Locus 6126

Sequence ID 2R_DroMel_CAF1
Location 19,272,219 – 19,272,310
Length 91
Max. P 0.954431
window9809 window9810

overview

Window 9

Location 19,272,219 – 19,272,310
Length 91
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 78.42
Mean single sequence MFE -34.57
Consensus MFE -25.29
Energy contribution -24.85
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.73
SVM decision value 1.44
SVM RNA-class probability 0.954431
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19272219 91 + 20766785
CGCAUUGGCGCUGCGCUUGCGCCACACACAUAUUUCAAU-GCGGCCAACU----------------GCGGCCACGUUGCGUAUGCGCAAUUUAUUAGGUGCGUAUCGU----
(((((((((((.......)))))...(.(((((..((((-(.((((....----------------..)))).))))).))))).)..........))))))......---- ( -33.10)
>DroPse_CAF1 14944 112 + 1
CGCACUGGCGCUGCGCUUGCGCCACAAUCAUAUUUCAAUUUCAGCCAAGUGGCAGCUGCAGCGGUAGCGACUAUAUUGCGUAUACGCAAUUUAUUAGGUGCGGGUCGUGGUU
.((....))((..((((((((((....((..............(((....))).(((((....))))))).((.((((((....)))))).))...)))))))).))..)). ( -39.70)
>DroSim_CAF1 12656 91 + 1
CGCACUGGCGCUGCGCUUGCGCCACACACAUAUUUCAAU-GCGGCCAACU----------------GCGGCCACGUUGCGUAUGCGCAAUUUAUUAGGUGCGUAUCGU----
(((((((((((.......)))))...(.(((((..((((-(.((((....----------------..)))).))))).))))).)..........))))))......---- ( -35.50)
>DroYak_CAF1 12024 81 + 1
CGCAUUGGCGCUGCGCUUGCGCCACAUACAUAUUUCAAU-GCG--------------------------GCCACGUUGCGUAUGCGCAAUUUAUUAGGUGCGUAUCGU----
((((((.(((((((((.((.(((.(((..........))-).)--------------------------))))....))))).)))).........))))))......---- ( -25.80)
>DroAna_CAF1 21384 92 + 1
CGCACUGGCGCUGCGCUUGCGCCACACACAUAUUUCAAU-GCAGCCAAAUG---------------GCGGCAACGUUGCGUAUACGCAAUUUAUUAGGUGCGUAUCGA----
(((((((((((.......)))))...............(-((.(((....)---------------)).)))..((((((....))))))......))))))......---- ( -33.60)
>DroPer_CAF1 15439 112 + 1
CGCACUGGCGCUGCGCUUGCGCCACAAUCAUAUUUCAAUUUCAGCCAAGUGGCAGCUGCAGCGGUAGCGACUAUAUUGCGUAUACGCAAUUUAUUAGGUGCGGGUCGUGGUU
.((....))((..((((((((((....((..............(((....))).(((((....))))))).((.((((((....)))))).))...)))))))).))..)). ( -39.70)
>consensus
CGCACUGGCGCUGCGCUUGCGCCACACACAUAUUUCAAU_GCAGCCAACU________________GCGGCCACGUUGCGUAUACGCAAUUUAUUAGGUGCGUAUCGU____
(((((((((((.......)))))...................................................((((((....))))))......)))))).......... (-25.29 = -24.85 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,272,219 – 19,272,310
Length 91
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 78.42
Mean single sequence MFE -32.78
Consensus MFE -23.58
Energy contribution -24.33
Covariance contribution 0.75
Combinations/Pair 1.09
Mean z-score -1.96
Structure conservation index 0.72
SVM decision value 1.30
SVM RNA-class probability 0.939941
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19272219 91 - 20766785
----ACGAUACGCACCUAAUAAAUUGCGCAUACGCAACGUGGCCGC----------------AGUUGGCCGC-AUUGAAAUAUGUGUGUGGCGCAAGCGCAGCGCCAAUGCG
----......((((...........(((((((..(((.(((((((.----------------...)))))))-.)))...))))))).((((((.......)))))).)))) ( -36.00)
>DroPse_CAF1 14944 112 - 1
AACCACGACCCGCACCUAAUAAAUUGCGUAUACGCAAUAUAGUCGCUACCGCUGCAGCUGCCACUUGGCUGAAAUUGAAAUAUGAUUGUGGCGCAAGCGCAGCGCCAGUGCG
..........(((((.......((((((....))))))...........((((((....(((....))).....................((....))))))))...))))) ( -33.80)
>DroSim_CAF1 12656 91 - 1
----ACGAUACGCACCUAAUAAAUUGCGCAUACGCAACGUGGCCGC----------------AGUUGGCCGC-AUUGAAAUAUGUGUGUGGCGCAAGCGCAGCGCCAGUGCG
----......(((((..........(((((((..(((.(((((((.----------------...)))))))-.)))...))))))).((((((.......))))))))))) ( -38.90)
>DroYak_CAF1 12024 81 - 1
----ACGAUACGCACCUAAUAAAUUGCGCAUACGCAACGUGGC--------------------------CGC-AUUGAAAUAUGUAUGUGGCGCAAGCGCAGCGCCAAUGCG
----......((((.........(((((....)))))..((((--------------------------(((-((......)))).((((.(....)))))).)))).)))) ( -22.20)
>DroAna_CAF1 21384 92 - 1
----UCGAUACGCACCUAAUAAAUUGCGUAUACGCAACGUUGCCGC---------------CAUUUGGCUGC-AUUGAAAUAUGUGUGUGGCGCAAGCGCAGCGCCAGUGCG
----......(((((........(((((....)))))((.(((.((---------------(....))).))-).))...........((((((.......))))))))))) ( -32.00)
>DroPer_CAF1 15439 112 - 1
AACCACGACCCGCACCUAAUAAAUUGCGUAUACGCAAUAUAGUCGCUACCGCUGCAGCUGCCACUUGGCUGAAAUUGAAAUAUGAUUGUGGCGCAAGCGCAGCGCCAGUGCG
..........(((((.......((((((....))))))...........((((((....(((....))).....................((....))))))))...))))) ( -33.80)
>consensus
____ACGAUACGCACCUAAUAAAUUGCGCAUACGCAACGUGGCCGC________________ACUUGGCCGC_AUUGAAAUAUGUGUGUGGCGCAAGCGCAGCGCCAGUGCG
..........(((((........(((((....))))).(((((((....................)))))))................((((((.......))))))))))) (-23.58 = -24.33 +   0.75)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:25 2006