Locus 2411

Sequence ID 2L_DroMel_CAF1
Location 6,572,095 – 6,572,198
Length 103
Max. P 0.984726
window3880 window3881

overview

Window 0

Location 6,572,095 – 6,572,198
Length 103
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 95.19
Mean single sequence MFE -21.15
Consensus MFE -18.17
Energy contribution -18.93
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.86
SVM decision value -0.02
SVM RNA-class probability 0.522031
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6572095 103 + 22407834
--UUUGUGUGUUAGUUAUGUUUUCACAACCAUGUUGAUUUUGUCCGCUUUGUCCGCAUACAUAUACAUUUGUUUGUUUAUGCUCCUUUUUGGGCACACUUACUUG
--...((((((......(((....))).((((((.(((...(....)...))).)))).((((.(((......))).)))).........))))))))....... ( -17.40)
>DroSim_CAF1 46135 103 + 1
--UGUGUGUGUGAGUUAUGUUUUCACAACCAUGUUGAUUUUGUCCGCUUUGUCCGCAUACAUAUACAUUUGUUUGUUUAUGCUCCUUUUUGGGCACACUUACUUG
--.(((((((((((.......)))))..((((((.(((...(....)...))).)))).((((.(((......))).)))).........))))))))....... ( -22.80)
>DroEre_CAF1 45013 105 + 1
CGUGUGUGUGUGAGUUAUGUUUUCACAACCAUGUUGAUUUUGUCCGCUUUGUCCGCAUACAUAUACAUUUGUUUGUUUAUGCUCCUUUUUGGGCACACUUACUUG
.((((((.((((((.......)))))).((((((.(((...(....)...))).)))).((((.(((......))).)))).........))))))))....... ( -24.00)
>DroAna_CAF1 46963 103 + 1
--UGUGUGUGUGAGUUAUGUUUUCACAACCAUGUUGAUUUUGUUCGCUUUGUCCGCAUACAUAUACAGUUAUUUGUUUAUGCUUCUCUUUGUGCACACUUACUUG
--.(((((((((((.......)))))....((((.(((...(....)...))).)))).((((.((((....)))).))))...........))))))....... ( -20.40)
>consensus
__UGUGUGUGUGAGUUAUGUUUUCACAACCAUGUUGAUUUUGUCCGCUUUGUCCGCAUACAUAUACAUUUGUUUGUUUAUGCUCCUUUUUGGGCACACUUACUUG
...(((((((((((.......)))))..((((((.(((...(....)...))).)))).((((.(((......))).)))).........))))))))....... (-18.17 = -18.93 +   0.75)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 6,572,095 – 6,572,198
Length 103
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 95.19
Mean single sequence MFE -20.48
Consensus MFE -18.95
Energy contribution -19.20
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.71
Structure conservation index 0.93
SVM decision value 1.98
SVM RNA-class probability 0.984726
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6572095 103 - 22407834
CAAGUAAGUGUGCCCAAAAAGGAGCAUAAACAAACAAAUGUAUAUGUAUGCGGACAAAGCGGACAAAAUCAACAUGGUUGUGAAAACAUAACUAACACACAAA--
.......(((((.((........(((((.(((......))).)))))..((.......))))............((((((((....)))))))).)))))...-- ( -22.10)
>DroSim_CAF1 46135 103 - 1
CAAGUAAGUGUGCCCAAAAAGGAGCAUAAACAAACAAAUGUAUAUGUAUGCGGACAAAGCGGACAAAAUCAACAUGGUUGUGAAAACAUAACUCACACACACA--
.......(((((.((........(((((.(((......))).)))))..((.......)))).............(((((((....)))))))..)))))...-- ( -20.30)
>DroEre_CAF1 45013 105 - 1
CAAGUAAGUGUGCCCAAAAAGGAGCAUAAACAAACAAAUGUAUAUGUAUGCGGACAAAGCGGACAAAAUCAACAUGGUUGUGAAAACAUAACUCACACACACACG
...((..(((((.((........(((((.(((......))).)))))..((.......)))).............(((((((....)))))))..)))))..)). ( -20.50)
>DroAna_CAF1 46963 103 - 1
CAAGUAAGUGUGCACAAAGAGAAGCAUAAACAAAUAACUGUAUAUGUAUGCGGACAAAGCGAACAAAAUCAACAUGGUUGUGAAAACAUAACUCACACACACA--
.......(((((........((.(((((.(((......))).))))).(((.......))).......)).....(((((((....)))))))..)))))...-- ( -19.00)
>consensus
CAAGUAAGUGUGCCCAAAAAGGAGCAUAAACAAACAAAUGUAUAUGUAUGCGGACAAAGCGGACAAAAUCAACAUGGUUGUGAAAACAUAACUCACACACACA__
.......(((((.((........(((((.(((......))).)))))..((.......)))).............(((((((....)))))))..)))))..... (-18.95 = -19.20 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:24 2006