-class probability 0.906191
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27405068 108 + 27905053
GCAAUAAUGGUGUCUCCGAAGCCUCCCAUUGGCGGAGGGGGCAGCAAAUCCUGCGGUGUGGGUGGCGCC---UGCUGCUGCUGCAUGGAAUUCGCAGCAGCUGCUGCAGCC
.......((.(((((((...(((.......)))...))))))).))....((((((((..((.....))---..).((((((((.........)))))))).))))))).. ( -50.20)
>DroVir_CAF1 8139 111 + 1
GCGACGAUUGUAUCACCGAAACCGCCCAUCGGCGGCGGUGGCAACAAAUCCUGCGGUGUUGGCGGCGCCGAUUGUUGUUGUUGCAUCGAAUUGGCAGCGGCAGCCGCCGCA
(((..((((.(..(((((...(((((....))))))))))..)...))))..(((((....((.((((((((((.(((....))).).))))))).)).)).)))))))). ( -48.90)
>DroPse_CAF1 7748 108 + 1
GCAAUAAUGGUGUCUCCGAAGCCGCCCAUCGGCGGCGGCGGCAACAGAUCCUGCGGCGUUGGUGGUGCU---GAUUGUUGCUGCAUUGAAUUGGCAGCGGCGGCCGCAGCU
((......((.(((((((..((((((....))))))..)))....))))))((((((((..(.....).---.))(((((((((.........))))))))))))))))). ( -49.00)
>DroSec_CAF1 7194 108 + 1
GCAAUAAUGGUGUCUCCGAAGCCUCCCAUUGGAGGAGGGGGCAGCAAAUCCUGCGGUGUGGGUGGCGCC---UGCUGCUGCUGCAUGGAAUUCGCAGCAGCUGCUGCAGCC
.......((.(((((((....(((((....))))).))))))).))....((((((((..((.....))---..).((((((((.........)))))))).))))))).. ( -52.40)
>DroPer_CAF1 7193 108 + 1
GCAAUAAUGGUGUCUCCGAAGCCGCCCAUCGGCGGCGGCGGCAACAGAUCCUGCGGCGUUGGUGGUGCU---GAUUGUUGCUGCAUUGAAUUGGCAGCGGCGGCCGCAGCU
((......((.(((((((..((((((....))))))..)))....))))))((((((((..(.....).---.))(((((((((.........))))))))))))))))). ( -49.00)
>consensus
GCAAUAAUGGUGUCUCCGAAGCCGCCCAUCGGCGGCGGCGGCAACAAAUCCUGCGGUGUUGGUGGCGCC___UGUUGUUGCUGCAUGGAAUUGGCAGCGGCGGCCGCAGCC
.......((.((((((((...(((((....))))))))))))).))....(((((((...(((...))).......((((((((.........)))))))).))))))).. (-41.12 = -40.80 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:52 2006