Locus 5634

Sequence ID 2R_DroMel_CAF1
Location 17,934,942 – 17,935,041
Length 99
Max. P 0.787437
window9029

overview

Window 9

Location 17,934,942 – 17,935,041
Length 99
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 76.00
Mean single sequence MFE -29.81
Consensus MFE -11.52
Energy contribution -11.30
Covariance contribution -0.22
Combinations/Pair 1.50
Mean z-score -2.33
Structure conservation index 0.39
SVM decision value 0.58
SVM RNA-class probability 0.787437
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17934942 99 + 20766785
GCCGUAAUCGGGGUAAAACCUUAAUU-ACAUGCCUCUUUAAUAAG--UGUGCCGACACCUGAUUGCUUGC--GAUAUCAAGUAUUUAUGCAGGUG---UCAAGGGUC
((((((((..(((.....)))..)))-))..(((.(((....)))--.).)).((((((((..((((((.--.....))))))......))))))---))...))). ( -32.90)
>DroPse_CAF1 1360 103 + 1
ACCGCAAUCGAUAGGACGCAUUAAUU-AUUUGGGUCUUUAAUGUGGGGGUGUUUGUUGCUGAUUGCCUUCGAGAUAUUAGGUAUUUAUGGAGACG---UUAGCAGGA
.(((((......(((((.((......-...)).)))))...))))).........((((((((.(.(((((((((((...)))))).))))).))---))))))).. ( -25.20)
>DroSec_CAF1 1333 99 + 1
GCCGUAAUCGGGGUAAAACUUUAAUU-ACAUGGUUCUUUAAUAAG--UGUGCCGACACCUGAUUGCUUGC--GAUAUCAAGUAUUUAUGCAGGUG---UCAAGGGUC
((((((((..(((.....)))..)))-))..(((.(((....)))--...)))((((((((..((((((.--.....))))))......))))))---))...))). ( -31.60)
>DroSim_CAF1 1328 99 + 1
GCCGUAAUCGGGGUAAAACCUUAAUU-ACAUGGCUCUUUAAUAAG--UGUGCCGACACCUGAUUGCUUGC--GAUAUCAAGUAUUUAUGCAGGUG---UCAAGGGUC
((((((((..(((.....)))..)))-))..(((.(((....)))--...)))((((((((..((((((.--.....))))))......))))))---))...))). ( -36.00)
>DroEre_CAF1 1278 98 + 1
GCCGUAGUCGGGGUAAAACCUUAAUU-ACAUGGCUCUUUAAUAAG--UGCGCUAACAC-UGAUUGCCUGC--GAUACCAAGUAUUUAUGCAGGUG---UCAAGGGUC
...(((((..(((.....)))..)))-))..(((((((.....((--((......)))-)(((.((((((--(((((...)))))...)))))))---))))))))) ( -29.50)
>DroAna_CAF1 1418 101 + 1
ACUGUAAUUAAGGAAGAGCCUUAAUUAACAUGGCUCUUUAAUAAG--AGUGUCGACAGCUGAAUGAUUUC--GAUAUCACGUACUUAU--AGUUGAAAUGCAGCAGG
..(((((((((((.....)))))))).)))..((((((....)))--))).......((((....(((((--(((.............--.)))))))).))))... ( -23.64)
>consensus
GCCGUAAUCGGGGUAAAACCUUAAUU_ACAUGGCUCUUUAAUAAG__UGUGCCGACACCUGAUUGCUUGC__GAUAUCAAGUAUUUAUGCAGGUG___UCAAGGGUC
((((((((..(((.....)))..)))...))))).......................(((((.(((((((..(((((...)))))...)))))))...)).)))... (-11.52 = -11.30 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:33 2006