Locus 418

Sequence ID 3R_DroMel_CAF1
Location 1,546,335 – 1,546,435
Length 100
Max. P 0.877666
window686

overview

Window 6

Location 1,546,335 – 1,546,435
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.62
Mean single sequence MFE -27.12
Consensus MFE -16.54
Energy contribution -17.10
Covariance contribution 0.56
Combinations/Pair 1.16
Mean z-score -2.81
Structure conservation index 0.61
SVM decision value 0.90
SVM RNA-class probability 0.877666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1546335 100 + 27905053
GAAGGACAAGAAUUAGAUGUGAAAUCUU-UUCUCAAGUUUUUUUAU-----------UAAGAUCCUU-----AAAAGGAUUCCCG---AAUAACCGUUAUAAAUUAGCGGUGCUAGGGAA
(((((((.((((..((((.....)))).-))))...)))))))...-----------....(((((.-----...)))))((((.---....(((((((.....)))))))....)))). ( -26.60)
>DroSec_CAF1 47931 100 + 1
GAAGGACAAGAAUUAGAUGUGAAAUCUU-UUCUCAAGUUUUUUUUU-----------UAAGAUCCUU-----GAAAGGAUUCCCA---AAUAACCGUUAUAAAUUAGCGGUGCUAGGGGA
(((((((.((((..((((.....)))).-))))...)))))))...-----------...((((((.-----...))))))(((.---....(((((((.....))))))).....))). ( -26.50)
>DroSim_CAF1 48575 100 + 1
GAAGGACAAGAAUUAGAUGUGAAAUCUU-UUCUCAAGUUUUUUUUG-----------UAAGAUCCUU-----GAAAGGAUUCCCA---AAUAACCGUUAUAAAUUAGCGGUGCUAGGGGA
(((((((.((((..((((.....)))).-))))...)))))))...-----------...((((((.-----...))))))(((.---....(((((((.....))))))).....))). ( -26.50)
>DroEre_CAF1 47322 95 + 1
GAAGGACAA-GAUGAGAUGAGAAAUAUU-UUCUCAAGUUUCUU---------------AGGAUCCUU-----GAAAGGAUUCCCG---AAUAACCGUUAUAAAUUAGCGGUGGUGGGGAA
.((((((..-..(((((((((((.....-))))))....))))---------------).).)))))-----.......((((((---....(((((((.....)))))))..)))))). ( -29.70)
>DroYak_CAF1 43663 111 + 1
GAAGGACAACGAUGAGAUGAGAAACCUU-UUCUCAAGUUUUUUUUUCCUUGUAGAUUGAAGAUCCUU-----GAAAGGAUUCCAA---AAUAACCGUUAUAAAUUAGCGGUGGUAGGAAA
.(((((.(((..(((((.(((....)))-.))))).))).)))))((((......(((..((((((.-----...)))))).)))---....(((((((.....)))))))...)))).. ( -26.70)
>DroAna_CAF1 45829 109 + 1
GAAGGACAAGGAUUAGAUGGGAAAUCUUUUUCUUAAGUUUUUUUAU-----------UUGGGACUCUGAAAGGAAAGGAUUCUCAUGGAAUAACCGUUAUAAAUUAACGGUAUUAGAGCA
...........(((..(((((((.((((((((((.((((((.....-----------..))))))....)))))))))))))))))..))).(((((((.....)))))))......... ( -26.70)
>consensus
GAAGGACAAGAAUUAGAUGUGAAAUCUU_UUCUCAAGUUUUUUUUU___________UAAGAUCCUU_____GAAAGGAUUCCCA___AAUAACCGUUAUAAAUUAGCGGUGCUAGGGAA
(((((((.((((..((((.....))))..))))...))))))).................(((((((.......)))))))(((........(((((((.....)))))))....))).. (-16.54 = -17.10 +   0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:44 2006