Locus 1387

Sequence ID 2R_DroMel_CAF1
Location 5,358,761 – 5,358,876
Length 115
Max. P 0.992505
window2382

overview

Window 2

Location 5,358,761 – 5,358,876
Length 115
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 68.65
Mean single sequence MFE -27.78
Consensus MFE -14.66
Energy contribution -15.46
Covariance contribution 0.80
Combinations/Pair 1.46
Mean z-score -2.27
Structure conservation index 0.53
SVM decision value 2.33
SVM RNA-class probability 0.992505
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5358761 115 - 20766785
CAGCAAAA----AAAAGGGACUGUUUCAAAAAUCGGGCGGGCUUUAUCCUAGUUCCGAGUGGAAACUUACUUGCUCUGACAAUAGGAAGCAUUUUUGGGACAUCUAUUGCACUUAGAAU
..((((..----.....(((.(((..(((((((.......(((...(((((..((.(((..(........)..))).))...)))))))))))))))..)))))).))))......... ( -27.11)
>DroSec_CAF1 1368 106 - 1
CAACAAAAAAAAAAAAGGGGGUGUUCCAAAAAUCGGAUAGGCUCAAGCCGAGCUUCAAGUGGAAG------UGCUUUGACAA-AGGAAGCAUUUUUGGGACAUCUAUUGCACU------
..................(((((((((((((((......(((....)))..(((((...((..((------....))..)).-..))))))))))))))))))))........------ ( -32.10)
>DroSim_CAF1 1368 110 - 1
CAACAAAA---AAAAAGGGGGUGUUCCAAAAAUCGGAUGGGCUCAAGUCGAGCUUCGAGUGGAAACUUACUUGCUUUGACAAUAGGAAGCAUUUUUGGGACAUCUAUUGCACU------
........---.......((((((((((((((......((((((.....)))))).((((....))))...((((((........))))))))))))))))))))........------ ( -31.50)
>DroEre_CAF1 1385 113 - 1
CAGCCCCA----AAAACCUUAUGUUCCAAAAAUCAGGCGAACUCAAACUUUGCUACGAGUGAAAACUUACUUGC--UUACAAUAUGAAGCAUUUUUGGAACAUCGAUUACAUUUAAAUU
........----........((((((((((((...((((((.......))))))..((((....))))...(((--((........)))))))))))))))))................ ( -24.00)
>DroYak_CAF1 1450 98 - 1
-------------------GGUGUUAUAAAAAUUGGGAGAGAUUAAACUCAGCUCCCAGUGAAACCUGACUUCC--UGACAAUAUGAAUCAUUUUUGGGACAUCGGUUGCACUUCAAAU
-------------------(((((.......((((((((.((......))..))))))))..((((.((..(((--..(.(((.......))).)..)))..)))))))))))...... ( -24.20)
>consensus
CAACAAAA____AAAAGGGGGUGUUCCAAAAAUCGGGCGGGCUCAAACCGAGCUCCGAGUGGAAACUUACUUGCU_UGACAAUAGGAAGCAUUUUUGGGACAUCUAUUGCACUU__A_U
..................(((((((((((((((.....(((((.......))))).((((....))))......................))))))))))))))).............. (-14.66 = -15.46 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:37 2006