Locus 4640

Sequence ID 3R_DroMel_CAF1
Location 12,206,995 – 12,207,091
Length 96
Max. P 0.636147
window7629

overview

Window 9

Location 12,206,995 – 12,207,091
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 77.95
Mean single sequence MFE -24.08
Consensus MFE -13.00
Energy contribution -12.78
Covariance contribution -0.22
Combinations/Pair 1.18
Mean z-score -1.80
Structure conservation index 0.54
SVM decision value 0.21
SVM RNA-class probability 0.636147
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12206995 96 + 27905053
GUUGGCAUUAGCCGACAUAAAUGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAAC--AGCCCG-C--AAGGAUGUGGUGCUG-CCAUGGCAUAACAUA--CAUA
((((((....))))))....(((((..((((((....).........((((((.(--(..((.-.--..)).)))))))).)-)))))))))......--.... ( -33.80)
>DroVir_CAF1 26748 90 + 1
GUUGGUAUUAACCGACAUAAACGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAACACAGCCCG-CCAAAGGAUAUGGAUAUGGGUUUGGAA-------------
((((((....))))))....(((((....)))))....................((.(((((.-(((.......)))....)))))))...------------- ( -20.20)
>DroEre_CAF1 21460 91 + 1
GUUGGCAUUAGCCGACAUAAAUGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAAC--AGCCCG-C--AAGGAUGUGGUGCUG-CCAUGGCAUA-CAUA------
((((((....))))))....(((((..((((((....).........((((((.(--(..((.-.--..)).)))))))).)-))))))))).-....------ ( -33.80)
>DroWil_CAF1 23220 94 + 1
GUUGGCAUUAGUCGACAUAAACGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAAC--AGCCCG-C-AAAGGAUAUGGAUAUGGAUAUGG------AUAUGAAUG
((((((....)))))).....((((....))))((((.(((((...((.(((...--..((..-.-...)).....))).))....)))------))))))... ( -17.40)
>DroAna_CAF1 21122 85 + 1
GUUGGCAUUAGCCGACAUAAAUGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAAC--AGGCCGCC--AAGGAUAUGGUCCU-------------CAUA--CACA
((((((....))))))...........(((((((...........))))......--(((..(((--(......)))))))-------------....--))). ( -20.70)
>DroPer_CAF1 21021 86 + 1
AUUGGCAUUAGCCGACAUAAAUGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAACACAGCCUC-C-AAAGGAUAUGGCCCC------AGCAUA-C---------
.(((((....))))).....(((((..((.((((...........))))....))...(((((-(-...)))...)))...------))))).-.--------- ( -18.60)
>consensus
GUUGGCAUUAGCCGACAUAAAUGCUAAGUGGCGUCAUCAUUUAAAACGCAUCAAC__AGCCCG_C__AAGGAUAUGGUCCUG___AUGGCA___CAUA______
((((((....))))))......(((..((.((((...........))))....))..)))((.......))................................. (-13.00 = -12.78 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:23 2006