Locus 7719

Sequence ID 3L_DroMel_CAF1
Location 20,615,538 – 20,615,750
Length 212
Max. P 0.642903
window12565 window12566

overview

Window 5

Location 20,615,538 – 20,615,639
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.29
Mean single sequence MFE -36.60
Consensus MFE -29.92
Energy contribution -30.48
Covariance contribution 0.56
Combinations/Pair 1.17
Mean z-score -1.34
Structure conservation index 0.82
SVM decision value 0.23
SVM RNA-class probability 0.642903
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20615538 101 + 23771897
--GCUGCUCGGGCCGGAUGUGGUGACAUUUGGUCGGGCUAGCCUGGCCAUCAGCUCUAGCUCU------AGCCGCUCCCGCCCUUUUUU----UCUCUCUUGGCCCUAACA-------AA
--.......((((.(((.(((((......((((((((....))))))))..(((....)))..------.)))))))).))))......----..................-------.. ( -35.50)
>DroSec_CAF1 60315 105 + 1
--GCUGCUCGGGCCGGAUGUGGUGACAUUUGGUCGGGCUAGCCUGGCCAUCAGCUCUAGCUCUAGCCCUAGCCGCUCCCGCCCUU--UU----UCUCUCUUGGCCCUAACA-------AA
--.......((((.(((.((((((((.....)))(((((((.((((.........))))..)))))))..)))))))).))))..--..----..................-------.. ( -36.90)
>DroAna_CAF1 82242 111 + 1
GCGCGACUCAGGCCGGAUGUGGUGACAUUUGGUCGGGCUGGCCUAGCCAGCUAUUCG---------GAUGGCCACUCUCUCUAUUGGUUGCAGUCCCUUAUGUCCCUAACACUAUGUAUG
..(((((.(((...(((.(((((..(((((((...(((((((...)))))))..)))---------)))))))))..)))...))))))))............................. ( -35.70)
>DroSim_CAF1 55195 106 + 1
--GCUGCUCGGGCCGGAUGUGGUGACAUUUGGUCGGGCUAGCCUGGCCAUCAGCUCUAGCUCUAGCCCUAGCCGCUCCCGCCCUUU-UU----UCUCUCUUGGCCCUAACA-------AA
--.......((((.(((.((((((((.....)))(((((((.((((.........))))..)))))))..)))))))).))))...-..----..................-------.. ( -36.90)
>DroEre_CAF1 52844 99 + 1
--GCUGCUCGGGCCGGAUGUGGUGACAUUUGGUCGGGCUGGCCUGGCCAUCAGCUCUAGCUCU------AGCUGCUCCCGCCCUU--UU----UCUCUCUGGGCCCUAACA-------AA
--((.(((.((((..((.(((....))).((((((((....)))))))).....))..)))).------))).))....((((..--..----.......)))).......-------.. ( -38.00)
>consensus
__GCUGCUCGGGCCGGAUGUGGUGACAUUUGGUCGGGCUAGCCUGGCCAUCAGCUCUAGCUCU_____UAGCCGCUCCCGCCCUU__UU____UCUCUCUUGGCCCUAACA_______AA
.........((((.(((.(((((......((((((((....))))))))..(((....))).........)))))))).))))..................................... (-29.92 = -30.48 +   0.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,615,639 – 20,615,750
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.14
Mean single sequence MFE -26.42
Consensus MFE -10.72
Energy contribution -11.64
Covariance contribution 0.92
Combinations/Pair 1.15
Mean z-score -1.86
Structure conservation index 0.41
SVM decision value 0.05
SVM RNA-class probability 0.557853
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20615639 111 + 23771897
UAUUGGUUGCAAUAAAAAGCUAAUAAAGAAUAUGGAAAG-GCAAAUGCCUGGCUGACAAGUGCAUGGAG-CCCAGGGAUGGAAAAUAGUUUUUCCGUGUAAAGAGCUAUU-------UGA
((((((((.........))))))))....((((((((((-((..((.(((((((..((......)).))-.))))).))........))))))))))))...........-------... ( -26.50)
>DroSec_CAF1 60420 118 + 1
UAUUGGUUGCAAUAAAAAGCUAAUAAAGAACAUGGAAAG-ACAAAUGCCUGGCUGACAAGUGCAUGGAG-GCCAGGGAUGGAAAAUAGUUUUUCCUCGUAAAGAGCCAUUUAACAUUUGG
((((((((.........))))))))..............-.(((((((((((((..((......))..)-))))))((.((((((....))))))))................)))))). ( -32.00)
>DroAna_CAF1 82353 91 + 1
UAUUGUUGGUAAUAAAAAGCUAAUAAAGAAAAUGGUUAG-ACAAAUGUCUGACUGACAAGUGCUUGGUUUGCCAGGGCUGGAAUACAAUUAG----------------------------
..((((((((........)))))))).......((((((-((....))))))))....(((.(((((....)))))))).............---------------------------- ( -22.70)
>DroSim_CAF1 55301 119 + 1
UAUUGGUUGCAAUAAAAAGCUAAUAAAGAAUAUGGAAAGAACAAAUGCCUGGCUGACAAGUGCAUGGUG-CCCAGGGAUGGAAAAUAGUUUUUCCUCGUAAAGAGCCAUUUAACAUUUGG
((((((((.........))))))))................((((((((((((...((......))..)-.)))))((.((((((....))))))))................)))))). ( -24.70)
>DroEre_CAF1 52943 115 + 1
UAUUGGUUGCAAUAAAAAGCUAAUAAAGAAUAUGGAAAG-GCAAAUGCU--GCUGACAAGUGCAUGGAG-CCCAGGGAUGGGUAAUAGUU-UUCCUAGUACAGAGGCAUUCUAAUUUUGG
((((((((.........)))))))).(((((.(((((.(-((....)))--(((.....((((..((((-((((....))))).......-.)))..))))...))).)))))))))).. ( -26.20)
>consensus
UAUUGGUUGCAAUAAAAAGCUAAUAAAGAAUAUGGAAAG_ACAAAUGCCUGGCUGACAAGUGCAUGGAG_CCCAGGGAUGGAAAAUAGUUUUUCCUCGUAAAGAGCCAUU__A__UUUGG
((((((((.........))))))))........((((((.((..((((...(((....)))))))......(((....)))......))))))))......................... (-10.72 = -11.64 +   0.92)

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 12:55:01 2006