Locus 1475

Sequence ID 2L_DroMel_CAF1
Location 3,933,043 – 3,933,135
Length 92
Max. P 0.867397
window2399 window2400

overview

Window 9

Location 3,933,043 – 3,933,135
Length 92
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 81.90
Mean single sequence MFE -28.54
Consensus MFE -16.61
Energy contribution -17.45
Covariance contribution 0.84
Combinations/Pair 1.20
Mean z-score -2.99
Structure conservation index 0.58
SVM decision value 0.85
SVM RNA-class probability 0.867397
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3933043 92 + 22407834
GAAGAAGGGUCCUGGCGUAUAAUUAAACGGCAUAUUGUCACGCUUCCCUG-AAACGC-AGAAGUGUGAGAAAGUGA-CAAAGGAUGUGCCAGGAU
........((((((((((((..........(((.((.(((((((((..((-.....)-)))))))))).)).))).-......)))))))))))) ( -30.63)
>DroSec_CAF1 66293 93 + 1
GAAGAAGGGUCCUGGCGUAUAAUUAAACGGCAUAUUGUCACGCUUCCCUG-ACACAC-UGAAGUGUGAGAAAGUGAAGAAAGGAUGUGCCAGGAU
........((((((((((((..((...(..(((.((.(((((((((..((-...)).-.))))))))).)).)))..).))..)))))))))))) ( -31.30)
>DroSim_CAF1 65180 93 + 1
GAAGAAGGGUCCUGGCGUAUAAUUAAACGGCAUAUUGUCACGCUUCCCUG-AAACGC-UGAAGUGUGAGAAAGUGAAGAAAGGAUGUGCCAGGAU
........((((((((((((..((...(..(((.((.(((((((((....-......-.))))))))).)).)))..).))..)))))))))))) ( -30.90)
>DroEre_CAF1 70696 92 + 1
GACGAAAGGUCCUGACGUAUAAUUAAACGGCAUAUUGUCACGCUUUCGUG-AAACGC-UGAAGUGUGAGGAGCUGAAG-AGGGAUGUGCUAGGAU
..(....)((((((.(((((..((...((((...((.(((((((((.(((-...)))-.))))))))).))))))...-))..))))).)))))) ( -28.00)
>DroYak_CAF1 73190 81 + 1
GCAGAAGGGUCCUGACGUAUAAUUAAACGGCAUAUUGUCACGCUUUCCUGCAAACGC-UGAAGUGUGAG-------------GAUGUGCCAGGAU
........((((((.(((........)))(((((((.(((((((((...((....))-.))))))))).-------------))))))))))))) ( -32.30)
>DroPer_CAF1 101784 84 + 1
---GAAAGGUCCUGACGUAUAAUUAAACGGCAUAUUGUCACGCAUCCCUG-AAGCUCCCAAAGAGAGGGAAAGUGAAA-------GAGCAAGGGU
---......((((..(((........)))((......((((...(((((.-...(((.....))))))))..))))..-------..)).)))). ( -18.10)
>consensus
GAAGAAGGGUCCUGACGUAUAAUUAAACGGCAUAUUGUCACGCUUCCCUG_AAACGC_UGAAGUGUGAGAAAGUGAAG_AAGGAUGUGCCAGGAU
........((((((.(((........)))(((((((.(((((((((.............))))))))).).............)))))))))))) (-16.61 = -17.45 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,933,043 – 3,933,135
Length 92
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 81.90
Mean single sequence MFE -20.93
Consensus MFE -13.40
Energy contribution -14.40
Covariance contribution 1.00
Combinations/Pair 1.12
Mean z-score -2.13
Structure conservation index 0.64
SVM decision value 0.42
SVM RNA-class probability 0.727523
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3933043 92 - 22407834
AUCCUGGCACAUCCUUUG-UCACUUUCUCACACUUCU-GCGUUU-CAGGGAAGCGUGACAAUAUGCCGUUUAAUUAUACGCCAGGACCCUUCUUC
.(((((((.(((...(((-((((((((((((.(....-).))..-..)))))).))))))).)))..((........)))))))))......... ( -27.00)
>DroSec_CAF1 66293 93 - 1
AUCCUGGCACAUCCUUUCUUCACUUUCUCACACUUCA-GUGUGU-CAGGGAAGCGUGACAAUAUGCCGUUUAAUUAUACGCCAGGACCCUUCUUC
.(((((((...........((((((((((((((....-..))))-..)))))).)))).........((........)))))))))......... ( -26.20)
>DroSim_CAF1 65180 93 - 1
AUCCUGGCACAUCCUUUCUUCACUUUCUCACACUUCA-GCGUUU-CAGGGAAGCGUGACAAUAUGCCGUUUAAUUAUACGCCAGGACCCUUCUUC
.(((((((............((..((.((((.((((.-.(....-..).)))).)))).))..))..((........)))))))))......... ( -22.60)
>DroEre_CAF1 70696 92 - 1
AUCCUAGCACAUCCCU-CUUCAGCUCCUCACACUUCA-GCGUUU-CACGAAAGCGUGACAAUAUGCCGUUUAAUUAUACGUCAGGACCUUUCGUC
................-....((.((((.((......-((((.(-((((....)))))....)))).((........)))).)))).))...... ( -14.00)
>DroYak_CAF1 73190 81 - 1
AUCCUGGCACAUC-------------CUCACACUUCA-GCGUUUGCAGGAAAGCGUGACAAUAUGCCGUUUAAUUAUACGUCAGGACCCUUCUGC
.(((((((...((-------------((((.((....-..)).)).))))..(((((....))))).............)))))))......... ( -19.60)
>DroPer_CAF1 101784 84 - 1
ACCCUUGCUC-------UUUCACUUUCCCUCUCUUUGGGAGCUU-CAGGGAUGCGUGACAAUAUGCCGUUUAAUUAUACGUCAGGACCUUUC---
..(((.((..-------..((((..((((((((.....)))...-.)))))...)))).........((........)))).))).......--- ( -16.20)
>consensus
AUCCUGGCACAUCCUU_CUUCACUUUCUCACACUUCA_GCGUUU_CAGGGAAGCGUGACAAUAUGCCGUUUAAUUAUACGCCAGGACCCUUCUUC
.(((((((...................((((.((((.............)))).)))).........((........)))))))))......... (-13.40 = -14.40 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:35 2006