Locus 3020

Sequence ID 3L_DroMel_CAF1
Location 8,681,440 – 8,681,530
Length 90
Max. P 0.658676
window4710

overview

Window 0

Location 8,681,440 – 8,681,530
Length 90
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 81.01
Mean single sequence MFE -31.87
Consensus MFE -18.76
Energy contribution -19.40
Covariance contribution 0.64
Combinations/Pair 1.13
Mean z-score -2.00
Structure conservation index 0.59
SVM decision value 0.26
SVM RNA-class probability 0.658676
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8681440 90 - 23771897
AG-------AGUCCG--GAUUGGAGGCAGGAUCC--CCAUGCAGCUGGUCGAAAUAUGGAAAUGAGCUGC-------GGCUCACAGCGAAAGCUCACGUAAGUGACGG
..-------...(((--(((..(..(((((....--)).)))..)..)))............(((((...-------.)))))..((....))((((....))))))) ( -31.20)
>DroSec_CAF1 69598 92 - 1
GU-------AGUCCGAGCAUUGGAGGCAGGAUCC--CCAUGCAGCUGGUCGAAAUAUGGAAAUGAGCUGC-------GGCUCACAGCGAAAGCUCACGUAAGUGAUGG
..-------...((((((..(((.((......))--)))(((((((.((............)).))))))-------)))))...((....))((((....)))).)) ( -31.00)
>DroSim_CAF1 70068 92 - 1
GG-------AGUCCGGGGAUUGGAGGCAGGAUAC--CCAUGCAGCUGGUCAAAAUAUGGAAAUGAGCUGC-------GGCUCACAGCGAAAGCUCACGUAAGUGAUGG
.(-------(((((((.(((..(..(((((....--)).)))..)..)))....(((....)))..))).-------)))))...((....))((((....))))... ( -32.70)
>DroEre_CAF1 70787 92 - 1
GG-------AGUCCG--GAAUGGAGGCAGGAUCCCCCCAUGCAGCUGGUCGAAAUAUGGAAAUGAGCUGC-------GGCUCAAAGCGAAAGCUCACGUAAGUGACGG
.(-------((((..--..((((.((........))))))((((((.((............)).))))))-------)))))...((....))((((....))))... ( -31.50)
>DroYak_CAF1 71997 97 - 1
GGAGUCGGGAGUCCG--GAAUGGAGGCAGGAUCC--CCAUGCAGCUGGUCGAAAUAUGGAAAUGAGCUGC-------GGCUCCAAGCGAAAGCGCACGUAAGUGACGG
(((((((((..(((.--...........)))..)--))..((((((.((............)).))))))-------))))))..((....))((((....))).).. ( -40.80)
>DroAna_CAF1 67487 91 - 1
AA-------ACGCCA--------AGACCCGGGCC--CAAUGCAGCUGGACAAAAUAUGGAAAUGAGCCGCUGGAGCUGGCUCAAAACGAAAGCUGGCCAAAGUGAUGG
..-------...(((--------..((...((((--......((((...((.....))....((((((((....)).)))))).......))))))))...))..))) ( -24.00)
>consensus
GG_______AGUCCG__GAUUGGAGGCAGGAUCC__CCAUGCAGCUGGUCGAAAUAUGGAAAUGAGCUGC_______GGCUCAAAGCGAAAGCUCACGUAAGUGACGG
............(((.......(((.(.((......))..((((((.((............)).)))))).......).)))...((....))((((....))))))) (-18.76 = -19.40 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:32 2006