Locus 2374

Sequence ID X_DroMel_CAF1
Location 6,334,931 – 6,335,038
Length 107
Max. P 0.505165
window3862

overview

Window 2

Location 6,334,931 – 6,335,038
Length 107
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 87.22
Mean single sequence MFE -26.32
Consensus MFE -19.85
Energy contribution -19.85
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.75
SVM decision value -0.06
SVM RNA-class probability 0.505165
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6334931 107 + 22224390
CAUCCAGUUCCUCCUCCUCCAGCA------CAUCCUCUC------CUGAAUGGAGCAACAACAAUGGAUGGCCAAAACCGCACAGAAAGCAAUUGGGAAAUGGCAGAAAAACUGGAGCA
..(((((((..((..(((((.((.------(((((.(((------(.....))))..........))))))).......((.......)).....)))...))..))..)))))))... ( -28.20)
>DroSec_CAF1 19423 104 + 1
CAUCCAGUUCCU---CCUCCAGCA------CAUCCUCUC------CUGAAUGGAGCAACAACAAUGGAUGGCCAAAACCGCACAGAAAGCAAUUGGGAAAUGGCACAAAAACUGGAGCA
..(((((((((.---..(((.((.------(((((.(((------(.....))))..........))))))).......((.......)).....)))...))......)))))))... ( -25.90)
>DroEre_CAF1 17076 102 + 1
CAUCCAGUUCCU---CCUCCAGCAUCCUCGC--------------GUGAAUGGAGCAACAACAAUGGAUGGCCAAAACCGCACAGAAAGCAAUUGGGAAAUGGCACAAAAACUGGAGCA
..(((((((.((---((..((((......))--------------.))...)))).............((((((...((((.......))....))....)))).))..)))))))... ( -23.10)
>DroYak_CAF1 15844 116 + 1
CAUCCAGUUCCU---CCUCCAGCAUCCUCGCAGCCUCUCGUGAAUGGGAAUGGAGCAACAACAAUGGAUGGCCAAAACCGCACAGAAAGCAAUUGGGAAAUGGCACAAAAACUGGAGCA
..(((((((...---.(((((...(((((((........))))...))).))))).............((((((...((((.......))....))....)))).))..)))))))... ( -28.10)
>consensus
CAUCCAGUUCCU___CCUCCAGCA______CAUCCUCUC______CUGAAUGGAGCAACAACAAUGGAUGGCCAAAACCGCACAGAAAGCAAUUGGGAAAUGGCACAAAAACUGGAGCA
..(((((((.......(((((.............................)))))...............((((...((((.......))....))....)))).....)))))))... (-19.85 = -19.85 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:58 2006