Locus 2777

Sequence ID 3R_DroMel_CAF1
Location 7,434,131 – 7,434,225
Length 94
Max. P 0.860477
window4502 window4503

overview

Window 2

Location 7,434,131 – 7,434,225
Length 94
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 93.02
Mean single sequence MFE -28.38
Consensus MFE -24.46
Energy contribution -24.71
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.86
SVM decision value 0.83
SVM RNA-class probability 0.860477
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7434131 94 + 27905053
CCUACUGCUGCUGGGAAAUGUCUUGAAAAUUAAUCUCUUUUUUGGCUGGGCCAGUUUAUCAUAUUAUUAAGGCAUUAGCAGCGGCCUCAGGGGC----
(((...(((((((...((((((((((.(((...........(((((...)))))........))).))))))))))..)))))))...)))...---- ( -28.21)
>DroSec_CAF1 16931 94 + 1
CCUACUGCUGCUGGGAAAUGUCUUGAAAAUUAAUCUCUUUUUUGGCUGGGCCAGUUCAUCAUAUUAUUAAGGCAUUAGCAGCGGCCUCAGGGGC----
(((...(((((((...((((((((((.(((...........(((((...)))))........))).))))))))))..)))))))...)))...---- ( -28.21)
>DroEre_CAF1 16920 88 + 1
---G---CUGCUGGGAAAUGUCUUGAAAAUUAAUCUCUUUUUUGGCUGGGCCAGUUUAUCAUAUUAUUAAGGCAUUAGCAGCGGCCUCAGGGGC----
---(---((((((....(((((((((.(((...........(((((...)))))........))).)))))))))))))))).(((.....)))---- ( -25.91)
>DroYak_CAF1 17532 95 + 1
---GCUGCUGCUGGGAAAUGUCUUGAAAAUUAAUCUCUUUUUUGGCUGGGCCAGUUUAUCAUAUUAUUAAGGCAUUAGCAGCGGCCUCAGGGGCCACC
---...(((((((....(((((((((.(((...........(((((...)))))........))).))))))))))))))))((((.....))))... ( -31.21)
>consensus
___ACUGCUGCUGGGAAAUGUCUUGAAAAUUAAUCUCUUUUUUGGCUGGGCCAGUUUAUCAUAUUAUUAAGGCAUUAGCAGCGGCCUCAGGGGC____
......(((((((....(((((((((.(((...........(((((...)))))........))).)))))))))))))))).(((.....))).... (-24.46 = -24.71 +   0.25)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 7,434,131 – 7,434,225
Length 94
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 93.02
Mean single sequence MFE -22.73
Consensus MFE -19.48
Energy contribution -19.72
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.86
SVM decision value 0.25
SVM RNA-class probability 0.654999
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7434131 94 - 27905053
----GCCCCUGAGGCCGCUGCUAAUGCCUUAAUAAUAUGAUAAACUGGCCCAGCCAAAAAAGAGAUUAAUUUUCAAGACAUUUCCCAGCAGCAGUAGG
----...((((..((.((((..((((.(((...............((((...)))).....((((.....))))))).))))...)))).))..)))) ( -23.00)
>DroSec_CAF1 16931 94 - 1
----GCCCCUGAGGCCGCUGCUAAUGCCUUAAUAAUAUGAUGAACUGGCCCAGCCAAAAAAGAGAUUAAUUUUCAAGACAUUUCCCAGCAGCAGUAGG
----...((((..((.((((..((((.(((...............((((...)))).....((((.....))))))).))))...)))).))..)))) ( -23.00)
>DroEre_CAF1 16920 88 - 1
----GCCCCUGAGGCCGCUGCUAAUGCCUUAAUAAUAUGAUAAACUGGCCCAGCCAAAAAAGAGAUUAAUUUUCAAGACAUUUCCCAGCAG---C---
----(((.....))).((((((((((.(((...............((((...)))).....((((.....))))))).))))....)))))---)--- ( -19.50)
>DroYak_CAF1 17532 95 - 1
GGUGGCCCCUGAGGCCGCUGCUAAUGCCUUAAUAAUAUGAUAAACUGGCCCAGCCAAAAAAGAGAUUAAUUUUCAAGACAUUUCCCAGCAGCAGC---
...((((.....))))((((((((((.(((...............((((...)))).....((((.....))))))).))))....))))))...--- ( -25.40)
>consensus
____GCCCCUGAGGCCGCUGCUAAUGCCUUAAUAAUAUGAUAAACUGGCCCAGCCAAAAAAGAGAUUAAUUUUCAAGACAUUUCCCAGCAGCAGC___
....(((.....))).((((((((((.(((...............((((...)))).....((((.....))))))).))))....))))))...... (-19.48 = -19.72 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:32 2006