Locus 5127

Sequence ID 3L_DroMel_CAF1
Location 14,094,350 – 14,094,445
Length 95
Max. P 0.576730
window8117 window8118

overview

Window 7

Location 14,094,350 – 14,094,445
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 82.78
Mean single sequence MFE -28.75
Consensus MFE -19.63
Energy contribution -19.63
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.68
SVM decision value 0.09
SVM RNA-class probability 0.576730
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14094350 95 + 23771897
GUGUUGUUGCUGCUUCGCGUUCAUUUGUUCAUCCGUUUGUUGGUAUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCCCGAG----------AUCU-----
(((..((....))..)))((((.((((..((((((.....))).))).))))...))))...((((((((((((.....))))))))...)----------))).----- ( -24.30)
>DroVir_CAF1 93091 91 + 1
CUGU----CUUGCUUCUCGUUCAUUUGUUCAUCCGUUUGUUGCAGUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCCUGUG----------CAUG-----
....----..(((.....(.((((..((((....(((((.........)))))..)))).)))).)((((((((.....))))))))...)----------))..----- ( -22.50)
>DroPse_CAF1 105479 104 + 1
UUGUUGUAGCUGCUUCUCGUUCAUUUGUUCAUCCGUUUGUUGGUGUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCC-GAGCUGGAAGAGGAGCU-----
...........(((((((.((((((((((((((((.....))).)))...))))))........((((((((((.....))))))))-))..)))).))))))).----- ( -35.60)
>DroGri_CAF1 89371 96 + 1
CUGU----CUUGCUUCUCGUUCAUUUGUUCAUCCGUUUGUUGGAGUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCCUGCG----------CAGAGACGA
.(((----(((((.....(.((((..((((.((((.....))))((.....))..)))).)))).)((((((((.....))))))))...)----------)).))))). ( -30.30)
>DroMoj_CAF1 101591 91 + 1
CUGU----CUUGCUUCUCGUUCAUUUGUUCAUCCGUUUGUUGCAGUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCCUGCG----------CAGA-----
((((----...((.....(.((((..((((....(((((.........)))))..)))).)))).)((((((((.....)))))))).)))----------))).----- ( -24.20)
>DroPer_CAF1 106661 104 + 1
UUGUUGUAGCUGCUUCUCGUUCAUUUGUUCAUCCGUUUGUUGGUGUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCC-GAGCUGGAAGAGGAGCU-----
...........(((((((.((((((((((((((((.....))).)))...))))))........((((((((((.....))))))))-))..)))).))))))).----- ( -35.60)
>consensus
CUGU____CCUGCUUCUCGUUCAUUUGUUCAUCCGUUUGUUGGAGUGUCAAACAAGAAUUAUGAUCGGCUUAGCCACAUGCUGAGCCUGAG__________AACU_____
..................(.((((..((((....(((((.........)))))..)))).)))).)((((((((.....))))))))....................... (-19.63 = -19.63 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,094,350 – 14,094,445
Length 95
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 82.78
Mean single sequence MFE -23.81
Consensus MFE -16.17
Energy contribution -16.34
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14094350 95 - 23771897
-----AGAU----------CUCGGGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACAUACCAACAAACGGAUGAACAAAUGAACGCGAAGCAGCAACAACAC
-----.(((----------(...((((.(((.....))).)))))))).......(..((((.(((.((.......)))))..))))..)..((......))........ ( -20.30)
>DroVir_CAF1 93091 91 - 1
-----CAUG----------CACAGGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACACUGCAACAAACGGAUGAACAAAUGAACGAGAAGCAAG----ACAG
-----..((----------(...((((.(((.....))).))))........(((((((((.......((.(.....).)).......))))))))))))..----.... ( -21.14)
>DroPse_CAF1 105479 104 - 1
-----AGCUCCUCUUCCAGCUC-GGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACACACCAACAAACGGAUGAACAAAUGAACGAGAAGCAGCUACAACAA
-----.(((.(((.......((-((((.(((.....))).))))))((((..(((.((((((.........))))))...)))...))))..))).)))........... ( -26.40)
>DroGri_CAF1 89371 96 - 1
UCGUCUCUG----------CGCAGGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACACUCCAACAAACGGAUGAACAAAUGAACGAGAAGCAAG----ACAG
..((((.((----------(...((((.(((.....))).))))........(((((((((..((.(((.......))))).......))))))))))))))----)).. ( -27.10)
>DroMoj_CAF1 101591 91 - 1
-----UCUG----------CGCAGGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACACUGCAACAAACGGAUGAACAAAUGAACGAGAAGCAAG----ACAG
-----(((.----------.((.((((.(((.....))).))))........(((((((((.......((.(.....).)).......))))))))))).))----)... ( -21.54)
>DroPer_CAF1 106661 104 - 1
-----AGCUCCUCUUCCAGCUC-GGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACACACCAACAAACGGAUGAACAAAUGAACGAGAAGCAGCUACAACAA
-----.(((.(((.......((-((((.(((.....))).))))))((((..(((.((((((.........))))))...)))...))))..))).)))........... ( -26.40)
>consensus
_____AGUG__________CUCAGGCUCAGCAUGUGGCUAAGCCGAUCAUAAUUCUUGUUUGACACACCAACAAACGGAUGAACAAAUGAACGAGAAGCAAC____ACAG
.......................((((.(((.....))).))))........(((((((((.......((.(.....).)).......)))))))))............. (-16.17 = -16.34 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:36 2006