Locus 387

Sequence ID 3R_DroMel_CAF1
Location 1,463,279 – 1,463,479
Length 200
Max. P 0.920242
window640 window641

overview

Window 0

Location 1,463,279 – 1,463,399
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -36.99
Consensus MFE -30.85
Energy contribution -31.85
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.83
SVM decision value 1.13
SVM RNA-class probability 0.920242
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1463279 120 - 27905053
CUGCAAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAACCGCUCAAGCUCCUCCUCGCUCAAUUGCUUGGGGCACAGCUUUCCGGUUGACAAGGCCUCCUCAGCCGCCAAUACGGCAA
......(((.((....(((..(((....))).......(((((...(((((.((((..((......))..))))...)))))..))))).....)))....)).)))(((.....))).. ( -32.70)
>DroSec_CAF1 35790 120 - 1
CUGCCAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAUCCGCUCAAGCUCCUCCUCGCUCAAUUGCUUGGGGCACAACUUUCCGGUGGCCAAGGCCUCCUCAGCCGCCAAUACGGCAA
.((((.((.......(((((.(((....)))..............(((((................)))))))))).......))((((((..(((...)))..)))))).....)))). ( -38.23)
>DroSim_CAF1 34074 120 - 1
CUGCCAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAACCGCUCAAGCUCCUCCUCGCUCAAUUGCUUGGGGCACAACUUUCCGGUGGCCAAGGCCUCCUCAGCCGCCAAUACGGCAA
.((((.((.......(((((.(((....)))..............(((((................)))))))))).......))((((((..(((...)))..)))))).....)))). ( -38.23)
>DroEre_CAF1 37686 120 - 1
CUGCCAGGUCGAACAUACCCAUGCCCACGCAUACUCCAAACCGCUCAAGCUGCUCCUCGCUCAAUUGCUUGGGGCAGAGCUUUCCGGUGGCCAAGGCCUCCUCCGCCGCCAAUACGGCCA
......(((((.........((((....))))..........((((....((((((..((......))..)))))))))).....((((((..(((...)))..))))))....))))). ( -41.60)
>DroYak_CAF1 36062 120 - 1
CUGCCAGGUCGAACAUUCCCAUGCCAACGCAUACUCCAAACCGUUCAAGCUCUUCCUCGCUCAAUUGCUUGGGGCACAGCUUUCCGGUGGCCAAGGCCUCCUCCGCCGCCAAUACGGCCA
......(((((.........((((....))))..............(((((...((((((......))..))))...)))))...((((((..(((...)))..))))))....))))). ( -34.20)
>consensus
CUGCCAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAACCGCUCAAGCUCCUCCUCGCUCAAUUGCUUGGGGCACAGCUUUCCGGUGGCCAAGGCCUCCUCAGCCGCCAAUACGGCAA
..(((.((.......(((((.(((....)))..............(((((................)))))))))).......))((((((..(((...)))..)))))).....))).. (-30.85 = -31.85 +   1.00) 

alignment

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secondary structure

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dotplot

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Window 1

Location 1,463,359 – 1,463,479
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.58
Mean single sequence MFE -43.36
Consensus MFE -35.84
Energy contribution -36.28
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.54
Structure conservation index 0.83
SVM decision value 0.60
SVM RNA-class probability 0.795030
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1463359 120 - 27905053
ACUGGGCAGCAGCCUGGGCACGAAAAAGGGGCUUACUCUGUUGUAACCUCGUUGCAGCUGGUUCCAGGCGCCAUAGACCUCUGCAAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAA
..((((((((.(((((((.((.....((((.....))))((((((((...))))))))..)))))))))))....(((((.....))))).....))))))(((....)))......... ( -43.80)
>DroSec_CAF1 35870 120 - 1
GCUGGGCAGCAGCCUGGGCACGAAAAAGGGGCUUACUCUGUUGUAGCCCCGUUGCAGCUGGUUCCAGGCGCCAUAGACCUCUGCCAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAU
((((((((((((((((((.((......((((((.((......))))))))((....))..)))))))))......(((((.....))))).....)))...)))))).)).......... ( -48.80)
>DroSim_CAF1 34154 120 - 1
GCUUGGCAGCAGCCGGGGCACGAAAAAGGGGCUUACUCUGUUGUAGCCUCGUUGCAGCUGGUUCCAGGCGCCAUAGACCUCUGCCAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAA
((..(((.(((((.(((((((((...((((.....)))).)))).)))))))))).)))(((....((((.....(((((.....))))).....))))...)))...)).......... ( -42.50)
>DroEre_CAF1 37766 120 - 1
GCUGGGCAACAGCCUGGGCACGAAAAAGGGGCUUACUCUGUUGUAGCCCCGUUGUAGCUGAUUCCAGGCUCCAUAAACCUCUGCCAGGUCGAACAUACCCAUGCCCACGCAUACUCCAAA
((((((((..(((((((((((((....((((((.((......)))))))).)))).)).....)))))))......((((.....))))............)))))).)).......... ( -44.30)
>DroYak_CAF1 36142 120 - 1
GUUGGGCAACAGCCUGGGCACGAAAAAGGGGCUGACUCUGUUGUAGCCACGUUGUAGCUGGUUCCAGGCUCCAUAGACCUCUGCCAGGUCGAACAUUCCCAUGCCAACGCAUACUCCAAA
(((((.((..(((((((..((((...((((.....)))).))))(((((.((....)))))))))))))).....(((((.....)))))...........)))))))............ ( -37.40)
>consensus
GCUGGGCAGCAGCCUGGGCACGAAAAAGGGGCUUACUCUGUUGUAGCCCCGUUGCAGCUGGUUCCAGGCGCCAUAGACCUCUGCCAGGUCGAACAUGCCCAUGCCCACGCACACUCCGAA
((((((((...(((((((..((....((((.....))))((((((((...))))))))))..)))))))......(((((.....)))))...........)))))).)).......... (-35.84 = -36.28 +   0.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:01 2006