Locus 3303

Sequence ID X_DroMel_CAF1
Location 8,813,279 – 8,813,383
Length 104
Max. P 0.554747
window5403

overview

Window 3

Location 8,813,279 – 8,813,383
Length 104
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 66.51
Mean single sequence MFE -26.38
Consensus MFE -4.10
Energy contribution -7.38
Covariance contribution 3.28
Combinations/Pair 1.10
Mean z-score -2.26
Structure conservation index 0.16
SVM decision value 0.04
SVM RNA-class probability 0.554747
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8813279 104 + 22224390
AACAUGGAA-------GUGGCAAAAAUAAAAUCCAUGCAAAG--UGAAGAGCAGAGCAUAAAGUGUGUUUAAAGUGUAUUAUGCUUUAA-AGACAUAUCGGUUUUUGCCGCAAA
.........-------(((((((((((.......((((...(--(.....))...))))...((((.((((((((((...)))))))))-).))))....)))))))))))... ( -29.40)
>DroPse_CAF1 55894 108 + 1
AACAGGUCAACAAAAUGGGUCAAAAGGGGACUCCUUG--GAAGGGUCUGUGCGCUGCUAAAAGU--GUUGGAAAUUUCUAAUAUUUAAA-AAGGAUGACG-ACAUGCCCGACAA
.....(((..(((...(((((.......))))).)))--...((((.(((.((((.((..((((--((((((....))))))))))...-.)).).).))-))).))))))).. ( -26.40)
>DroSec_CAF1 53201 98 + 1
AACAUGGCA-------GUGGCAAAAACAAAAUCCACG--AAG----UAGAGCCGAGCACAAAGU--GUUUAAAGUGUAUUAUGCUUUAAAAGGGAUAUCG-UCUUUGCCGCAAA
.........-------((((((((.((...((((.(.--...----((((((...((((.....--.......)))).....))))))...)))))...)-).))))))))... ( -25.60)
>DroSim_CAF1 46751 98 + 1
AACAUGGGA-------GUGGCAAAAACAAAAUCCAUG--AAG----UAGAGCCGAGCACAAAGU--GUUUAAAGUGUAUUAUGCUUUAAAAGGGAUAUCG-UCUUUGCCGCAAA
.........-------((((((((.((...((((.((--(((----((..((.((((((...))--))))...))......)))))))....))))...)-).))))))))... ( -25.50)
>DroPer_CAF1 53918 108 + 1
AACAGGUCAACAAAAUGGGUCAAAAGGGGACUCCUUG--GUGUGGUCUGUGCUCGGCUAAAAGU--GUUGGAAAUUUCUCAUAUUUAAA-AAGGAUGACG-ACAUGCCCGACAA
.((((..((.((....(((((.......))).))...--.))))..)))).............(--(((((..((.((((((.......-....)))).)-).))..)))))). ( -25.00)
>consensus
AACAUGGCA_______GUGGCAAAAACAAAAUCCAUG__AAG____CAGAGCCGAGCAAAAAGU__GUUUAAAGUGUAUUAUGCUUUAA_AGGGAUAUCG_UCUUUGCCGCAAA
................((((((((......((((................((...))...........(((((((.......)))))))...)))).......))))))))... ( -4.10 =  -7.38 +   3.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:56 2006