Locus 2690

Sequence ID X_DroMel_CAF1
Location 7,213,856 – 7,213,986
Length 130
Max. P 0.533118
window4405 window4406

overview

Window 5

Location 7,213,856 – 7,213,956
Length 100
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 84.99
Mean single sequence MFE -28.62
Consensus MFE -21.22
Energy contribution -21.62
Covariance contribution 0.40
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.74
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7213856 100 + 22224390
--UAUGUGUGUGGCGAUUGAUAUCUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUAUAUCCAUAUAUCCUUACAUCCAUAU
--((((..(((((.(((.(((((..(((((((..((....)).......((((((...-.))).))))))))))...))))).....))).)))))..)))). ( -31.00)
>DroSec_CAF1 21632 98 + 1
--UAUGUGUGUGGCGAUUGAUAUCUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUAUAUCCAU--AUCCUUAUAUCCAUAU
--((((..(((((.(((.(((((..(((((((..((....)).......((((((...-.))).))))))))))...)))))...--))).)))))..)))). ( -30.40)
>DroSim_CAF1 22013 98 + 1
--UAUGUGUGCGGCGAUUGAUAUCUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUAUAUCCAU--AUCCUUAUAUCCAUAU
--.(((((((((((.(((((.(((((.((......)).))))).))))))).(((...-.))).)))))))))............--................ ( -29.10)
>DroYak_CAF1 24428 101 + 1
UGUAUGAGUGUGGCGAUUGAUAUCUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGGGCACUCGCGCACGCGUCUCUAUAUCCAU--AUCCUUAUAUCCAUAU
.(((((..(((((.(((.(((((..(((((((..((....)).......((((((.....))).))))))))))...)))))...--))).)))))..))))) ( -28.50)
>DroAna_CAF1 23180 82 + 1
UGUGUGUGGGCAGCUAUUGAUAUCUGAUGCGUAUUCAAUAGGCUUCGAUGCGGAGGGU-ACUCGCGCACGCGUCUCC-----CGU--GUC-------------
.(((((((((.(.((.(((.((((.((.((.(((...))).)).))))))))).)).)-.)))))))))(((.....-----)))--...------------- ( -24.10)
>consensus
__UAUGUGUGUGGCGAUUGAUAUCUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG_ACUCGCGCACGCGUCUCUAUAUCCAU__AUCCUUAUAUCCAUAU
...(((((((((((.(((((.(((((.((......)).))))).))))))).(((.....))).))))))))).............................. (-21.22 = -21.62 +   0.40)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,213,877 – 7,213,986
Length 109
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.96
Mean single sequence MFE -36.00
Consensus MFE -24.58
Energy contribution -25.22
Covariance contribution 0.64
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.68
SVM decision value -0.00
SVM RNA-class probability 0.533118
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7213877 109 + 22224390
CUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUAUAUCCAUAUAUCCUUACAUCCAUAUGGAU--------AUAAAUGGGGGGUGAAAAUCCGG-ACU
..(((((((..((....)).......((((((...-.))).))))))))))..(((((((((((............))))))))--------)))......((((....))))..-... ( -34.60)
>DroSec_CAF1 21653 105 + 1
CUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUAUAUCCAU--AUCCUUAUAUCCAUAUGGAU--------AU--AUGGGGGGUGAAAAUACGG-ACU
......((((((.............(((((((...-.))).))))(((.(((((((((((((--((..........))))))))--------))--).)))).)))..)))))).-... ( -36.30)
>DroSim_CAF1 22034 105 + 1
CUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUAUAUCCAU--AUCCUUAUAUCCAUAUGGAU--------AU--AUGGGGGGUGAAAAUACGG-ACU
......((((((.............(((((((...-.))).))))(((.(((((((((((((--((..........))))))))--------))--).)))).)))..)))))).-... ( -36.30)
>DroEre_CAF1 23510 104 + 1
CUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG-ACUCGCGCACGCGUCUCUUUAUCCAU--AUCCUUGUAUCCAUAUGGAU--------AU--GUG-GGGGUGAAAACCAGG-ACU
..(((((((..((....)).......((((((...-.))).))))))))))......(((..--.(((.(((((((....))))--------))--).)-))(((....))).))-).. ( -36.80)
>DroYak_CAF1 24451 115 + 1
CUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGGGCACUCGCGCACGCGUCUCUAUAUCCAU--AUCCUUAUAUCCAUAUGGAUGAAUGGCUAU--AUGGGGGGUGAAAAUCAGACACU
(((((...(((((.(((((....((((((...(.((....)).).))))))))))).(((((--((((...(((((....)))))...))..))--))))))))))...)))))..... ( -36.00)
>consensus
CUGAUGCGUAUUCAAUAGGUUUCGAUGCGGAGGAG_ACUCGCGCACGCGUCUCUAUAUCCAU__AUCCUUAUAUCCAUAUGGAU________AU__AUGGGGGGUGAAAAUCCGG_ACU
..(((((((..((....)).......((((((.....))).))))))))))((....(((((((((......((((....))))........)))))))))....))............ (-24.58 = -25.22 +   0.64)

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 10:41:02 2006