Locus 572

Sequence ID X_DroMel_CAF1
Location 1,630,797 – 1,630,908
Length 111
Max. P 0.905328
window901 window902

overview

Window 1

Location 1,630,797 – 1,630,908
Length 111
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.59
Mean single sequence MFE -31.64
Consensus MFE -25.70
Energy contribution -25.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.81
SVM decision value 1.04
SVM RNA-class probability 0.905328
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1630797 111 + 22224390
AAGAAGGGAAAGGCUUCACUGCUGCAUUGCAGUGAAUUGCGUUCAUCUGCCCC--------UCGCGAACUU-CCCCUGUUCACUUUGCAUUUCACUUUCUUGAGCGAAACAAACAAGCCA
(((((((((((.((((((((((......))))))))..(((............--------.)))((((..-.....)))).....)).)))).)))))))(.((...........))). ( -29.42)
>DroSec_CAF1 25919 110 + 1
AAGAAGGGAAAGGCUUCACUGCUGCAUUGCAGUGAAUUGCGUUCAUCUGCCCC--------UCGCGCCCUU-CCCC-AUUCACUUUGCAUUUCACUUUCUUGAGCGAAACAAACAAGCCA
..((((((((.(((((((((((......))))))))..(((............--------.)))))).))-))).-.)))..((((..((((.(((....))).))))))))....... ( -32.42)
>DroSim_CAF1 42444 110 + 1
AAGAAGGGAAAGGCUUCACUGCUGCAUUGCAGUGAAUUGCGUUCAUCUGCCCC--------UCGCGCUCCU-CCCC-AUUCACUUUGCAUUUCACUUUCUUGAGCGAAACAAACAAGCCA
..(((((((..(((((((((((......))))))))..(((............--------.))))))..)-))).-.)))..((((..((((.(((....))).))))))))....... ( -29.22)
>DroYak_CAF1 30238 119 + 1
AAGAAGGGAAAGGCUUCACUGCUGCAUUGCAGUGAAUUGCGUUCAUCUGCCCCUUCGCCCCUCGCGCCACUACCCC-GUUCAAUUUGCAUUUCCCUUUCUUGGGCGAAACAAACAAGCCA
((((((((((((((((((((((......))))))))..(((.......((......))....))))))........-((.......)).)))))).))))).(((...........))). ( -35.50)
>consensus
AAGAAGGGAAAGGCUUCACUGCUGCAUUGCAGUGAAUUGCGUUCAUCUGCCCC________UCGCGCCCCU_CCCC_AUUCACUUUGCAUUUCACUUUCUUGAGCGAAACAAACAAGCCA
(((((((((((.((((((((((......))))))))..(((.....................))).....................)).)))).)))))))(.((...........))). (-25.70 = -25.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 1,630,797 – 1,630,908
Length 111
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.59
Mean single sequence MFE -39.21
Consensus MFE -29.38
Energy contribution -30.62
Covariance contribution 1.25
Combinations/Pair 1.03
Mean z-score -2.31
Structure conservation index 0.75
SVM decision value 0.54
SVM RNA-class probability 0.775491
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1630797 111 - 22224390
UGGCUUGUUUGUUUCGCUCAAGAAAGUGAAAUGCAAAGUGAACAGGGG-AAGUUCGCGA--------GGGGCAGAUGAACGCAAUUCACUGCAAUGCAGCAGUGAAGCCUUUCCCUUCUU
.((.((((..((((((((......)))))))))))).((((((.....-..))))))((--------(((((...((....)).((((((((......)))))))))))))))))..... ( -36.60)
>DroSec_CAF1 25919 110 - 1
UGGCUUGUUUGUUUCGCUCAAGAAAGUGAAAUGCAAAGUGAAU-GGGG-AAGGGCGCGA--------GGGGCAGAUGAACGCAAUUCACUGCAAUGCAGCAGUGAAGCCUUUCCCUUCUU
(.((((...(((((((((......)))))))))..)))).)..-((((-(((((((((.--------............)))..((((((((......)))))))))))))))))).... ( -42.22)
>DroSim_CAF1 42444 110 - 1
UGGCUUGUUUGUUUCGCUCAAGAAAGUGAAAUGCAAAGUGAAU-GGGG-AGGAGCGCGA--------GGGGCAGAUGAACGCAAUUCACUGCAAUGCAGCAGUGAAGCCUUUCCCUUCUU
..((((...(((((((((......)))))))))..))))(((.-((((-(((.(((((.--------............)))..((((((((......)))))))))))))))))))).. ( -38.72)
>DroYak_CAF1 30238 119 - 1
UGGCUUGUUUGUUUCGCCCAAGAAAGGGAAAUGCAAAUUGAAC-GGGGUAGUGGCGCGAGGGGCGAAGGGGCAGAUGAACGCAAUUCACUGCAAUGCAGCAGUGAAGCCUUUCCCUUCUU
..(((.((((((....(((......)))....))))))...((-......)))))..((((((.(((((.((........))..((((((((......)))))))).))))))))))).. ( -39.30)
>consensus
UGGCUUGUUUGUUUCGCUCAAGAAAGUGAAAUGCAAAGUGAAC_GGGG_AAGGGCGCGA________GGGGCAGAUGAACGCAAUUCACUGCAAUGCAGCAGUGAAGCCUUUCCCUUCUU
....((((..((((((((......))))))))))))........((((.(((((((((.....................)))..((((((((......)))))))))))))))))).... (-29.38 = -30.62 +   1.25)

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 09:48:04 2006