Locus 4340

Sequence ID 3R_DroMel_CAF1
Location 11,459,818 – 11,459,919
Length 101
Max. P 0.580156
window7094

overview

Window 4

Location 11,459,818 – 11,459,919
Length 101
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -31.08
Consensus MFE -25.52
Energy contribution -26.92
Covariance contribution 1.40
Combinations/Pair 1.12
Mean z-score -1.35
Structure conservation index 0.82
SVM decision value 0.09
SVM RNA-class probability 0.580156
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11459818 101 + 27905053
UGUCCGAUUUUGUUGCUCUCGAGAAGCGGGAGCAAUCAACGCAUUGUCGACAGGUGGAAAACUUCAUGGCCAAUGAAUUGCAGUUGCCAAGUUUUAACCCU
((((.(((..(((((((((((.....))))))))......)))..)))))))(((..((((((...((((...((.....))...)))))))))).))).. ( -31.90)
>DroSec_CAF1 192362 101 + 1
UGUCCGAUUUUGUUGCUCUCGAGGAGCGGGAGCAAUCAACGCAUUGUCGACAGGUGGAAAACUUCAUGGCCAAUGAAUUGCAGUUGCCAAGUUUUAACCUU
((((.(((..(((((((((((.....))))))))......)))..)))))))(((..((((((...((((...((.....))...)))))))))).))).. ( -32.30)
>DroSim_CAF1 187467 101 + 1
UGCCCGAUUUUGUUGCUCUCGAGGAGCGGGAGCAAUCAACGCAUUGUCGACAGGUGGAAAACUUCAUGGCCAAUGAAUUGCAGUUGCCAAGUUUUAACCCU
....((((..(((((((((((.....))))))))......)))..))))...(((..((((((...((((...((.....))...)))))))))).))).. ( -30.10)
>DroEre_CAF1 181517 96 + 1
UGUCCGACUUUAUUGCUCCCGAGGAGCGGGAGCCAUCAGCGCUUUGUCGACAGGUGGAAAACUUCAUGGCCAAUGAAUUGCAGUUGCCAUGUUUCA-----
((((.(((.....((((((...))))))((((((....).))))))))))))....((((....((((((...((.....))...)))))))))).----- ( -27.50)
>DroYak_CAF1 185576 101 + 1
UGUCCGAUUUUGUUGCUCUCGAGGAGCGGGAGCAAUCAGCGCAUUGUCGACAGGUGGAAAACUUCAUGGCCAACGAAUUGCAGUUGCCAUGUUUUAGCCCU
((((.(((..(((((((((((.....))))))))......)))..)))))))(((.((((....((((((.(((........))))))))))))).))).. ( -33.60)
>consensus
UGUCCGAUUUUGUUGCUCUCGAGGAGCGGGAGCAAUCAACGCAUUGUCGACAGGUGGAAAACUUCAUGGCCAAUGAAUUGCAGUUGCCAAGUUUUAACCCU
((((.(((..(((((((((((.....))))))))......)))..)))))))(((..((((((...((((.(((........))))))))))))).))).. (-25.52 = -26.92 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:41 2006