Locus 7316

Sequence ID 3L_DroMel_CAF1
Location 19,605,690 – 19,605,783
Length 93
Max. P 0.869862
window11886 window11887

overview

Window 6

Location 19,605,690 – 19,605,783
Length 93
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 75.81
Mean single sequence MFE -25.05
Consensus MFE -14.22
Energy contribution -13.75
Covariance contribution -0.47
Combinations/Pair 1.41
Mean z-score -1.62
Structure conservation index 0.57
SVM decision value 0.34
SVM RNA-class probability 0.696862
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19605690 93 + 23771897
GCGGAAUGGGUAAGGAGUU-----AGGUGUUGUCAUUAAUUAUUAAAGUGUUCUUGUAUUUUUAGUUCUGGCUCAGUCCAGCAACUCCUCUCAUUCCG
.(((((((((..(((((((-----.((....((((..(((((..((((((......))))))))))).)))).....))...)))))))))))))))) ( -26.70)
>DroSec_CAF1 20675 85 + 1
GCGGAGUGAGUGAGGAGUU-----AGUUGUUGUCAUUAAUUAUUAAAG--------UUUUCUUCGUUAUGGCUCAGUCCAGCGACUCCUCUCUUUCCG
.((((..(((.((((((((-----.((((..(((((............--------...........)))))......)))))))))))).))))))) ( -23.80)
>DroSim_CAF1 20477 93 + 1
GCGGAGUGAGUGAGGAGUU-----AGUUGUUGUCAUUAAUUAUUAAAGUGUUCUUGUUUUCUUCGUUAUGGCUUAGUCCAGCGACUCCUCUCUUUCCG
.((((..(((.((((((((-----.((((..(((((.........(((....)))............)))))......)))))))))))).))))))) ( -24.90)
>DroEre_CAF1 20447 93 + 1
GCGGAAUGAGUAAGGAGUU-----AGGUGUUGUAAUUAAUUAUUAAAGCGUUGUUGUAUUUUUAGUUAUUGCUCAGUCCAGCCACUCCUUUCUUUCCG
.((((..(((.(((((((.-----.(((...(((((.(((((..((.(((....))).))..))))))))))........)))))))))).))))))) ( -23.30)
>DroYak_CAF1 20417 93 + 1
GCGGAAUGAGAAAGGAGUU-----AGGUGUUGUAAUGAAUUAUAAAAGUGUUGUUGUAUUUUUAGUUAAGGCUCAGUCCAGCAACUCCUCUCUUUCCG
.(((((.((((..(((((.-----...(((((...(((.(((((((((((......))))))))..)))...)))...)))))))))))))).))))) ( -24.70)
>DroAna_CAF1 20729 96 + 1
GAGGAGCGGGUGGAAUGUCGCGGGUGGGGUUGUGUUUUAUUUACAAAC--UAGUUGGAUAUUUGGUUCUUGCUAAGUCCGGCGACGCCUUUGGUGACU
((((.(((..(.(((((((.(((.(((..(((((.......))))).)--)).)))))))))).)..)(((((......))))).))))))(....). ( -26.90)
>consensus
GCGGAAUGAGUAAGGAGUU_____AGGUGUUGUCAUUAAUUAUUAAAGUGUUGUUGUAUUUUUAGUUAUGGCUCAGUCCAGCGACUCCUCUCUUUCCG
.(((((.(((..(((((((.........((((....))))..............................(((......))))))))))))).))))) (-14.22 = -13.75 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,605,690 – 19,605,783
Length 93
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 75.81
Mean single sequence MFE -18.58
Consensus MFE -8.20
Energy contribution -8.87
Covariance contribution 0.67
Combinations/Pair 1.28
Mean z-score -2.25
Structure conservation index 0.44
SVM decision value 0.87
SVM RNA-class probability 0.869862
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19605690 93 - 23771897
CGGAAUGAGAGGAGUUGCUGGACUGAGCCAGAACUAAAAAUACAAGAACACUUUAAUAAUUAAUGACAACACCU-----AACUCCUUACCCAUUCCGC
(((((((.(((((((((((((......))))............(((....)))....................)-----))))))))...))))))). ( -23.10)
>DroSec_CAF1 20675 85 - 1
CGGAAAGAGAGGAGUCGCUGGACUGAGCCAUAACGAAGAAAA--------CUUUAAUAAUUAAUGACAACAACU-----AACUCCUCACUCACUCCGC
((((.((.(((((((.(((......)))......((((....--------))))....................-----.))))))).))...)))). ( -18.10)
>DroSim_CAF1 20477 93 - 1
CGGAAAGAGAGGAGUCGCUGGACUAAGCCAUAACGAAGAAAACAAGAACACUUUAAUAAUUAAUGACAACAACU-----AACUCCUCACUCACUCCGC
((((.((.(((((((.(((......)))......((((............))))....................-----.))))))).))...)))). ( -17.70)
>DroEre_CAF1 20447 93 - 1
CGGAAAGAAAGGAGUGGCUGGACUGAGCAAUAACUAAAAAUACAACAACGCUUUAAUAAUUAAUUACAACACCU-----AACUCCUUACUCAUUCCGC
(((((.(((((((((....((...((((.....................))))((((.....)))).....)).-----.)))))))..)).))))). ( -17.50)
>DroYak_CAF1 20417 93 - 1
CGGAAAGAGAGGAGUUGCUGGACUGAGCCUUAACUAAAAAUACAACAACACUUUUAUAAUUCAUUACAACACCU-----AACUCCUUUCUCAUUCCGC
(((((((((((((((((((......)))......(((((............)))))..................-----)))))))))))..))))). ( -20.40)
>DroAna_CAF1 20729 96 - 1
AGUCACCAAAGGCGUCGCCGGACUUAGCAAGAACCAAAUAUCCAACUA--GUUUGUAAAUAAAACACAACCCCACCCGCGACAUUCCACCCGCUCCUC
.(((......)))(((((.((...(((...((........))...)))--((((.......)))).........)).)))))................ ( -14.70)
>consensus
CGGAAAGAGAGGAGUCGCUGGACUGAGCCAUAACUAAAAAUACAACAACACUUUAAUAAUUAAUGACAACACCU_____AACUCCUCACUCACUCCGC
((((.((.(((((((.(((......))).......................((....)).....................))))))).))...)))). ( -8.20 =  -8.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:50 2006