Locus 5598

Sequence ID 2R_DroMel_CAF1
Location 17,867,402 – 17,867,497
Length 95
Max. P 0.799244
window8965

overview

Window 5

Location 17,867,402 – 17,867,497
Length 95
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 90.79
Mean single sequence MFE -25.92
Consensus MFE -19.84
Energy contribution -20.68
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -1.88
Structure conservation index 0.77
SVM decision value 0.61
SVM RNA-class probability 0.799244
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17867402 95 + 20766785
CGAAAGCCACAUGUGUGGUGUGACCAUGCACUCCUUACUGUGGCAUCCUGCGACACGC--CAUCCCUUUUAUAUGGCGGCCAUAACUUUUCACCGAA
.((((((((((.(((.((.(((......))).)).)))))))))...........(((--(((.........)))))).........))))...... ( -29.00)
>DroSec_CAF1 32652 95 + 1
CGAAAGCCACAUGUGUGGUGUGACCAUCCACUCCUUACUGUGGCAUCCAGCGACACAC--CAUCCUUUUUAUAUGGUGGCCAUAACUUUUCACCAUA
.((((((((((.(((.((.(((......))).)).)))))))))...........(((--(((.........)))))).........))))...... ( -27.70)
>DroSim_CAF1 33003 95 + 1
CGAAAGCCACAUGUGUGGUGUGACCAUCCACUCCUUACUGUGGCAUCCAGCGACACGC--CAUCCUUUUUAUAUGGCGGCCAUAACUUUUCACCAUA
.((((((((((.(((.((.(((......))).)).)))))))))...........(((--(((.........)))))).........))))...... ( -29.20)
>DroEre_CAF1 35104 93 + 1
CGAAAGCCACAUGUGUGGUGUGACCAUGCACUCCUCACU--GGCAUCCAGCGACAUGG--CGUCCUUUUUAUAUGGCGGCCAUAACUUUUCAGCAUG
((...(((((....))))).))..(((((.....((.((--((...)))).)).((((--(..((.........))..))))).........))))) ( -25.70)
>DroYak_CAF1 31409 95 + 1
CGAAAGCCACAUGUGUGGUGUGACCAUGCACUCCUUACU--GCCAUCCUGCGACAUGCCACAUCCUUUUUAUAUGGCGGCCAUAACUUUUCAGCGAA
.(((((((((....)))))(((.((..(((........)--)).............((((.((.......)).)))))).)))....))))...... ( -18.00)
>consensus
CGAAAGCCACAUGUGUGGUGUGACCAUGCACUCCUUACUGUGGCAUCCAGCGACACGC__CAUCCUUUUUAUAUGGCGGCCAUAACUUUUCACCAUA
.((((((((((.(((.((.(((......))).)).)))))))))...........................(((((...)))))...))))...... (-19.84 = -20.68 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:32 2006