Locus 5824

Sequence ID 2R_DroMel_CAF1
Location 18,457,710 – 18,457,800
Length 90
Max. P 0.517055
window9328 window9329

overview

Window 8

Location 18,457,710 – 18,457,800
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 86.85
Mean single sequence MFE -29.38
Consensus MFE -17.95
Energy contribution -20.77
Covariance contribution 2.81
Combinations/Pair 1.04
Mean z-score -2.04
Structure conservation index 0.61
SVM decision value -0.05
SVM RNA-class probability 0.507246
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18457710 90 + 20766785
UCAGUAUUGGCAUUGGUGUGGGUAGCAGUAACGGUAACGUUACACCGCUCCCGGUGACGUCAGCAUGUUGUUGCAUAGUUAAUUGGUGCC
........(((((..((....((((((((((((....))))))...(((..((....))..)))....)))))).......))..))))) ( -33.00)
>DroSec_CAF1 20123 90 + 1
UCAGUAUGGGCAUUGGUGUGGGUAGCAGUAACGGUAACGUUACACCGCUCCCGGUGACGUCAGCAUGUUGUUGCAUAGUUAAUUGGUGCC
........(((((..((....((((((((((((....))))))...(((..((....))..)))....)))))).......))..))))) ( -33.00)
>DroSim_CAF1 20003 90 + 1
UCAGUAUGGGCAUUGGUGUGGGUAGCAGUAACGGUAAAGUUACACCGCUCCCGGUGACGUCAGCAUGUUGUUGCAUAGUUAAUUGGUGCC
........(((((..((....(((((((((((......)))))...(((..((....))..)))....)))))).......))..))))) ( -30.60)
>DroEre_CAF1 19668 73 + 1
UCAGUAUAU-----------------CGCAUCGGUAACGUUACACCGCUCCCGGUGACGUCAGCAUGUUGUUGCAUAGUUAAUUGGUGCC
.........-----------------.(((((((((((........(((..((....))..)))((((....)))).))).)))))))). ( -20.90)
>consensus
UCAGUAUGGGCAUUGGUGUGGGUAGCAGUAACGGUAACGUUACACCGCUCCCGGUGACGUCAGCAUGUUGUUGCAUAGUUAAUUGGUGCC
........(((((..((.......(((((((((((.((((..(((((....)))))))))..)).))))))))).......))..))))) (-17.95 = -20.77 +   2.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,457,710 – 18,457,800
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 86.85
Mean single sequence MFE -21.22
Consensus MFE -15.20
Energy contribution -16.45
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.72
SVM decision value -0.03
SVM RNA-class probability 0.517055
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18457710 90 - 20766785
GGCACCAAUUAACUAUGCAACAACAUGCUGACGUCACCGGGAGCGGUGUAACGUUACCGUUACUGCUACCCACACCAAUGCCAAUACUGA
((((............(((......)))..........((((((((((..(((....)))))))))).))).......))))........ ( -23.40)
>DroSec_CAF1 20123 90 - 1
GGCACCAAUUAACUAUGCAACAACAUGCUGACGUCACCGGGAGCGGUGUAACGUUACCGUUACUGCUACCCACACCAAUGCCCAUACUGA
((((............(((......)))..........((((((((((..(((....)))))))))).))).......))))........ ( -22.50)
>DroSim_CAF1 20003 90 - 1
GGCACCAAUUAACUAUGCAACAACAUGCUGACGUCACCGGGAGCGGUGUAACUUUACCGUUACUGCUACCCACACCAAUGCCCAUACUGA
((((............(((......)))..........((((((((((............))))))).))).......))))........ ( -20.70)
>DroEre_CAF1 19668 73 - 1
GGCACCAAUUAACUAUGCAACAACAUGCUGACGUCACCGGGAGCGGUGUAACGUUACCGAUGCG-----------------AUAUACUGA
.(((.(..........(((......)))(((((((((((....)))))..))))))..).))).-----------------......... ( -18.30)
>consensus
GGCACCAAUUAACUAUGCAACAACAUGCUGACGUCACCGGGAGCGGUGUAACGUUACCGUUACUGCUACCCACACCAAUGCCCAUACUGA
((((............(((......)))(((((((((((....)))))..))))))......................))))........ (-15.20 = -16.45 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:21 2006