Locus 4823

Sequence ID 2R_DroMel_CAF1
Location 15,832,741 – 15,832,832
Length 91
Max. P 0.927146
window7744 window7745

overview

Window 4

Location 15,832,741 – 15,832,832
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 78.39
Mean single sequence MFE -33.65
Consensus MFE -20.62
Energy contribution -21.62
Covariance contribution 1.00
Combinations/Pair 1.14
Mean z-score -2.07
Structure conservation index 0.61
SVM decision value 0.87
SVM RNA-class probability 0.871720
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15832741 91 + 20766785
GACCAGCAGCUGGAUGGAAAACCAGCUGUGGCAACAGCCAAUUUGCUGGCCAAGGUCAUUAGCUCCAAGGUCGAUCAGCCCAGGAAGUCUG
((((.((((((((.(....).))))))))(((..((((......)))))))..))))....(((((..(((......)))..)).)))... ( -35.60)
>DroSec_CAF1 8286 91 + 1
AACCAGCAGCUGGAUGGAAAACCAGCUGUGGCAACAGCCAAUCUGCUGGCGAAGGUCAUUAGCUCCAAGGUCGAUCAGCCCAGGAAGUCUG
.....((((((((.(....).))))))))(((....)))...(((.((((....)))).))).(((..(((......)))..)))...... ( -30.60)
>DroSim_CAF1 8268 91 + 1
AACCAGCAGCUGGAGGGAAAACCAGCUGUGGCCACAGCCAAUCUGCUGGCGAAGGUCAUUAGCUCCAAGGUCGAUCAGCCCAGGAAGUCUG
.....((((((((........))))))))((((...((((......))))...))))....(((((..(((......)))..)).)))... ( -31.40)
>DroAna_CAF1 7917 88 + 1
GUC---AAUGUGGAGACCAAGCCCUCGAUGGCCAAGGCCAGUCUCCUGGCCAAGGUGGUCAGCAGCAAGGGUGACCAGCCCAUCAAGCGGC
...---..((.(....))).(((((.(((((....((((((....))))))..(.((((((.(......).)))))).)))))).)).))) ( -37.00)
>consensus
AACCAGCAGCUGGAGGGAAAACCAGCUGUGGCAACAGCCAAUCUGCUGGCCAAGGUCAUUAGCUCCAAGGUCGAUCAGCCCAGGAAGUCUG
.....((((((((........))))))))(((....((((......))))...(((((((........))).)))).)))........... (-20.62 = -21.62 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 15,832,741 – 15,832,832
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 78.39
Mean single sequence MFE -35.00
Consensus MFE -21.65
Energy contribution -23.15
Covariance contribution 1.50
Combinations/Pair 1.09
Mean z-score -2.18
Structure conservation index 0.62
SVM decision value 1.18
SVM RNA-class probability 0.927146
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15832741 91 - 20766785
CAGACUUCCUGGGCUGAUCGACCUUGGAGCUAAUGACCUUGGCCAGCAAAUUGGCUGUUGCCACAGCUGGUUUUCCAUCCAGCUGCUGGUC
((...((((.(((........))).))))....)).....(((((((....((((....)))).((((((........))))))))))))) ( -33.10)
>DroSec_CAF1 8286 91 - 1
CAGACUUCCUGGGCUGAUCGACCUUGGAGCUAAUGACCUUCGCCAGCAGAUUGGCUGUUGCCACAGCUGGUUUUCCAUCCAGCUGCUGGUU
((...((((.(((........))).))))....))......((((((....((((....)))).((((((........)))))))))))). ( -31.50)
>DroSim_CAF1 8268 91 - 1
CAGACUUCCUGGGCUGAUCGACCUUGGAGCUAAUGACCUUCGCCAGCAGAUUGGCUGUGGCCACAGCUGGUUUUCCCUCCAGCUGCUGGUU
((...((((.(((........))).))))....))......((((((....((((....)))).((((((........)))))))))))). ( -31.30)
>DroAna_CAF1 7917 88 - 1
GCCGCUUGAUGGGCUGGUCACCCUUGCUGCUGACCACCUUGGCCAGGAGACUGGCCUUGGCCAUCGAGGGCUUGGUCUCCACAUU---GAC
(((.((((((((..((((((.(......).))))))((..((((((....))))))..)))))))))))))...(((........---))) ( -44.10)
>consensus
CAGACUUCCUGGGCUGAUCGACCUUGGAGCUAAUGACCUUCGCCAGCAGAUUGGCUGUGGCCACAGCUGGUUUUCCAUCCAGCUGCUGGUC
.....((((.(((........))).))))............(((((((...((((....))))..(((((........)))))))))))). (-21.65 = -23.15 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:04 2006