Locus 7786

Sequence ID 3R_DroMel_CAF1
Location 20,848,188 – 20,848,287
Length 99
Max. P 0.533833
window12554

overview

Window 4

Location 20,848,188 – 20,848,287
Length 99
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 79.45
Mean single sequence MFE -23.02
Consensus MFE -11.49
Energy contribution -9.97
Covariance contribution -1.52
Combinations/Pair 1.32
Mean z-score -2.03
Structure conservation index 0.50
SVM decision value 0.00
SVM RNA-class probability 0.533833
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20848188 99 + 27905053
GAGGUGGCCA-AACCGUAGUCUACAUAGAAUU-UUUAGAUCAACUGAAACUGAAACGGAAACGGAAACCGAUUACGGAACCGGA--AACACACUGUCGGCCAU
...((((((.-..((((((((..........(-(((((.....))))))......((....))......))))))))....(..--..)........)))))) ( -30.60)
>DroPse_CAF1 61501 93 + 1
GUGGCAGUAACAAUGGUAGUCUACAUAGAAUUUUUUAGAUCAACUGAA-----GACGGAAACUAAAA-----UAUGGAAACAAACGAACAAACUGUCGGCUAU
.(((((((.....((((..(((....)))..(((((((.....)))))-----)).....))))...-----..((....)).........)))))))..... ( -15.30)
>DroSec_CAF1 64075 99 + 1
GAGGUGGCCA-AACCGUAGUAUACAUAGAAUU-UUUAGAUCAACUGAAACUAAAACGGAAACGGAUACCGAUUACGGAACCGGA--AACACACUGUCGGCCAU
...((((((.-..(((((((.....(((...(-(((((.....)))))))))...((....)).......)))))))....(..--..)........)))))) ( -27.40)
>DroEre_CAF1 61561 99 + 1
GAGGUGGCCA-AACCGUAGUCUACAUAGAAUU-UUUAGAUCAACUGAAACUGAAACGGAAACGGAAACCGAUUACGGAACCGGA--AACAAACUGUCGGCCAU
...((((((.-..((((((((..........(-(((((.....))))))......((....))......))))))))....(..--..)........)))))) ( -30.60)
>DroAna_CAF1 57997 88 + 1
GGGGUGGCAACAACCGUAGUCUACAUAGAAUU-UUUAGAUCAACUGAA------------ACGGAAACUAAAUACGGAACCGAA--AACACACUGUCGGCUAU
.((.((....)).))((((((.(((......(-(((((.....)))))------------).(....)......((....))..--.......))).)))))) ( -16.80)
>DroPer_CAF1 60899 93 + 1
GUGGCAGUAACAAUGGUAGUCUACAUAGAAUUUUUUAGAUCAACUGAA-----GACGGAAACUAAAA-----UAUGGAAACAUACGAACAAACUGUCGGCUAU
.(((((((.....((((..(((....)))..(((((((.....)))))-----)).....))))...-----((((....)))).......)))))))..... ( -17.40)
>consensus
GAGGUGGCAA_AACCGUAGUCUACAUAGAAUU_UUUAGAUCAACUGAA_____AACGGAAACGGAAACCGAUUACGGAACCGGA__AACAAACUGUCGGCCAU
...(((((.....((((..(((....)))....(((((.....)))))............))))..........((....))................))))) (-11.49 =  -9.97 +  -1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:36 2006