Locus 5159

Sequence ID 3L_DroMel_CAF1
Location 14,169,708 – 14,169,800
Length 92
Max. P 0.920879
window8161 window8162

overview

Window 1

Location 14,169,708 – 14,169,800
Length 92
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.51
Mean single sequence MFE -40.10
Consensus MFE -32.30
Energy contribution -33.05
Covariance contribution 0.75
Combinations/Pair 1.07
Mean z-score -2.58
Structure conservation index 0.81
SVM decision value 1.14
SVM RNA-class probability 0.920879
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14169708 92 + 23771897
GUCU--ACGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCA--ACAUUGUU-----------------
....--.....((((((((((.....((....((((((((.((((((((.....)))))))).....))))))))---))))))).)))--))......----------------- ( -36.20)
>DroSec_CAF1 4363 92 + 1
GUCU--CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCA-AACAUUGU------------------
((((--((((((((((.......))))))...((((((((.((((((((.....)))))))).....))))))))---))))))))...-........------------------ ( -37.10)
>DroSim_CAF1 4321 92 + 1
GUCU--CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCA-AACAUUGU------------------
((((--((((((((((.......))))))...((((((((.((((((((.....)))))))).....))))))))---))))))))...-........------------------ ( -37.10)
>DroEre_CAF1 4812 95 + 1
GUCU--CCGCUGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCA--ACAUUGUUGG--------------C
((((--((((....(((.........)))...((((((((.((((((((.....)))))))).....))))))))---))))))))(((--((...)))))--------------. ( -41.50)
>DroYak_CAF1 4710 109 + 1
GUCU--CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCA--GCAUUGUUGGCAGUUUGCAGUUGGC
((((--((((((((((.......))))))...((((((((.((((((((.....)))))))).....))))))))---))))))))(((--((((((....)))).....))))). ( -42.50)
>DroAna_CAF1 3787 102 + 1
GUGUAGCUGUUGGGGGCCCUCGAUUAGCCUUUUAGGUGGCCGGCUACCUAAUGGCGGCAUUUUCUGAGCCACCUUUAAGCGGCGGCCCCCAACUAACUUGG--------------C
........((((((((((.(((.((((((..((((((((....)))))))).)))(((.........))).....))).))).))))))))))........--------------. ( -46.20)
>consensus
GUCU__CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU___GCGGGGGCCCA__ACAUUGUU_________________
........((....(((((((.....((....((((((((.((((((((.....)))))))).....))))))))...)))))))))....))....................... (-32.30 = -33.05 +   0.75)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,169,708 – 14,169,800
Length 92
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 82.51
Mean single sequence MFE -36.35
Consensus MFE -26.96
Energy contribution -27.60
Covariance contribution 0.64
Combinations/Pair 1.15
Mean z-score -2.17
Structure conservation index 0.74
SVM decision value 0.64
SVM RNA-class probability 0.807583
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14169708 92 - 23771897
-----------------AACAAUGU--UGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGU--AGAC
-----------------....((((--..(((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))....))))--.... ( -32.10)
>DroSec_CAF1 4363 92 - 1
------------------ACAAUGUU-UGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG--AGAC
------------------.(..(((.-..(((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))....))).--.).. ( -31.30)
>DroSim_CAF1 4321 92 - 1
------------------ACAAUGUU-UGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG--AGAC
------------------.(..(((.-..(((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))....))).--.).. ( -31.30)
>DroEre_CAF1 4812 95 - 1
G--------------CCAACAAUGU--UGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACAGCGG--AGAC
.--------------(((((...))--)))....((((---...((((((.((...((((((.....))))))))))))))......((((.......))))....))))--.... ( -36.70)
>DroYak_CAF1 4710 109 - 1
GCCAACUGCAAACUGCCAACAAUGC--UGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG--AGAC
(((.....(((...(((.....(((--.((....))))---)..((((((.((...((((((.....))))))))))))))......)))...)))..))).......(.--...) ( -35.60)
>DroAna_CAF1 3787 102 - 1
G--------------CCAAGUUAGUUGGGGGCCGCCGCUUAAAGGUGGCUCAGAAAAUGCCGCCAUUAGGUAGCCGGCCACCUAAAAGGCUAAUCGAGGGCCCCCAACAGCUACAC
.--------------...((((.((((((((((((..(((((.((((((.........)))))).)))))..)).((((........)))).......)))))))))))))).... ( -51.10)
>consensus
_________________AACAAUGU__UGGGCCCCCGC___AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG__AGAC
.......................((....(((((.(((...((((((((.(((...((((((.....))))))))))))).))))...)).....).)))))....))........ (-26.96 = -27.60 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:18 2006