Locus 5055

Sequence ID 2R_DroMel_CAF1
Location 16,427,743 – 16,427,838
Length 95
Max. P 0.822361
window8078 window8079

overview

Window 8

Location 16,427,743 – 16,427,838
Length 95
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.17
Mean single sequence MFE -25.42
Consensus MFE -21.43
Energy contribution -21.43
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.12
Structure conservation index 0.84
SVM decision value 0.69
SVM RNA-class probability 0.822361
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16427743 95 + 20766785
CCU-UCACGACGAUCCAUCUACACGAGAUCUGUUAAGCAGUUGACGCGGCAUUAAAUUGAGCAUUAAGGCGUCUUAAUGAUUUUAAUGCGUGUCUG----------------------
...-....((((((((........).)))).)))........((((((.(((((((.....(((((((....)))))))..)))))))))))))..---------------------- ( -24.20)
>DroPse_CAF1 132564 115 + 1
CAAGCCGC---GAUCCAUCUACACGAGAUCUGUUAAGCAGUUGACGCGGCAUUAAAUUGAGCAUUAAGUCAUCUUAAUGAUUUUAAUGCGUGUCCGUGUCCGAGUCUCUGUCCGUAUC
........---.........(((.((((((((.....)))..((((((((((...(((((.(((((((....)))))))...)))))..))).)))))))...))))))))....... ( -29.30)
>DroWil_CAF1 244301 85 + 1
------UC---GAUCCAUCUAUGC--GACCUGUUAAGCAGUUGACGCGGCAUUAAAUUGAGCAUUAAGUCGCCUUAAUGAUUUUAAUGCGUGUCCG----------------------
------..---..........(((--..........)))...((((((.(((((((.....(((((((....)))))))..)))))))))))))..---------------------- ( -21.50)
>DroYak_CAF1 103883 92 + 1
CCU-UCAC---GAUCCAUCUACACGAGAUCUGUUCGCCAGUUGACGCGGCAUUAAAUUGAGCAUUAAGGCGUCUUAAUGAUUUUAAUGCGUGUCUG----------------------
...-...(---((...((((.....))))....)))......((((((.(((((((.....(((((((....)))))))..)))))))))))))..---------------------- ( -23.20)
>DroAna_CAF1 98509 84 + 1
--------------CCGUCUACACGAGAUCUGUUAAGCAGUUGACGCGGCAUUAAAGUGAGCAUUAAGUCGUCUUAAUGAUUUUAAUGCGUGUCUGUG--------------------
--------------.......((((....(((.....)))..((((((.(((((((((...(((((((....))))))))))))))))))))))))))-------------------- ( -25.00)
>DroPer_CAF1 133628 115 + 1
CAAGCCGC---GAUCCAUCUACACGAGAUCUGUUAAGCAGUUGACGCGGCAUUAAAUUGAGCAUUAAGUCAUCUUAAUGAUUUUAAUGCGUGUCCGUGUCCGAGUCUCUGUCCGUAUC
........---.........(((.((((((((.....)))..((((((((((...(((((.(((((((....)))))))...)))))..))).)))))))...))))))))....... ( -29.30)
>consensus
C____CAC___GAUCCAUCUACACGAGAUCUGUUAAGCAGUUGACGCGGCAUUAAAUUGAGCAUUAAGUCGUCUUAAUGAUUUUAAUGCGUGUCCG______________________
.............................(((.....)))..((((((.(((((((.....(((((((....)))))))..)))))))))))))........................ (-21.43 = -21.43 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,427,743 – 16,427,838
Length 95
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.17
Mean single sequence MFE -23.67
Consensus MFE -17.65
Energy contribution -17.65
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.02
Structure conservation index 0.75
SVM decision value 0.33
SVM RNA-class probability 0.690384
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16427743 95 - 20766785
----------------------CAGACACGCAUUAAAAUCAUUAAGACGCCUUAAUGCUCAAUUUAAUGCCGCGUCAACUGCUUAACAGAUCUCGUGUAGAUGGAUCGUCGUGA-AGG
----------------------..(((.(((((((((..(((((((....))))))).....))))))).)).))).....(((.((.((((.(((....)))))))...)).)-)). ( -22.70)
>DroPse_CAF1 132564 115 - 1
GAUACGGACAGAGACUCGGACACGGACACGCAUUAAAAUCAUUAAGAUGACUUAAUGCUCAAUUUAAUGCCGCGUCAACUGCUUAACAGAUCUCGUGUAGAUGGAUC---GCGGCUUG
....((....((..(((..((((((((.(((((((((..(((((((....))))))).....))))))).)).)))..(((.....)))....))))).)).)..))---.))..... ( -27.40)
>DroWil_CAF1 244301 85 - 1
----------------------CGGACACGCAUUAAAAUCAUUAAGGCGACUUAAUGCUCAAUUUAAUGCCGCGUCAACUGCUUAACAGGUC--GCAUAGAUGGAUC---GA------
----------------------..(((.(((((((((..(((((((....))))))).....))))))).)).)))............((((--.((....))))))---..------ ( -21.70)
>DroYak_CAF1 103883 92 - 1
----------------------CAGACACGCAUUAAAAUCAUUAAGACGCCUUAAUGCUCAAUUUAAUGCCGCGUCAACUGGCGAACAGAUCUCGUGUAGAUGGAUC---GUGA-AGG
----------------------....(((((((((((..(((((((....))))))).....))))))))..((((....))))....((((.(((....)))))))---))).-... ( -23.60)
>DroAna_CAF1 98509 84 - 1
--------------------CACAGACACGCAUUAAAAUCAUUAAGACGACUUAAUGCUCACUUUAAUGCCGCGUCAACUGCUUAACAGAUCUCGUGUAGACGG--------------
--------------------(((.(((.(((((((((..(((((((....))))))).....))))))).)).)))..(((.....))).....))).......-------------- ( -19.20)
>DroPer_CAF1 133628 115 - 1
GAUACGGACAGAGACUCGGACACGGACACGCAUUAAAAUCAUUAAGAUGACUUAAUGCUCAAUUUAAUGCCGCGUCAACUGCUUAACAGAUCUCGUGUAGAUGGAUC---GCGGCUUG
....((....((..(((..((((((((.(((((((((..(((((((....))))))).....))))))).)).)))..(((.....)))....))))).)).)..))---.))..... ( -27.40)
>consensus
______________________CAGACACGCAUUAAAAUCAUUAAGACGACUUAAUGCUCAAUUUAAUGCCGCGUCAACUGCUUAACAGAUCUCGUGUAGAUGGAUC___GCG____G
........................(((.(((((((((..(((((((....))))))).....))))))).)).)))..(((.....)))............................. (-17.65 = -17.65 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:20 2006