Locus 4535

Sequence ID 3L_DroMel_CAF1
Location 13,054,591 – 13,054,721
Length 130
Max. P 0.935514
window7081 window7082

overview

Window 1

Location 13,054,591 – 13,054,683
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.47
Mean single sequence MFE -27.05
Consensus MFE -20.71
Energy contribution -21.43
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.84
Structure conservation index 0.77
SVM decision value 0.11
SVM RNA-class probability 0.587540
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13054591 92 + 23771897
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCA--ACAU-----------------------UCAGCCUUC---
((((((.(((....)))((.((((((.((.((((.......))))...))))))))(((((((.....)))).))))).--....-----------------------...))))))--- ( -25.90)
>DroPse_CAF1 33806 85 + 1
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUAGG---CGGCA--AC---------------------------AGCCACC---
((.(((..(((((((..((.((((((.((.((((.......))))...)))))))).))......))))))---)(...--.)---------------------------.))).))--- ( -21.00)
>DroSim_CAF1 38141 92 + 1
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCA--ACAU-----------------------UCAGCCUCC---
((((((.(((....)))((.((((((.((.((((.......))))...))))))))(((((((.....)))).))))).--....-----------------------...))))))--- ( -28.80)
>DroEre_CAF1 38927 92 + 1
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCA--GCAU-----------------------UCAGCCUCC---
((((((.(((....)))((.((((((.((.((((.......))))...))))))))(((((((.....)))).))))).--....-----------------------...))))))--- ( -28.80)
>DroYak_CAF1 40634 92 + 1
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCA--ACAU-----------------------UCAGCCUCC---
((((((.(((....)))((.((((((.((.((((.......))))...))))))))(((((((.....)))).))))).--....-----------------------...))))))--- ( -28.80)
>DroAna_CAF1 37509 120 + 1
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUGGACAGCCACCGACCAUCGCCACCGCCAACCGCAACCAUCUCAACCGCCACU
...(((.(((....)))..((.(((...((((((............((((((...((((.(((.....)))..))))..)))))).((....))...)))))).))).))....)))... ( -29.00)
>consensus
GGAGGCAUGUUUAAACAGCGAAAUGAACUUGUGGAUAAACACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCA__ACAU_______________________UCAGCCUCC___
((((((...........((.((((((.((.((((.......))))...)))))))).))((((.....)))).......................................))))))... (-20.71 = -21.43 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 13,054,631 – 13,054,721
Length 90
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 93.69
Mean single sequence MFE -23.98
Consensus MFE -21.98
Energy contribution -22.42
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.44
Structure conservation index 0.92
SVM decision value 1.25
SVM RNA-class probability 0.935514
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13054631 90 + 23771897
ACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCAACAUUCAGCCUUCGAUGUUUGUCGCCCUACAGGGUAUGCCGACUACCCCA-C
........(((...(((((((((.((.((((.((.((.((((((........)))))))).)).)))).)))).)))))))..)))...-. ( -26.70)
>DroSec_CAF1 42324 90 + 1
ACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCAACAUUCAGCCUCCGAUGUUUGUCGCCCUACAGGGUAUGCCGACCACCCCA-C
........(((...(((((((((.((.((((.((.((.((((((........)))))))).)).)))).)))).)))))))..)))...-. ( -26.00)
>DroSim_CAF1 38181 90 + 1
ACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCAACAUUCAGCCUCCGAUGUUUGUCGCCCUACAGGGUAUGCCGACCACCCCA-C
........(((...(((((((((.((.((((.((.((.((((((........)))))))).)).)))).)))).)))))))..)))...-. ( -26.00)
>DroEre_CAF1 38967 83 + 1
ACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCAGCAUUCAGCCUCCGAUGUUUGUCGCCCUACAGGGUAUACCGACC--------
.......((((.....(((((((.....)))).)))((((((((........)))).)))).((((....))))..))))...-------- ( -19.90)
>DroYak_CAF1 40674 91 + 1
ACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCAACAUUCAGCCUCCUAUGUUUGUCGCCCUACAGGGUAUACCGACCACUCCAGC
.......(((((....(((((((.....)))).)))...(((..((........))..))).((((....)))).....)))))....... ( -21.30)
>consensus
ACCAUUAUGGUUAUUUGGCAUCCACUUUGGGUCGCCGCAACAUUCAGCCUCCGAUGUUUGUCGCCCUACAGGGUAUGCCGACCACCCCA_C
(((.....)))...(((((((((.((.((((.((.((.((((((........)))))))).)).)))).)))).))))))).......... (-21.98 = -22.42 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:55 2006