Locus 273

Sequence ID X_DroMel_CAF1
Location 916,517 – 916,659
Length 142
Max. P 0.973303
window417 window418

overview

Window 7

Location 916,517 – 916,628
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.01
Mean single sequence MFE -31.12
Consensus MFE -23.74
Energy contribution -24.18
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.51
Structure conservation index 0.76
SVM decision value -0.02
SVM RNA-class probability 0.525813
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 916517 111 + 22224390
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUCUUUC---CCAGCUGCAC------CAGUGUGUGCAUGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
..................(((...............---((((((((((------(..((((.(....).)))).)))..))))))))..(((((........))))))))......... ( -28.40)
>DroSec_CAF1 7994 111 + 1
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUUUUUC---CCAGCUGCAC------CAGUGUGUGCAUGCCCGCAGGAUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
...((((((..........(((((((.....)))))---((((((((.(------(.(((.((....)).))).))....))))))))....)).))))))...(((....)))...... ( -26.10)
>DroSim_CAF1 8160 111 + 1
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUCUUUC---CCAGCUGCAC------CAGUGUGUGCAUGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
..................(((...............---((((((((((------(..((((.(....).)))).)))..))))))))..(((((........))))))))......... ( -28.40)
>DroEre_CAF1 9237 111 + 1
AAAUUCAAAUUAAAAUUCUGCAAAAACACUGCUCUC---CCAGCUGCAC------CAGUGUGUGCACGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUCGAAACAGUGUGCACACAUCUCU
..................(((....(((((((.((.---((((((((..------..(((....)))((((...))))..)))))))).)).)).........))))))))......... ( -31.70)
>DroYak_CAF1 8561 120 + 1
AAAUUCAAAUUAAAGUUGUGCAAAAACACAGCUCGCUCCGCAGCUGCACUGCGUCCAGUGUGUGCAUGUCCGCAGGCUAAGCAGCUGGCAGCGCUUUGGAAACAGUGUGCACACAUCUCU
.............(((((((......))))))).((....(((((((.(((((..((.((....))))..))))).....))))))))).((((.(((....))).)))).......... ( -41.00)
>consensus
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUCUUUC___CCAGCUGCAC______CAGUGUGUGCAUGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
..................(((..................((((((((..........(((....)))((((...))))..))))))))..(((((........))))))))......... (-23.74 = -24.18 +   0.44) 

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 916,554 – 916,659
Length 105
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 93.58
Mean single sequence MFE -37.62
Consensus MFE -34.14
Energy contribution -33.58
Covariance contribution -0.56
Combinations/Pair 1.10
Mean z-score -1.61
Structure conservation index 0.91
SVM decision value 1.71
SVM RNA-class probability 0.973303
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 916554 105 - 22224390
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUACCCUGCGGGCAUGCACACACUG------GUGCAGCUG
(((((.(((((((...................((((((((....))).)))))..((((((.....)).))))))))))))))))(((((......------))))).... ( -38.90)
>DroSec_CAF1 8031 105 - 1
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUAUCCUGCGGGCAUGCACACACUG------GUGCAGCUG
(((((.(((((((...................((((((((....))).)))))..((((((.....)).))))))))))))))))(((((......------))))).... ( -36.30)
>DroSim_CAF1 8197 105 - 1
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUACCCUGCGGGCAUGCACACACUG------GUGCAGCUG
(((((.(((((((...................((((((((....))).)))))..((((((.....)).))))))))))))))))(((((......------))))).... ( -38.90)
>DroEre_CAF1 9274 105 - 1
UGCCCUGCGGCGCCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCGAAAGCGCUGCCAGCUGCUUACCCUGCGGGCGUGCACACACUG------GUGCAGCUG
......((.((((((........(((....)))...(((((((((.((((...(.((((((.....)).)))).)...))))..))))))))).))------)))).)).. ( -37.90)
>DroYak_CAF1 8601 111 - 1
CGUCCUGCGGGCACAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCCAAAGCGCUGCCAGCUGCUUAGCCUGCGGACAUGCACACACUGGACGCAGUGCAGCUG
.(..(((((((((.............))))...((.((((((((..((((...(.((((((.....)).)))).)...))))...))))))))))...)))))..)..... ( -36.12)
>consensus
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUACCCUGCGGGCAUGCACACACUG______GUGCAGCUG
.((((.((((((....................((((((((....))).)))))..((((((.....)).)))).)))))))))).(((((............))))).... (-34.14 = -33.58 +  -0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:35 2006