Locus 4618

Sequence ID 2R_DroMel_CAF1
Location 15,104,039 – 15,104,134
Length 95
Max. P 0.966129
window7419 window7420

overview

Window 9

Location 15,104,039 – 15,104,134
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 68.78
Mean single sequence MFE -30.18
Consensus MFE -12.90
Energy contribution -12.48
Covariance contribution -0.42
Combinations/Pair 1.42
Mean z-score -1.99
Structure conservation index 0.43
SVM decision value 1.15
SVM RNA-class probability 0.923149
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15104039 95 + 20766785
-----AUGUAUAUCCAUAUGUCUGUAUGCAAAGAGCCUGGCCAACAAUGGCGGC--AAGUUAAAGCCAAAUCGUGGGCC--AAGGCGAGAGGU------UGGGAGGUGGG
-----........((((...(((....((.....((((((((.((.((...(((--........)))..)).)).))))--.)))).....))------.)))..)))). ( -27.40)
>DroPse_CAF1 85744 80 + 1
---------AUCUCCUCUAGCGUAUAUGCAAAAUGCCUCGCCAACAAUGGUGGC--AGGUUGAAGCCACAUCGGAGGG-----------------GCAGUGGG--GACAA
---------.(((((.((.(((....))).....(((((.((.......(((((--........)))))...)).)))-----------------)))).)))--))... ( -28.20)
>DroSec_CAF1 80654 101 + 1
-----AUGCAUAUCCAUAUGUCUGUAUGCAAAGAGCCUGGCCAACAAUGGCGGC--AAGUUAAAGCCAAAUCGUGGGCC--AAGGCGAGAGGUGGGAGGUGGGAUGUGGG
-----...(((((((.(((.(((...(((.....((((((((.((.((...(((--........)))..)).)).))))--.)))).....)))))).)))))))))).. ( -35.00)
>DroSim_CAF1 66533 101 + 1
-----AUGUAUAUCCAUAUGUCUGUAUGCAAAGAGCCUGGCCAACAAUGGCGGC--AAGUUAAAGCCAAAUCGUGGGCC--AAGGCGAGAGGUGGGAGGUGGGAUGUGGG
-----...(((((((.(((.(((...(((.....((((((((.((.((...(((--........)))..)).)).))))--.)))).....)))))).)))))))))).. ( -32.90)
>DroAna_CAF1 84074 107 + 1
UAGUCAUGCAUGUAUGUAUGUUUGUAUGCAAAAAUCCUGGCCAACAAUGGCGGCACAAGUUAAAGCCAAAACGAAGGGCUUUAGGCCAGAGGUG-GAGGUGAG--GUGGA
......((((((((........)))))))).....(((.(((..((.((((.((....))(((((((.........))))))).))))....))-..))).))--).... ( -29.40)
>DroPer_CAF1 85227 80 + 1
---------AUCUCCUCUAGCGUAUAUGCAAAAUGCCUCGCCAACAAUGGUGGC--AGGUUGAAGCCACAUCGGAGGG-----------------GCAGUGGG--GACAA
---------.(((((.((.(((....))).....(((((.((.......(((((--........)))))...)).)))-----------------)))).)))--))... ( -28.20)
>consensus
_____AUG_AUAUCCAUAUGUCUGUAUGCAAAAAGCCUGGCCAACAAUGGCGGC__AAGUUAAAGCCAAAUCGUAGGCC__AAGGCGAGAGGU__GAGGUGGG__GUGGA
............(((((..((......)).....(((((((((....))))(((..........)))......)))))....................)))))....... (-12.90 = -12.48 +  -0.42)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,104,039 – 15,104,134
Length 95
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 68.78
Mean single sequence MFE -25.47
Consensus MFE -7.88
Energy contribution -7.18
Covariance contribution -0.69
Combinations/Pair 1.33
Mean z-score -2.48
Structure conservation index 0.31
SVM decision value 1.59
SVM RNA-class probability 0.966129
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15104039 95 - 20766785
CCCACCUCCCA------ACCUCUCGCCUU--GGCCCACGAUUUGGCUUUAACUU--GCCGCCAUUGUUGGCCAGGCUCUUUGCAUACAGACAUAUGGAUAUACAU-----
........(((------.......((((.--((((.(((((.((((........--))))..))))).))))))))..((((....))))....)))........----- ( -26.70)
>DroPse_CAF1 85744 80 - 1
UUGUC--CCCACUGC-----------------CCCUCCGAUGUGGCUUCAACCU--GCCACCAUUGUUGGCGAGGCAUUUUGCAUAUACGCUAGAGGAGAU---------
..(((--.((..(((-----------------(.(.((((((((((........--)))))....))))).).))))(((.((......)).))))).)))--------- ( -24.10)
>DroSec_CAF1 80654 101 - 1
CCCACAUCCCACCUCCCACCUCUCGCCUU--GGCCCACGAUUUGGCUUUAACUU--GCCGCCAUUGUUGGCCAGGCUCUUUGCAUACAGACAUAUGGAUAUGCAU-----
........................((((.--((((.(((((.((((........--))))..))))).))))))))....((((((((......))..)))))).----- ( -29.10)
>DroSim_CAF1 66533 101 - 1
CCCACAUCCCACCUCCCACCUCUCGCCUU--GGCCCACGAUUUGGCUUUAACUU--GCCGCCAUUGUUGGCCAGGCUCUUUGCAUACAGACAUAUGGAUAUACAU-----
.....((((...............((((.--((((.(((((.((((........--))))..))))).))))))))..((((....)))).....))))......----- ( -27.40)
>DroAna_CAF1 84074 107 - 1
UCCAC--CUCACCUC-CACCUCUGGCCUAAAGCCCUUCGUUUUGGCUUUAACUUGUGCCGCCAUUGUUGGCCAGGAUUUUUGCAUACAAACAUACAUACAUGCAUGACUA
.....--.(((..((-(......(((((((((((.........)))))))....).)))((((....))))..)))....(((((..............))))))))... ( -21.44)
>DroPer_CAF1 85227 80 - 1
UUGUC--CCCACUGC-----------------CCCUCCGAUGUGGCUUCAACCU--GCCACCAUUGUUGGCGAGGCAUUUUGCAUAUACGCUAGAGGAGAU---------
..(((--.((..(((-----------------(.(.((((((((((........--)))))....))))).).))))(((.((......)).))))).)))--------- ( -24.10)
>consensus
CCCAC__CCCACCUC__ACCUCUCGCCUU__GCCCCACGAUUUGGCUUUAACUU__GCCGCCAUUGUUGGCCAGGCUCUUUGCAUACAGACAUAUGGAUAU_CAU_____
......................................(.((((....(((.....(((((((....))))..)))...)))....)))))................... ( -7.88 =  -7.18 +  -0.69)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:50 2006