Locus 5323

Sequence ID X_DroMel_CAF1
Location 13,907,769 – 13,907,889
Length 120
Max. P 0.970905
window8617 window8618

overview

Window 7

Location 13,907,769 – 13,907,889
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.42
Mean single sequence MFE -29.08
Consensus MFE -25.24
Energy contribution -24.92
Covariance contribution -0.32
Combinations/Pair 1.03
Mean z-score -1.46
Structure conservation index 0.87
SVM decision value 0.79
SVM RNA-class probability 0.852161
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13907769 120 + 22224390
UUUUCUAGCUCCUAAAAUUGUUCGCAGUGCACUGCUGUGUGCGUGUGUUUUUCGUAUAGGCUGCAUGCUUUAUCGCAAUAUUUAAUUGGCAAAAUAUGCGUCUAAACGCACAUAAAUUGC
.......................(((((((((......))))((((((((..((((((...(((.(((......))).((......)))))...))))))...))))))))....))))) ( -30.30)
>DroSec_CAF1 8125 120 + 1
UUUGCUAGCUCCUAAAAUUGUUUGCAGUGCACUGCUGUGUGCGUGUGUUUUUCUUAUAGGCUGCAUGCUUUAUCUCAAUAUUUAAUUGGCAAAAUAUGCGUCUAAACGCACAUAAAUUGC
..(((.(((..........))).)))(..(((....)))..)(((((((.......(((((.(((((.(((...(((((.....))))).))).)))))))))))))))))......... ( -28.81)
>DroSim_CAF1 29934 120 + 1
UUUGCUAGCUUCUAAAAUUGUUUGCAGUGCACUGCUGUGUGCGUGUGUUUUUCUUAUAGGCUGCAUGCUUUAUCUCAAUAUUUAAUUGGCAAAAUAUGCGUCUAAACGCACAUAAAUUGC
..(((.(((..........))).)))(..(((....)))..)(((((((.......(((((.(((((.(((...(((((.....))))).))).)))))))))))))))))......... ( -28.81)
>DroEre_CAF1 3796 118 + 1
-UGAUAAAGUAUUGAA-UUGUUUGCAGUGCACUGCUGUGUGCGUGUGUUUUUCGUAUAGGCUGCAUGCUUUAUCGCAAUAUUUAAUUGGCAAAAUAUGCGUCUAAACGCACAUAAAUUGC
-...............-......(((((((((......))))((((((((..((((((...(((.(((......))).((......)))))...))))))...))))))))....))))) ( -30.00)
>DroYak_CAF1 18188 120 + 1
UUCUUAAGCUCCUAAAUUUGUUCUCAGUGCACUGGUGUGUGCGUGUGCUUUUCGUAUAGGCUGCAUGCUUUAUCGCAAUAUUUAAUUGGCAAAAUAUGCGUCUAAACGCACAUAAAUUGC
..............(((((((...(((....)))((((((((((((((((.......)))).)))))).....((((.(((((........))))))))).....))))))))))))).. ( -27.50)
>consensus
UUUGCUAGCUCCUAAAAUUGUUUGCAGUGCACUGCUGUGUGCGUGUGUUUUUCGUAUAGGCUGCAUGCUUUAUCGCAAUAUUUAAUUGGCAAAAUAUGCGUCUAAACGCACAUAAAUUGC
.......................((((....))))(((((((((............(((((.(((((.(((..(.((((.....))))).))).)))))))))).)))))))))...... (-25.24 = -24.92 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,907,769 – 13,907,889
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.42
Mean single sequence MFE -26.19
Consensus MFE -21.98
Energy contribution -21.94
Covariance contribution -0.04
Combinations/Pair 1.04
Mean z-score -1.92
Structure conservation index 0.84
SVM decision value 1.67
SVM RNA-class probability 0.970905
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13907769 120 - 22224390
GCAAUUUAUGUGCGUUUAGACGCAUAUUUUGCCAAUUAAAUAUUGCGAUAAAGCAUGCAGCCUAUACGAAAAACACACGCACACAGCAGUGCACUGCGAACAAUUUUAGGAGCUAGAAAA
((((...((((((((....)))))))).))))...........(((......)))(((((.......(.....)....((((......)))).))))).....((((((...)))))).. ( -25.90)
>DroSec_CAF1 8125 120 - 1
GCAAUUUAUGUGCGUUUAGACGCAUAUUUUGCCAAUUAAAUAUUGAGAUAAAGCAUGCAGCCUAUAAGAAAAACACACGCACACAGCAGUGCACUGCAAACAAUUUUAGGAGCUAGCAAA
((((...((((((((....)))))))).))))((((.....))))..........((((((((.(((((.........((((......))))..((....)).))))))).))).))).. ( -25.90)
>DroSim_CAF1 29934 120 - 1
GCAAUUUAUGUGCGUUUAGACGCAUAUUUUGCCAAUUAAAUAUUGAGAUAAAGCAUGCAGCCUAUAAGAAAAACACACGCACACAGCAGUGCACUGCAAACAAUUUUAGAAGCUAGCAAA
((((...((((((((....)))))))).))))((((.....))))..........((((((...(((((.........((((......))))..((....)).)))))...))).))).. ( -25.90)
>DroEre_CAF1 3796 118 - 1
GCAAUUUAUGUGCGUUUAGACGCAUAUUUUGCCAAUUAAAUAUUGCGAUAAAGCAUGCAGCCUAUACGAAAAACACACGCACACAGCAGUGCACUGCAAACAA-UUCAAUACUUUAUCA-
((((...((((((((....)))))))).))))..............(((((((..(((((.......(.....)....((((......)))).))))).....-.......))))))).- ( -26.44)
>DroYak_CAF1 18188 120 - 1
GCAAUUUAUGUGCGUUUAGACGCAUAUUUUGCCAAUUAAAUAUUGCGAUAAAGCAUGCAGCCUAUACGAAAAGCACACGCACACACCAGUGCACUGAGAACAAAUUUAGGAGCUUAAGAA
((((...((((((((....)))))))).))))...........(((......)))...............((((....((((......)))).(((((......)))))..))))..... ( -26.80)
>consensus
GCAAUUUAUGUGCGUUUAGACGCAUAUUUUGCCAAUUAAAUAUUGCGAUAAAGCAUGCAGCCUAUACGAAAAACACACGCACACAGCAGUGCACUGCAAACAAUUUUAGGAGCUAGAAAA
((((...((((((((....)))))))).))))((((.....))))..........(((((.......(.....)....((((......)))).)))))...................... (-21.98 = -21.94 +  -0.04)

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 11:44:55 2006