Locus 3733

Sequence ID 3L_DroMel_CAF1
Location 10,804,823 – 10,804,929
Length 106
Max. P 0.966456
window5829 window5830

overview

Window 9

Location 10,804,823 – 10,804,929
Length 106
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 83.12
Mean single sequence MFE -31.48
Consensus MFE -24.68
Energy contribution -25.52
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -1.81
Structure conservation index 0.78
SVM decision value 0.59
SVM RNA-class probability 0.792637
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10804823 106 + 23771897
------CUUGUUUCAUAGUUGUAUUUUGUGCACGUGUGUGCAUUGCAUGCAGCUGUGUGUGUAAGCUAGUAGCUUUUGCCGGCUGUUUGACUCGGUUUAAGUUCACCGUGUC
------.......(((((((((((...((((((....))))))...)))))))))))......(((..((((...))))..)))....(((.((((........)))).))) ( -33.80)
>DroSec_CAF1 13881 90 + 1
----------------------AUUUUGUUCACGUGUGUGCAUAGCAUGCAGCUGUGUGGGUAAGCUAGUAGCUUUUGCCGGCUGUUUGACUCGGUUUAAGUUCACCGUGUC
----------------------........((((.(((.(((((((.....)))))))((((((((.(((.((....))..))))))).))))..........))))))).. ( -25.40)
>DroSim_CAF1 15279 106 + 1
------CUUGUUUCAUAGCUGUAUUUUGUGCACGUGUGUGCAUUGCAUGCAGCUGUGUGUGUAAGCUAGUAGCUUUUGCCGGCUGUUUGACUCGGUUUAAGUUCACCGUGUC
------.......(((((((((((...((((((....))))))...)))))))))))......(((..((((...))))..)))....(((.((((........)))).))) ( -36.20)
>DroEre_CAF1 15529 94 + 1
-----------------AUUGUUUUCAGUGCACGUGUGUGCAUAGCAUGCAGCUGUGUGGGUAAGCUAGUAGCU-UUGCCGGCAGUUUGACUCGGUUUAAGUUCGCCGUGUC
-----------------.((((...(.((((((....)))))).)...))))...(((.(((((((.....)).-))))).)))....(((.((((........)))).))) ( -28.30)
>DroYak_CAF1 14440 110 + 1
AAACAAUUUGAUUUUCAAUUGUUUUCAGUGCACG-GUGUGCAUAGCAUGCAGCUGUGUGGGUAAGCUAGUAGCU-UUGCCGGCAGUUUGACUCGGUUUAAGUUCACCGUGUC
((((((((.(.....))))))))).....(((((-(((.(((((((.....)))))((.(((((((.....)).-))))).)).................)).)))))))). ( -33.70)
>consensus
_______UUG_UU___AAUUGUAUUUUGUGCACGUGUGUGCAUAGCAUGCAGCUGUGUGGGUAAGCUAGUAGCUUUUGCCGGCUGUUUGACUCGGUUUAAGUUCACCGUGUC
...........................((((((....)))))).....(((((((.(((...((((.....)))).))))))))))..(((.((((........)))).))) (-24.68 = -25.52 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,804,823 – 10,804,929
Length 106
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 83.12
Mean single sequence MFE -23.74
Consensus MFE -18.80
Energy contribution -19.20
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.79
SVM decision value 1.60
SVM RNA-class probability 0.966456
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10804823 106 - 23771897
GACACGGUGAACUUAAACCGAGUCAAACAGCCGGCAAAAGCUACUAGCUUACACACACAGCUGCAUGCAAUGCACACACGUGCACAAAAUACAACUAUGAAACAAG------
(((.((((........)))).)))...((((.(....((((.....)))).......).)))).......(((((....)))))......................------ ( -22.50)
>DroSec_CAF1 13881 90 - 1
GACACGGUGAACUUAAACCGAGUCAAACAGCCGGCAAAAGCUACUAGCUUACCCACACAGCUGCAUGCUAUGCACACACGUGAACAAAAU----------------------
(((.((((........)))).)))........((...((((.....))))..)).((.(((.....))).))(((....)))........---------------------- ( -19.10)
>DroSim_CAF1 15279 106 - 1
GACACGGUGAACUUAAACCGAGUCAAACAGCCGGCAAAAGCUACUAGCUUACACACACAGCUGCAUGCAAUGCACACACGUGCACAAAAUACAGCUAUGAAACAAG------
(((.((((........)))).))).............((((.....)))).....((.(((((.((....(((((....)))))....)).))))).)).......------ ( -27.40)
>DroEre_CAF1 15529 94 - 1
GACACGGCGAACUUAAACCGAGUCAAACUGCCGGCAA-AGCUACUAGCUUACCCACACAGCUGCAUGCUAUGCACACACGUGCACUGAAAACAAU-----------------
(((.(((..........))).)))........((..(-(((.....))))..))...(((.((((((...........)))))))))........----------------- ( -20.60)
>DroYak_CAF1 14440 110 - 1
GACACGGUGAACUUAAACCGAGUCAAACUGCCGGCAA-AGCUACUAGCUUACCCACACAGCUGCAUGCUAUGCACAC-CGUGCACUGAAAACAAUUGAAAAUCAAAUUGUUU
(.(((((((.........((.((......))))(((.-(((...(((((.........)))))...))).))).)))-))))).....((((((((........)))))))) ( -29.10)
>consensus
GACACGGUGAACUUAAACCGAGUCAAACAGCCGGCAAAAGCUACUAGCUUACCCACACAGCUGCAUGCUAUGCACACACGUGCACAAAAUACAACU___AA_CAA_______
(((.((((........)))).))).....((.(((....)))..(((((.........)))))...))..(((((....)))))............................ (-18.80 = -19.20 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:26 2006