Locus 3395

Sequence ID 3R_DroMel_CAF1
Location 9,192,643 – 9,192,749
Length 106
Max. P 0.801571
window5448

overview

Window 8

Location 9,192,643 – 9,192,749
Length 106
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -26.85
Consensus MFE -19.82
Energy contribution -19.66
Covariance contribution -0.16
Combinations/Pair 1.32
Mean z-score -1.71
Structure conservation index 0.74
SVM decision value 0.62
SVM RNA-class probability 0.801571
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9192643 106 + 27905053
AGUGUUGUUAAGCGCAGCAAGACCACUGUUGUGGGCUAACAGAAUGUUAUACGCGUGCCAAGGCAA-----ACAAAAAUACAUGGUCGUUUUCAAAAAGGGGACAAAUAUU
..((((((.....)))))).((((.((((((.....)))))).((((........(((....))).-----........))))))))(((..(.....)..)))....... ( -26.73)
>DroSec_CAF1 29829 104 + 1
AGUGCUGUAAAGCGCAGCAAGACCUCUGUUAUGUGCUAACAGAAUGCUAUCCGCGUGCCAAGGCAA-----ACAAAAAUACAUGGUCGUAUUCAA--AGGGGACAAAUAUU
..((((((.....)))))).(((((((((((.....)))))))((((.....))))((....))..-----............))))........--.(....)....... ( -26.10)
>DroSim_CAF1 28685 104 + 1
AGUGCUGUAAAGCGCAGCAAGACCACUGUUAUGUACUAGCAGAAUGCUAUCAGCGUGCCAAGGCAA-----ACAAAAAUACAUGGUCGUAUUCAA--AGGGGACAAAUAUU
..((((((.....)))))).(((((((((((.....)))))).((((.....))))((....))..-----...........)))))........--.(....)....... ( -26.40)
>DroEre_CAF1 35088 108 + 1
AGUGCUGUUAAGCGCAGCAAGACCGAUGUUGUGAGUUUACAGAAUGUUAUACACGUGUAACGACAUAAAUAAUAUAUAUCCAUGGUCGUUUCCGA--AGGGGAUAAAUAU-
..((((((.....)))))).((((((((((((..(((((.....(((((((....)))))))...))))).))).)))))...))))..((((..--..)))).......- ( -25.50)
>DroYak_CAF1 28434 107 + 1
AGUGCUGUUAAGCGCAGCAAUACCGCUGUUGUGCGUUAAC-GAAUGUUAUCCGAGUGCAACGGCAUUAAC-ACAUAUAUCAAUGUUCUUUUUCGA--AGGGAAAAAAUAUA
..((((((.....)))))).....(((((((..(..((((-....)))).....)..)))))))......-..........(((((.((((((..--..))))))))))). ( -29.50)
>consensus
AGUGCUGUUAAGCGCAGCAAGACCACUGUUGUGUGCUAACAGAAUGUUAUCCGCGUGCCAAGGCAA_____ACAAAAAUACAUGGUCGUUUUCAA__AGGGGACAAAUAUU
..((((((.....)))))).((((.((((((.....)))))).............(((....)))..................))))((((((.....))))))....... (-19.82 = -19.66 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:54 2006