Locus 1956

Sequence ID 3R_DroMel_CAF1
Location 5,520,468 – 5,520,587
Length 119
Max. P 0.942235
window3212

overview

Window 2

Location 5,520,468 – 5,520,587
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.22
Mean single sequence MFE -30.10
Consensus MFE -29.12
Energy contribution -29.62
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.97
SVM decision value 1.32
SVM RNA-class probability 0.942235
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5520468 119 + 27905053
GGGAUUUUAUGUUCCUUUCAUAUAGUUGUUCUCAGUUACAAUU-UUGCGUUAGCGCAACUAAUUCUUAAAAAAAUAAACAGGAGCUGCCGGCUAGUUGCUCCGCACUGUAAAUGUAACUA
((((..((((((.......))))))....))))(((((((...-(((((....)))))......................(((((.((......)).)))))..........))))))). ( -27.30)
>DroSim_CAF1 7330 119 + 1
GGGAUUUUCUGUUCCAUUCAUAUAGUUGUUCUCAGUUACAAUU-UUGCGUUAGCGCAACUAAUUCUUAAAAAAAUAAACAGGAGCGGCCGGCUAGUUGCUCCGCACUGUAAAUGUAACUA
((((....((((.........))))....))))(((((((...-(((((....)))))...................((((..((((..(((.....))))))).))))...))))))). ( -31.70)
>DroEre_CAF1 7331 116 + 1
GGGAUUUUCUGUUCCUUUCAUAUAGU---UCUCAGUUACAAUU-UUGCGUUAGCGCAACUAAUUCUUAAAAAAAUAAACAGGAGCGGCCGGCUAGUUGCUCCGCACUGUAAAUGUAACUA
((((....((((.........)))).---))))(((((((...-(((((....)))))...................((((..((((..(((.....))))))).))))...))))))). ( -30.70)
>DroYak_CAF1 7336 117 + 1
GGGAUCUUCUGUUCCUUUCAUAUAGU---UCUCAGUUACAAUUUUUGCGUUAGCGCAACUAAUUCUUAAAAAAAUAAACAGGAGCGGCCGGCUAGUUGCUCCGCACUGUAAAUGUAACUA
((((....((((.........)))).---))))(((((((....(((((....)))))...................((((..((((..(((.....))))))).))))...))))))). ( -30.70)
>consensus
GGGAUUUUCUGUUCCUUUCAUAUAGU___UCUCAGUUACAAUU_UUGCGUUAGCGCAACUAAUUCUUAAAAAAAUAAACAGGAGCGGCCGGCUAGUUGCUCCGCACUGUAAAUGUAACUA
((((....((((.........))))....))))(((((((....(((((....)))))......................((((((((......))))))))..........))))))). (-29.12 = -29.62 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:48 2006