Locus 2706

Sequence ID 2L_DroMel_CAF1
Location 7,605,951 – 7,606,070
Length 119
Max. P 0.979455
window4301 window4302

overview

Window 1

Location 7,605,951 – 7,606,070
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -30.37
Consensus MFE -24.30
Energy contribution -24.66
Covariance contribution 0.36
Combinations/Pair 1.09
Mean z-score -1.62
Structure conservation index 0.80
SVM decision value 0.40
SVM RNA-class probability 0.721087
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7605951 119 + 22407834
UAUUCAGAGGUUUGGUGACUACUUCAAUAAAUAUGGCAAAACCUUCCGCCUGUGGAUUCUAGGCGAGUGUCUUAUUUACACGAAGGAUCUAAAAUAUUUUGAAUCCAUACUGAGUAGUA
(((((((((((..(....).)))))......(((((((((((((((((((((.......)))))).((((.......)))))))))..........)))))...))))).))))))... ( -30.90)
>DroSec_CAF1 105582 119 + 1
UAUUCAGAAGUUUGGUGACUACUUCAAUAAAUAUGGCAAAACCUUCCGCCUGUGGAUUCUAGGCGAGUGUCUUAUUUACACGAAGGAUCUAAAAUACUUUGAAAGCAUUCUGAGUAGUA
((((((((((((((....)....((((....(((.......(((((((((((.......)))))).((((.......))))))))).......)))..)))))))).)))))))))... ( -30.54)
>DroSim_CAF1 111760 119 + 1
UAUUCAGAAGUUUGGUGACUACUUCAAUAAAUAUGGCAAAACCUUCCGCCUGUGGAUUUUAGGCGAGUGUCUUAUUUACACGAAGGAUCUAAAAUAUUUUGAAAGCAUUCUGAGUAGUA
((((((((((((((....)....((((..(((((.......(((((((((((.......)))))).((((.......))))))))).......))))))))))))).)))))))))... ( -33.24)
>DroEre_CAF1 105890 119 + 1
UAUUCAGAGGUUUGGCGACUACUUCAAUAAAUAUGGCAAAACCUUCCGCCUGUGGAUUCUGGGCGAGUGCCUUAUUUACACAAAGGAUCUAAAGUACUUUGAAGGCAUUCUAAGUAGUA
..(((((((((((.((...................)).))))).((((....)))).)))))).(((((((((.......(((((...........))))))))))))))......... ( -27.92)
>DroYak_CAF1 108464 119 + 1
UAUUCAGAGGUUUGGUGACUACUUCAAUAAAUAUGGCAAUACCUUCCGCCUGUGGGUUCUAGGCGAGUGUCUGAUUUACACAAAGGAUCUAAAGUACUUUGAAGGCAUUCUGAGUAGCA
(((((((((((..(....)..((((((....(((.......((((.((((((.......)))))).((((.......)))).)))).......)))..)))))))).)))))))))... ( -29.24)
>consensus
UAUUCAGAGGUUUGGUGACUACUUCAAUAAAUAUGGCAAAACCUUCCGCCUGUGGAUUCUAGGCGAGUGUCUUAUUUACACGAAGGAUCUAAAAUACUUUGAAAGCAUUCUGAGUAGUA
((((((((((((....))))..(((((....(((.......(((((((((((.......)))))).((((.......))))))))).......)))..))))).....))))))))... (-24.30 = -24.66 +   0.36)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,605,951 – 7,606,070
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 93.61
Mean single sequence MFE -27.71
Consensus MFE -23.14
Energy contribution -23.18
Covariance contribution 0.04
Combinations/Pair 1.14
Mean z-score -2.05
Structure conservation index 0.84
SVM decision value 1.84
SVM RNA-class probability 0.979455
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7605951 119 - 22407834
UACUACUCAGUAUGGAUUCAAAAUAUUUUAGAUCCUUCGUGUAAAUAAGACACUCGCCUAGAAUCCACAGGCGGAAGGUUUUGCCAUAUUUAUUGAAGUAGUCACCAAACCUCUGAAUA
.((((((((((((((((((...........((....))((((.......)))).......)))))))..((((((....)))))).....))))).))))))................. ( -28.20)
>DroSec_CAF1 105582 119 - 1
UACUACUCAGAAUGCUUUCAAAGUAUUUUAGAUCCUUCGUGUAAAUAAGACACUCGCCUAGAAUCCACAGGCGGAAGGUUUUGCCAUAUUUAUUGAAGUAGUCACCAAACUUCUGAAUA
......((((((((((((..((((((..((((.(((((((((.......)))).(((((.(......))))))))))).))))..))))))...))))))((......))))))))... ( -28.80)
>DroSim_CAF1 111760 119 - 1
UACUACUCAGAAUGCUUUCAAAAUAUUUUAGAUCCUUCGUGUAAAUAAGACACUCGCCUAAAAUCCACAGGCGGAAGGUUUUGCCAUAUUUAUUGAAGUAGUCACCAAACUUCUGAAUA
......((((((((((((..((((((..((((.(((((((((.......)))).(((((.........)))))))))).))))..))))))...))))))((......))))))))... ( -28.70)
>DroEre_CAF1 105890 119 - 1
UACUACUUAGAAUGCCUUCAAAGUACUUUAGAUCCUUUGUGUAAAUAAGGCACUCGCCCAGAAUCCACAGGCGGAAGGUUUUGCCAUAUUUAUUGAAGUAGUCGCCAAACCUCUGAAUA
...(((((.(((....))).))))).(((((((((((((((.......(((....))).......)))))).))).(((((.((..(((((....)))))...)).))))))))))).. ( -27.14)
>DroYak_CAF1 108464 119 - 1
UGCUACUCAGAAUGCCUUCAAAGUACUUUAGAUCCUUUGUGUAAAUCAGACACUCGCCUAGAACCCACAGGCGGAAGGUAUUGCCAUAUUUAUUGAAGUAGUCACCAAACCUCUGAAUA
.((((((((((((((((((...................((((.......)))).(((((.(......)))))))))))))))..........))).))))))................. ( -25.70)
>consensus
UACUACUCAGAAUGCCUUCAAAGUAUUUUAGAUCCUUCGUGUAAAUAAGACACUCGCCUAGAAUCCACAGGCGGAAGGUUUUGCCAUAUUUAUUGAAGUAGUCACCAAACCUCUGAAUA
.(((((((((((....))).((((((..((((.(((((((((.......)))).(((((.........)))))))))).))))..))))))..)).))))))................. (-23.14 = -23.18 +   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 10:34:09 2006