Locus 3643

Sequence ID 2R_DroMel_CAF1
Location 12,087,929 – 12,088,019
Length 90
Max. P 0.914836
window5929 window5930

overview

Window 9

Location 12,087,929 – 12,088,019
Length 90
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 82.69
Mean single sequence MFE -18.90
Consensus MFE -15.20
Energy contribution -15.53
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -1.85
Structure conservation index 0.80
SVM decision value 0.60
SVM RNA-class probability 0.796091
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12087929 90 + 20766785
AGAUAAAAACAUCAUGUUUUAAACAUU--GUUUCCCAAAAUCUUUCCUACGUGGAAAUAGGAAUUUGGUACAAGCCAGUUUUGAC--------------------AUCAAUC
.(((......)))(((((..((((.((--((...(((((.(((((((.....))))...))).))))).))))....)))).)))--------------------))..... ( -16.60)
>DroSec_CAF1 1410 111 + 1
AGA-AAAAACAUCAUGUUUUAAACAUUAUGUUUCCGAAAAUCUUUCCUACGUGGAAAUCGGAAUUUGGAAUAAUCCAGUUUCGACACUUUAUCAAUUAAAAAAGCAUCAAUC
.((-((.(((((.((((.....)))).)))))(((((.....(((((.....))))))))))..(((((....)))))))))((..((((..........))))..)).... ( -20.20)
>DroSim_CAF1 612 111 + 1
AGA-AAAAACAUCAUGUUUUAAACAUUAUGUUUCCGAAAAUCUUUCCUACGUGGAAAUCGGAAUUUGGAAUAAUCCAGUUUUGACACUUUAUCAAUUAAAAAAGCAUCAAUC
...-...(((((.((((.....)))).)))))(((((.....(((((.....))))))))))..(((((....)))))..((((..((((..........))))..)))).. ( -19.90)
>consensus
AGA_AAAAACAUCAUGUUUUAAACAUUAUGUUUCCGAAAAUCUUUCCUACGUGGAAAUCGGAAUUUGGAAUAAUCCAGUUUUGACACUUUAUCAAUUAAAAAAGCAUCAAUC
......((((((.((((.....)))).)))))).........(((((.....)))))((((((((.(((....)))))))))))............................ (-15.20 = -15.53 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,087,929 – 12,088,019
Length 90
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 82.69
Mean single sequence MFE -23.50
Consensus MFE -19.65
Energy contribution -20.40
Covariance contribution 0.75
Combinations/Pair 1.06
Mean z-score -2.06
Structure conservation index 0.84
SVM decision value 1.10
SVM RNA-class probability 0.914836
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12087929 90 - 20766785
GAUUGAU--------------------GUCAAAACUGGCUUGUACCAAAUUCCUAUUUCCACGUAGGAAAGAUUUUGGGAAAC--AAUGUUUAAAACAUGAUGUUUUUAUCU
(((.(((--------------------((((.....(((((((.((((((((((((......)))))))....)))))...))--)).))).......)))))))...))). ( -18.80)
>DroSec_CAF1 1410 111 - 1
GAUUGAUGCUUUUUUAAUUGAUAAAGUGUCGAAACUGGAUUAUUCCAAAUUCCGAUUUCCACGUAGGAAAGAUUUUCGGAAACAUAAUGUUUAAAACAUGAUGUUUUU-UCU
..((((((((((.((....)).))))))))))...((((....))))..(((((((((((.....))))).....))))))((((.((((.....)))).))))....-... ( -25.70)
>DroSim_CAF1 612 111 - 1
GAUUGAUGCUUUUUUAAUUGAUAAAGUGUCAAAACUGGAUUAUUCCAAAUUCCGAUUUCCACGUAGGAAAGAUUUUCGGAAACAUAAUGUUUAAAACAUGAUGUUUUU-UCU
..((((((((((.((....)).))))))))))...((((....))))..(((((((((((.....))))).....))))))((((.((((.....)))).))))....-... ( -26.00)
>consensus
GAUUGAUGCUUUUUUAAUUGAUAAAGUGUCAAAACUGGAUUAUUCCAAAUUCCGAUUUCCACGUAGGAAAGAUUUUCGGAAACAUAAUGUUUAAAACAUGAUGUUUUU_UCU
..((((((((((..........))))))))))...((((....))))..(((((((((((.....))))).....))))))((((.((((.....)))).))))........ (-19.65 = -20.40 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:40 2006