Locus 4801

Sequence ID 3R_DroMel_CAF1
Location 12,546,851 – 12,546,975
Length 124
Max. P 0.740818
window7875 window7876

overview

Window 5

Location 12,546,851 – 12,546,941
Length 90
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 95.81
Mean single sequence MFE -19.18
Consensus MFE -17.38
Energy contribution -17.26
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.27
Structure conservation index 0.91
SVM decision value 0.45
SVM RNA-class probability 0.740818
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12546851 90 + 27905053
ACCGUUCAUUAAGUGUAGCUAAGCA-AACAAACUGCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGGACGUUUUAAUGACA
..((((((((...(((((.......-......)))))..(((((.(((....))).)))))...........))))))))........... ( -18.92)
>DroSec_CAF1 35781 91 + 1
ACCGUUCAUUAAGUGUGGCUUAGAAAAACAAACUGCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACA
...((.((((((.((..(.((........)).)..)).....((((((((((.....((((((...)))))))))))))))))))))))). ( -18.40)
>DroSim_CAF1 35732 91 + 1
ACCGUUCAUUAAGUGUGGCUUAGAAAAACAAACUGCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGGCA
...(((..(((((.....)))))...))).....((.(((..((((((((((.....((((((...))))))))))))))))..))).)). ( -18.40)
>DroEre_CAF1 33591 90 + 1
ACCGUUCAUUAAGUGUGGCUUAGCA-AACAAACUGCAAUUGCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACA
...((.((((((.....((...(((-.......)))....))((((((((((.....((((((...)))))))))))))))))))))))). ( -20.10)
>DroYak_CAF1 33073 90 + 1
ACCGCUCAUUAAGUGUGGCUUAGCA-AACAAACUGCAAUUGCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACA
.((((.(.....).))))....(((-.......))).((((.((((((((((.....((((((...)))))))))))))))).)))).... ( -20.10)
>consensus
ACCGUUCAUUAAGUGUGGCUUAGCA_AACAAACUGCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACA
...(.(((((((.(((((..............))))).....((((((((((.....((((((...)))))))))))))))))))))))). (-17.38 = -17.26 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 6

Location 12,546,884 – 12,546,975
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 97.14
Mean single sequence MFE -21.00
Consensus MFE -16.92
Energy contribution -16.88
Covariance contribution -0.04
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.81
SVM decision value -0.01
SVM RNA-class probability 0.526785
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12546884 91 + 27905053
GCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGGACGUUUUAAUGACACAAUGAUAUGGUAAAUUACGCCAGUGUAAAUGCU
(((.......((((((((((.((((((((...)))))))))))))(((.....)))......))))).....(((((....))))).))). ( -19.30)
>DroSec_CAF1 35815 91 + 1
GCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACACAAUGAUAUGGUAAAUUACGCCAGUGUAAAUGCU
(((..(((((.(((....))).))))).............((((((((.....))).........((((.......)))))))))..))). ( -20.10)
>DroSim_CAF1 35766 91 + 1
GCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGGCACAAUGAUAUGGUAAAUUACGCCAGUGUAAAUGCU
(((..(((((.(((....))).))))).............((((((((.....))).........((((.......)))))))))..))). ( -19.60)
>DroEre_CAF1 33624 91 + 1
GCAAUUGCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACACAAUGAUAUGGUAAAUUACGCCACUGCAAAUGCU
(((.((((((((((((((.....((((((...)))))))))))))))).................((((.......))))..)))).))). ( -23.00)
>DroYak_CAF1 33106 91 + 1
GCAAUUGCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACACAAUGAUAUGGUAAAUUACGCCACUGCAAAUGCU
(((.((((((((((((((.....((((((...)))))))))))))))).................((((.......))))..)))).))). ( -23.00)
>consensus
GCAAUUCCAACGUGUGUUCACUUUGGAUCAAAGAUUCAAAUGCACGUUUUAAUGACACAAUGAUAUGGUAAAUUACGCCAGUGUAAAUGCU
((((((..((((((((((.....((((((...))))))))))))))))..))).......((...((((.......))))...))..))). (-16.92 = -16.88 +  -0.04)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:15 2006