Locus 1470

Sequence ID X_DroMel_CAF1
Location 4,407,363 – 4,407,478
Length 115
Max. P 0.888122
window2343

overview

Window 3

Location 4,407,363 – 4,407,478
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.27
Mean single sequence MFE -37.46
Consensus MFE -24.77
Energy contribution -25.25
Covariance contribution 0.48
Combinations/Pair 1.08
Mean z-score -2.43
Structure conservation index 0.66
SVM decision value 0.95
SVM RNA-class probability 0.888122
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4407363 115 + 22224390
CGGAUCAACAACAGAUUGCCGGGACAGAUGUUUUGGCUGAUGAUGAUCCCUUUUUUU-UUUAACCAUGGAAUGGGCAGGG----GAAUCGGGAUCCUCGAUCCUCGAUCCUCGAGACCUA
.((((((.((.((....((((((((....)))))))))).)).))))))........-.............(((((.(((----((.((((((((...))))).))))))))..).)))) ( -38.30)
>DroSec_CAF1 9894 105 + 1
CGGGUCAACAACAGAUUGCCGGGACAGAUGUUUUGGCUGAUGAUGAUCCCUUUUUUU-U---ACCAUGGAAUGGGCAGGG----GAAUCGGGAUCCUCG-------AUCCUCGAGACCUA
.(((((..((.((....((((((((....))))))))...)).)).((((((.....-.---.((((...))))..))))----)).((((((((...)-------)))).)))))))). ( -35.80)
>DroSim_CAF1 9985 105 + 1
CGGGUCAACAACAGAUUGCCGGGACAGAUGUUUUGGCUGAUGAUGAUACCUUUUUUU-U---ACCAUGGAAUGGGCAGGG----GAAUCGGGAUCCUCG-------AUCCUCGAGACCUA
.(((((..((.((....((((((((....))))))))...)).))...(((.((((.-.---.....)))).)))..(((----((.(((((...))))-------))))))..))))). ( -32.70)
>DroEre_CAF1 10681 97 + 1
CGGGUCAACAACAGAUUGCCGGGACAGAUGUUUUGGCUGAUG---AUCCCUUUUUUA------CCCUGGAAUGGGCAGGACAGGGAAUCGGGAUC--------------CUCGAGACCUA
.(((((...........((((((((....))))))))(((.(---(((((....((.------(((((............)))))))..))))))--------------.))).))))). ( -36.40)
>DroYak_CAF1 10066 96 + 1
UGGGUCAACAACAGAUUGCCAAGACAGAUGUUUUGGCUGAUG---AUCCCUUUUUUAGU---GCCCUGGGAUGGGCAGGA----GAAUCGGGAUC--------------CUCGAGACCUA
((((((...........((((((((....))))))))(((.(---(((((..((((..(---((((......)))))..)----)))..))))))--------------.))).)))))) ( -44.10)
>consensus
CGGGUCAACAACAGAUUGCCGGGACAGAUGUUUUGGCUGAUGAUGAUCCCUUUUUUU_U___ACCAUGGAAUGGGCAGGG____GAAUCGGGAUCCUCG_______AUCCUCGAGACCUA
.(((((.....((....((((((((....))))))))...))..((((((..(((........((........)).........)))..))))))...................))))). (-24.77 = -25.25 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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