Locus 5307

Sequence ID 2R_DroMel_CAF1
Location 17,223,834 – 17,223,938
Length 104
Max. P 0.997094
window8479 window8480

overview

Window 9

Location 17,223,834 – 17,223,938
Length 104
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 78.50
Mean single sequence MFE -30.62
Consensus MFE -10.44
Energy contribution -11.84
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -3.18
Structure conservation index 0.34
SVM decision value 2.80
SVM RNA-class probability 0.997094
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17223834 104 + 20766785
UUUUU-UUUUUCGAUCCUGCGGCGUUUCGCCUGGAAAG-GCGAGUCGUUCGGAAAAUGAAAGAGAAAAGUAGUCCCCU-UGCAUAUUAUUUGUGUAAAGUAAACGAU----
(((((-(((((((.(((.(((((...((((((....))-)))))))))..)))...)))))))))))).........(-((((((.....)))))))..........---- ( -32.40)
>DroSec_CAF1 23679 87 + 1
UUUUUUUUUUUCGAUCCUGCGGCGUUUCGCCUGGAA--------------------UUGAAGAGGAAAGUAGUCCCCUUUGCAUAUAAAUUGUGUAAAGUUAACGAU----
.((((((((((((((((...((((...)))).)).)--------------------)))))))))))))..((...(((((((((.....)))))))))...))...---- ( -26.20)
>DroSim_CAF1 26089 85 + 1
UUUU--UUUUUCGAUCCUUCGGCGUUUCGCCUGGAA--------------------UUGAAGAGGAAAGUAGUCCCCUUUGCAUAUAAAUUGUGUAAAGUUAACGAU----
((((--(((((((((((...((((...)))).)).)--------------------))))))))))))...((...(((((((((.....)))))))))...))...---- ( -25.60)
>DroEre_CAF1 24009 109 + 1
UUUUU--UUUUCGUUCCUGCGCCGAUUCGCCUGAAAAGUGCGAAUCGUUGGGGAAAUUGAAGAGGAAAGUAGUCCCCCUUGCAUAUAAAUUGUGUAAAGUAAACGAUAACA
(((((--(((((.(((((.((.((((((((((....)).)))))))).)))))))...))))))))))((.(((..(.(((((((.....))))))).).....))).)). ( -33.80)
>DroYak_CAF1 24018 110 + 1
UUUUU-UUUUUCGUUCCUGCUGCGAUUCGCCUGCAAAGUGCGAAUCGUUAGGGAAAUUGAAGAGGAAAGUAGUCCCCCUUGCAUAUAAAUUGUGUAAAGUAAACGAUAACA
.((((-((((((.(((((...(((((((((((....)).)))))))))..)))))...))))))))))((.(((..(.(((((((.....))))))).).....))).)). ( -35.10)
>consensus
UUUUU_UUUUUCGAUCCUGCGGCGUUUCGCCUGGAAAG_GCGA_UCGUU_GG_AAAUUGAAGAGGAAAGUAGUCCCCUUUGCAUAUAAAUUGUGUAAAGUAAACGAU____
..........(((.(((...((((...)))).))).........................................(((((((((.....)))))))))....)))..... (-10.44 = -11.84 +   1.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,223,834 – 17,223,938
Length 104
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 78.50
Mean single sequence MFE -21.58
Consensus MFE -11.40
Energy contribution -11.68
Covariance contribution 0.28
Combinations/Pair 1.18
Mean z-score -1.90
Structure conservation index 0.53
SVM decision value 0.24
SVM RNA-class probability 0.647062
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17223834 104 - 20766785
----AUCGUUUACUUUACACAAAUAAUAUGCA-AGGGGACUACUUUUCUCUUUCAUUUUCCGAACGACUCGC-CUUUCCAGGCGAAACGCCGCAGGAUCGAAAAA-AAAAA
----.(((...................(((.(-((((((......))))))).)))..(((...((..((((-((....))))))..)).....))).)))....-..... ( -19.90)
>DroSec_CAF1 23679 87 - 1
----AUCGUUAACUUUACACAAUUUAUAUGCAAAGGGGACUACUUUCCUCUUCAA--------------------UUCCAGGCGAAACGCCGCAGGAUCGAAAAAAAAAAA
----.(((........................(((((((......)))))))...--------------------.(((.((((...))))...))).))).......... ( -16.30)
>DroSim_CAF1 26089 85 - 1
----AUCGUUAACUUUACACAAUUUAUAUGCAAAGGGGACUACUUUCCUCUUCAA--------------------UUCCAGGCGAAACGCCGAAGGAUCGAAAAA--AAAA
----.(((....((((................(((((((......)))))))...--------------------.....((((...))))))))...)))....--.... ( -17.00)
>DroEre_CAF1 24009 109 - 1
UGUUAUCGUUUACUUUACACAAUUUAUAUGCAAGGGGGACUACUUUCCUCUUCAAUUUCCCCAACGAUUCGCACUUUUCAGGCGAAUCGGCGCAGGAACGAAAA--AAAAA
.....((((((.................(((..((((((.................))))))..((((((((.((....))))))))))..))).))))))...--..... ( -28.00)
>DroYak_CAF1 24018 110 - 1
UGUUAUCGUUUACUUUACACAAUUUAUAUGCAAGGGGGACUACUUUCCUCUUCAAUUUCCCUAACGAUUCGCACUUUGCAGGCGAAUCGCAGCAGGAACGAAAAA-AAAAA
.....(((((..................((.((((((((.....)))))))))).....(((..((((((((.((....))))))))))....))))))))....-..... ( -26.70)
>consensus
____AUCGUUUACUUUACACAAUUUAUAUGCAAAGGGGACUACUUUCCUCUUCAAUUU_CC_AACGA_UCGC_CUUUCCAGGCGAAACGCCGCAGGAUCGAAAAA_AAAAA
.....(((........................(((((((......)))))))........................(((.((((...))))...))).))).......... (-11.40 = -11.68 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:42 2006