Locus 4493

Sequence ID 2R_DroMel_CAF1
Location 14,764,530 – 14,764,683
Length 153
Max. P 0.577735
window7194 window7195

overview

Window 4

Location 14,764,530 – 14,764,645
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.59
Mean single sequence MFE -29.53
Consensus MFE -15.98
Energy contribution -20.87
Covariance contribution 4.89
Combinations/Pair 1.04
Mean z-score -2.23
Structure conservation index 0.54
SVM decision value 0.03
SVM RNA-class probability 0.547094
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14764530 115 + 20766785
-----CAGCCAAACAAUUUCAGCUGAGCGAAGCGUAAACUGGCCCAAAACUCGAACUCGAAUACAACUUUACCGCUCUUCUCGCGCUCGUUUUUAGCCAGUUUGCGCUGACAAACGGCAA
-----................((((.....(((((((((((((..((((((((....)))............(((.......)))...)))))..)))))))))))))......)))).. ( -36.00)
>DroSim_CAF1 5465 95 + 1
-----CAGCCAAACAAUUUCAGCUGAGCGAAGCGUAAACUGGCCCAGAACUCGAACUCGAAUACAACUUCACCGCUCUUCUCGUGCUCGU--------------------CGAACGGCAA
-----..(((..............(((((..((........)).......(((....)))............)))))...(((.......--------------------)))..))).. ( -17.20)
>DroYak_CAF1 6397 114 + 1
AAAAGCAGCCAAACAAUUUCAGCUGAGCGAAGCGUAAACUGGCCCAGAACUCG------AACACAACUUCACCGCUCUUCUCUCGCUCGUUUUUAGCCAGUUUGCGCUGACAAUCGGCAA
.....................(((((....(((((((((((((..(((((..(------((......)))...((.........))..)))))..))))))))))))).....))))).. ( -35.40)
>consensus
_____CAGCCAAACAAUUUCAGCUGAGCGAAGCGUAAACUGGCCCAGAACUCGAACUCGAAUACAACUUCACCGCUCUUCUCGCGCUCGUUUUUAGCCAGUUUGCGCUGACAAACGGCAA
.......(((...........(((......)))((((((((((..((((((((....))).............((.........))..)))))..))))))))))..........))).. (-15.98 = -20.87 +   4.89)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 14,764,565 – 14,764,683
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.89
Mean single sequence MFE -35.31
Consensus MFE -26.00
Energy contribution -27.68
Covariance contribution 1.67
Combinations/Pair 1.08
Mean z-score -1.46
Structure conservation index 0.74
SVM decision value 0.09
SVM RNA-class probability 0.577735
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14764565 118 - 20766785
GUGGCAAA--AACCAGAGACUUCUGAACUUGACCCUACUCUUGCCGUUUGUCAGCGCAAACUGGCUAAAAACGAGCGCGAGAAGAGCGGUAAAGUUGUAUUCGAGUUCGAGUUUUGGGCC
..(((...--..((((((.(((..((((((((....(((.(((((((((.((.((((.................))))..)).)))))))))))).....)))))))))))))))))))) ( -37.73)
>DroSim_CAF1 5500 98 - 1
GUGGCAAA--AACCAGAGACUUCUGAACUUGACCCUACUCUUGCCGUUCG--------------------ACGAGCACGAGAAGAGCGGUGAAGUUGUAUUCGAGUUCGAGUUCUGGGCC
..(((...--..((((((.(((..((((((((....(((.(..((((((.--------------------.(........)..))))))..)))).....)))))))))))))))))))) ( -34.40)
>DroYak_CAF1 6437 114 - 1
GUGGCAAAAAAACUAGAGACUUCUGAACUUGACCCUACUCUUGCCGAUUGUCAGCGCAAACUGGCUAAAAACGAGCGAGAGAAGAGCGGUGAAGUUGUGUU------CGAGUUCUGGGCC
..(((.......((((((.((((..(((((.(((((.(((((((((...(((((......)))))......)).)))))))...)).))).)))))..)..------.)))))))))))) ( -33.81)
>consensus
GUGGCAAA__AACCAGAGACUUCUGAACUUGACCCUACUCUUGCCGUUUGUCAGCGCAAACUGGCUAAAAACGAGCGCGAGAAGAGCGGUGAAGUUGUAUUCGAGUUCGAGUUCUGGGCC
..(((.......((((((.......(((((.(((((.(((.(((((((((((((......)))))...))))).))).)))...)).))).)))))...((((....))))))))))))) (-26.00 = -27.68 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:15 2006