Locus 4186

Sequence ID 2R_DroMel_CAF1
Location 13,790,763 – 13,790,867
Length 104
Max. P 0.898152
window6731 window6732

overview

Window 1

Location 13,790,763 – 13,790,867
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 78.01
Mean single sequence MFE -39.62
Consensus MFE -26.81
Energy contribution -26.98
Covariance contribution 0.17
Combinations/Pair 1.43
Mean z-score -1.75
Structure conservation index 0.68
SVM decision value 1.00
SVM RNA-class probability 0.898152
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13790763 104 + 20766785
CCAACGGUUAAAGGCCUCGGAUACGCUGUUAUCAUUCGGGCGCAAGGAGCGCCUGGCACGCGGCUCAUAGCCGAGAGAACCGCUACCCGCGUUUCCACUGGCCA
............((((..(((.((((.........((((((((.....))))))))...(((((((........)))..)))).....)))).)))...)))). ( -41.20)
>DroSec_CAF1 91593 104 + 1
CCAACGAUUAAAGGCCUCGGAUACGCUGUUAUCAUUCGGGCGCAAGGAGUGCCUGGCACGCGGCUCGUAGCCGAGAGAACCGCUACCCGCGUUUCCACUGGCCA
............((((..(((.((((.........((((((((.....))))))))...((((((((....))))....)))).....)))).)))...)))). ( -40.40)
>DroSim_CAF1 95453 104 + 1
CCAACGAUUAAAGGCCUCGGAUACGCUGUUAUCAUUCGGGCGCAAGGAGCGCCUGGCACGCGGUUCAUAGCCGAGAGAACCGCUACCCGCGUUUCCACUGGCCA
............((((..(((.((((.........((((((((.....))))))))...(((((((..........))))))).....)))).)))...)))). ( -44.10)
>DroEre_CAF1 92002 104 + 1
CCAACGGUUGAAGGCCACGGAAACGCUGUUGUCAUCUGGACGCAAAGAGCGUCUGGCCAGAGGCUCAUAGCCCUGAGGGCCGCUACCUACGUUUCCACUGGCCA
............(((((.(((((((..((.((.....((((((.....))))))((((((.(((.....)))))...)))))).))...)))))))..))))). ( -40.90)
>DroYak_CAF1 96271 104 + 1
CCAACGAUUAAACGCAACGGAUACGCUGUUGUCAUCUGGACGCAAAGAGCGUCUGGCCAGAGGCUCAUAGCCCAGAGAGCCGCUACCUACGUUUCCACUGGCAA
.............(((((((.....))))))).....((((((.....)))))).(((((.(((((..........)))))((.......)).....))))).. ( -31.20)
>DroPer_CAF1 89404 92 + 1
CCAGCCACGAAAGGCCACAGAGACACUGGUCUCGUCCGGUCGCAGGGAGCGGCGUGCCUGGGGCUCAUAGCCCAUGGAAUUG------------GAGCUGGCUA
(((((..(((.((((.((.(((((....))))).....(((((.....))))))))))).((((.....))))......)))------------..)))))... ( -39.90)
>consensus
CCAACGAUUAAAGGCCACGGAUACGCUGUUAUCAUCCGGGCGCAAGGAGCGCCUGGCACGCGGCUCAUAGCCCAGAGAACCGCUACCCGCGUUUCCACUGGCCA
............((((..(((.((((.(((.((..((((((((.....))))))))....((((.....)))).)).))).)).......)).)))...)))). (-26.81 = -26.98 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 2

Location 13,790,763 – 13,790,867
Length 104
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.01
Mean single sequence MFE -41.03
Consensus MFE -26.69
Energy contribution -27.38
Covariance contribution 0.70
Combinations/Pair 1.29
Mean z-score -1.41
Structure conservation index 0.65
SVM decision value 0.35
SVM RNA-class probability 0.699220
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13790763 104 - 20766785
UGGCCAGUGGAAACGCGGGUAGCGGUUCUCUCGGCUAUGAGCCGCGUGCCAGGCGCUCCUUGCGCCCGAAUGAUAACAGCGUAUCCGAGGCCUUUAACCGUUGG
.((((..((((.((((.(((((((((((..........))))))).)))).(((((.....)))))............)))).)))).))))............ ( -46.30)
>DroSec_CAF1 91593 104 - 1
UGGCCAGUGGAAACGCGGGUAGCGGUUCUCUCGGCUACGAGCCGCGUGCCAGGCACUCCUUGCGCCCGAAUGAUAACAGCGUAUCCGAGGCCUUUAAUCGUUGG
.((((..((((.((((((((.(((((((..........)))))))..((.(((....))).))))))...((....)))))).)))).))))............ ( -40.40)
>DroSim_CAF1 95453 104 - 1
UGGCCAGUGGAAACGCGGGUAGCGGUUCUCUCGGCUAUGAACCGCGUGCCAGGCGCUCCUUGCGCCCGAAUGAUAACAGCGUAUCCGAGGCCUUUAAUCGUUGG
.((((..((((.((((.(((((((((((..........))))))).)))).(((((.....)))))............)))).)))).))))............ ( -46.30)
>DroEre_CAF1 92002 104 - 1
UGGCCAGUGGAAACGUAGGUAGCGGCCCUCAGGGCUAUGAGCCUCUGGCCAGACGCUCUUUGCGUCCAGAUGACAACAGCGUUUCCGUGGCCUUCAACCGUUGG
.(((((.(((((((((.(.....((((....((((.....))))..)))).(((((.....)))))..........).))))))))))))))............ ( -44.00)
>DroYak_CAF1 96271 104 - 1
UUGCCAGUGGAAACGUAGGUAGCGGCUCUCUGGGCUAUGAGCCUCUGGCCAGACGCUCUUUGCGUCCAGAUGACAACAGCGUAUCCGUUGCGUUUAAUCGUUGG
(((((..((....))..))))).((((....((((.....))))..)))).(((((.....)))))..(((((....((((((.....))))))...))))).. ( -34.50)
>DroPer_CAF1 89404 92 - 1
UAGCCAGCUC------------CAAUUCCAUGGGCUAUGAGCCCCAGGCACGCCGCUCCCUGCGACCGGACGAGACCAGUGUCUCUGUGGCCUUUCGUGGCUGG
...(((((..------------(........((((.....)))).((((.((((((.....))).......(((((....))))).)))))))...)..))))) ( -34.70)
>consensus
UGGCCAGUGGAAACGCGGGUAGCGGUUCUCUCGGCUAUGAGCCGCGGGCCAGGCGCUCCUUGCGCCCGAAUGAUAACAGCGUAUCCGAGGCCUUUAAUCGUUGG
.((((..((((.((((.......(((.....((((.....))))...))).(((((.....)))))............)))).)))).))))............ (-26.69 = -27.38 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:50 2006