Locus 3798

Sequence ID 3R_DroMel_CAF1
Location 10,318,274 – 10,318,377
Length 103
Max. P 0.853067
window6092

overview

Window 2

Location 10,318,274 – 10,318,377
Length 103
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 80.49
Mean single sequence MFE -29.69
Consensus MFE -25.08
Energy contribution -24.84
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.72
Structure conservation index 0.84
SVM decision value 0.80
SVM RNA-class probability 0.853067
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10318274 103 + 27905053
GACGCUCGCGGCUUAGUUACACUUUGUUACUUUGUUGUGGGCGCGUGCAGACAAUCAGGUGCACUUCAAAAAAAUGUUGAUAGCUUAG-AGAAAAA-CUGGAU----------AU
(.((((((((((..(((.((.....)).)))..)))))))))))((.(((....((((((.....((((.......))))..)))).)-)......-))).))----------.. ( -26.00)
>DroSec_CAF1 175119 114 + 1
GACGCUCGCGGCUUAGUUACACUUUGUUACUUUGUUGUGGGCGCGUGCAGACAAUCAGGUGCACUUCAAAAAAAUUUAGAUAGCUUAC-AGAAAAAAAUGGGUUUUAUAGAAUAU
(.((((((((((..(((.((.....)).)))..)))))))))))(((((..(.....).)))))..........((((...((((((.-.........))))))...)))).... ( -27.70)
>DroSim_CAF1 175609 113 + 1
GACGCUCGCGGCUUAGUUACACUUUGUUACUUUGUUGUGGGCGCGUGCAGACAAUCAGGUGCACUUCAAAAAAAUGUAGAUAGCUUGG-AGAAAAA-CUUGAUUUUAUAGAAUAU
(.((((((((((..(((.((.....)).)))..)))))))))))........((((((((...((((((...............))))-))....)-)))))))........... ( -30.06)
>DroEre_CAF1 175282 103 + 1
GACGCUCGCAGCUAAGUUACACUUUGUUACUUGGUUGUGGGCGCGUGCAGACAAUCAGGUGCACUUGAAA-AAACGUAGGCGGCUUAGCAGGAAAC-CUGGAA----------AU
(.(((((((((((((((.((.....)).))))))))))))))))..........((((((...((((..(-(..((....))..))..))))..))-))))..----------.. ( -38.60)
>DroYak_CAF1 184994 85 + 1
GACGCUCGCAGCUAAGUUACACUUUGUUACUUUGUUGUGGGCGCGUGCAGACAAUCAGGUGCACUUCAAA-AAAUGUAAGUAGCUU-----------------------------
(.((((((((((.((((.((.....)).)))).)))))))))))(((((..(.....).)))))......-...............----------------------------- ( -26.10)
>consensus
GACGCUCGCGGCUUAGUUACACUUUGUUACUUUGUUGUGGGCGCGUGCAGACAAUCAGGUGCACUUCAAAAAAAUGUAGAUAGCUUAG_AGAAAAA_CUGGAU__________AU
(.((((((((((..(((.((.....)).)))..)))))))))))(((((..(.....).)))))................................................... (-25.08 = -24.84 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:24 2006