Locus 8621

Sequence ID X_DroMel_CAF1
Location 21,665,894 – 21,665,984
Length 90
Max. P 0.998041
window14172 window14173

overview

Window 2

Location 21,665,894 – 21,665,984
Length 90
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 61.51
Mean single sequence MFE -31.93
Consensus MFE -17.61
Energy contribution -18.80
Covariance contribution 1.19
Combinations/Pair 1.22
Mean z-score -2.35
Structure conservation index 0.55
SVM decision value 2.99
SVM RNA-class probability 0.998041
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21665894 90 + 22224390
ACCGUCAAGAAACCACCGAUCAGCGGAGGGAGUGUUGGCCACAACUGCAGCAGCAGCACUGCGAGUAG------AGACACCAAAGCCGUCGAUGGC
.(((((......((.(((.....))).))(.((.((((......((((.((((.....))))..))))------.....)))).)))...))))). ( -25.80)
>DroPse_CAF1 10550 82 + 1
--GGCUAAGAAGCCGCCAACAAGUGGCGGUGG---------CAAUGGCAAUGGCAG---UGCCAGUAGCAGCAGCUACAGCGAGAGCGCCAUUAGC
--.((((((..(((((((.....)))))))..---------)..((((..((((..---.))))(((((....))))).((....))))))))))) ( -38.20)
>DroEre_CAF1 8007 87 + 1
UCUACCAAGAAGCCACCGAUCAUCGGAGGAAGUGGUGGCCACAACAGCAG---CAGCAGUGCGGGUAG------AGACACCAAAGCCGUCGAUGGC
((((((.....(((((((....((....))..)))))))..........(---((....))).)))))------).........((((....)))) ( -25.50)
>DroPer_CAF1 10189 82 + 1
--GGCUAAGAAGCCGCCAACAAGUGGCGGUGG---------CAAUGGCAAUGGCAG---UGCCAGUAGCAGCAGCUACAGCGAGAGCGCCAUUAGC
--.((((((..(((((((.....)))))))..---------)..((((..((((..---.))))(((((....))))).((....))))))))))) ( -38.20)
>consensus
__GGCCAAGAAGCCACCAACAAGCGGAGGUAG_________CAACGGCAAUGGCAG___UGCCAGUAG______AGACACCAAAACCGCCAAUAGC
...((((.....((((((.....))))))...............((((...((((....)))).(((((....))))).........)))).)))) (-17.61 = -18.80 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,665,894 – 21,665,984
Length 90
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 61.51
Mean single sequence MFE -31.25
Consensus MFE -16.20
Energy contribution -19.45
Covariance contribution 3.25
Combinations/Pair 1.16
Mean z-score -2.01
Structure conservation index 0.52
SVM decision value 2.07
SVM RNA-class probability 0.987160
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21665894 90 - 22224390
GCCAUCGACGGCUUUGGUGUCU------CUACUCGCAGUGCUGCUGCUGCAGUUGUGGCCAACACUCCCUCCGCUGAUCGGUGGUUUCUUGACGGU
((((((((((((...(((((..------((((..(((((......)))))....))))...)))))......)))).))))))))........... ( -29.90)
>DroPse_CAF1 10550 82 - 1
GCUAAUGGCGCUCUCGCUGUAGCUGCUGCUACUGGCA---CUGCCAUUGCCAUUG---------CCACCGCCACUUGUUGGCGGCUUCUUAGCC--
(((((((((((....)).(((((....)))))(((((---.......)))))..)---------)))((((((.....))))))....))))).-- ( -32.60)
>DroEre_CAF1 8007 87 - 1
GCCAUCGACGGCUUUGGUGUCU------CUACCCGCACUGCUG---CUGCUGUUGUGGCCACCACUUCCUCCGAUGAUCGGUGGCUUCUUGGUAGA
((((.(((((((...((((...------.)))).(((....))---).))))))))))).((((...((.(((.....))).)).....))))... ( -29.90)
>DroPer_CAF1 10189 82 - 1
GCUAAUGGCGCUCUCGCUGUAGCUGCUGCUACUGGCA---CUGCCAUUGCCAUUG---------CCACCGCCACUUGUUGGCGGCUUCUUAGCC--
(((((((((((....)).(((((....)))))(((((---.......)))))..)---------)))((((((.....))))))....))))).-- ( -32.60)
>consensus
GCCAACGACGCCCUCGCUGUAG______CUACUCGCA___CUGCCACUGCCAUUG_________CCACCGCCACUGAUCGGCGGCUUCUUAGCC__
((.(((((((((..(((.(((((....))))).).))..))))))))))).................((((((.....))))))............ (-16.20 = -19.45 +   3.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:45 2006