Locus 3417

Sequence ID 3R_DroMel_CAF1
Location 9,293,177 – 9,293,267
Length 90
Max. P 0.532017
window5484

overview

Window 4

Location 9,293,177 – 9,293,267
Length 90
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 88.39
Mean single sequence MFE -22.32
Consensus MFE -18.39
Energy contribution -18.33
Covariance contribution -0.05
Combinations/Pair 1.19
Mean z-score -1.74
Structure conservation index 0.82
SVM decision value -0.00
SVM RNA-class probability 0.532017
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9293177 90 + 27905053
UUACAAGUUCUCACGAACAC--UCCACUGAUUCGUUGAUGUGUGCUCACUU------AGUUGAGUGAAGAAUUUCAAUUAAUUCAAUUGGAGCGGAUC
......((((....)))).(--((((.(((...(((((.((...(((((((------....))))).)).)).)))))....)))..)))))...... ( -20.00)
>DroSec_CAF1 64429 90 + 1
UUACAAGUUCUCACGAACAC--UCCGCUGAUUCGUUGCUCUGUGCUCACUU------AGUUGAGUGAAGAAUUUCAAUUAAUUCAAUUGGAGUGGAUC
......((((....))))..--(((((((((((.(..(((...(((.....------))).)))..).)))))((((((.....)))))))))))).. ( -22.60)
>DroSim_CAF1 65692 90 + 1
UUACAAGUUCUCACGAACAC--UCCGCUGAUUCGUUUCUCUGUGCUCACUU------AGUUGAGUGAAGAAUUUCAAUUAAUUCAAUUGGAGCGGAUC
......((((....))))..--......((((((((((.......((((((------....)))))).(((((......)))))....)))))))))) ( -22.40)
>DroEre_CAF1 65265 87 + 1
UUACAAGUUCUCACGAACAC--UC---UGAUUCGUUUCUGUGUGCUCACUU------AGUUGAGUGAAGAAUUUCAAUUAAUUCAAUUGGAGCGGAUC
......((((....))))..--..---.((((((((((.......((((((------....)))))).(((((......)))))....)))))))))) ( -22.40)
>DroYak_CAF1 65112 87 + 1
UUACAAGUUCUCACGAACAC--UC---UGAUUCGUUUCUGUGUGCUCACUU------AGUUGAGUGAAGAAUUUCAAUUAAUUCAAUUGGAGCGGAUC
......((((....))))..--..---.((((((((((.......((((((------....)))))).(((((......)))))....)))))))))) ( -22.40)
>DroAna_CAF1 63655 98 + 1
AUACAAGUUCUCAUGAGCCAGGCACACAGAUUCGUUUGUGAGCGCUCACUUAUUGUUAGUUGAGCGAAGAAUUUCAAUUAAUUCAAUUGAAGUGGAUC
......((((....))))...((.((((((....)))))).))(((((.(((....))).))))).....(((((((((.....)))))))))..... ( -24.10)
>consensus
UUACAAGUUCUCACGAACAC__UCC_CUGAUUCGUUUCUGUGUGCUCACUU______AGUUGAGUGAAGAAUUUCAAUUAAUUCAAUUGGAGCGGAUC
......((((....))))..........((((((((((....((((((((.......)).))))))..(((((......)))))....)))))))))) (-18.39 = -18.33 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:29 2006