Locus 8276

Sequence ID 3R_DroMel_CAF1
Location 22,141,397 – 22,141,517
Length 120
Max. P 0.986474
window13346

overview

Window 6

Location 22,141,397 – 22,141,517
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -35.06
Consensus MFE -33.08
Energy contribution -32.28
Covariance contribution -0.80
Combinations/Pair 1.17
Mean z-score -1.59
Structure conservation index 0.94
SVM decision value 2.04
SVM RNA-class probability 0.986474
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22141397 120 - 27905053
GGCAGUCCCUUUCCAACCACAAAGUUCUUUGGGCUCAUCUAACGAGCAGUUUGAGCCCUUGUCUAGGUCAUUUGGCCAGCAAUGACCCUUAUAAUGCGCUUAAUUUGCGUAUGAUGAGUU
(((((...((((........))))......(((((((...(((.....)))))))))))))))..(((((((........)))))))(((((.((((((.......)))))).))))).. ( -34.80)
>DroSec_CAF1 71783 120 - 1
CGCAGUCUCUUUCCAACCACAAAGUUCACUGGGCUCAUCUAACGAGCAGUUUGAGCCCUUGUCUAGGUCAUUUGGCUAGCAAUGAGCCUUAUAAUGCGUUUAAUUUGCGUAUGAUGAGUU
.......................(((((..(((((((...(((.....))))))))))(((.((((.((....))))))))))))))(((((.((((((.......)))))).))))).. ( -31.40)
>DroSim_CAF1 64787 120 - 1
GGCAGUCCCUUUCCAACCACAAAGUUCACUGGGCUCAUCUAACGAGCAGUUUGAGCCCUUGUCUAGGUCAUUUGGCUAGCAAUGAGCCUUAUAAUGCGCUUAAUUUGCGUAUGAUGAGUU
.......................(((((..(((((((...(((.....))))))))))(((.((((.((....))))))))))))))(((((.((((((.......)))))).))))).. ( -33.50)
>DroEre_CAF1 67044 120 - 1
GGCAUUCUCUUCCCAGCCACAAAGUUCACUGGGCUCAUCUAACGAGCAGUUUGAGCCCUUGUCUAGGCCAUUUGGCCAGCGAUGAGCCUUAUAAUGCGCUUAAUUUGCGUAUGAUGAGUU
(((............))).....(((((..(((((((...(((.....))))))))))(((.((.((((....))))))))))))))(((((.((((((.......)))))).))))).. ( -41.10)
>DroYak_CAF1 64353 120 - 1
GGCACUCUCUUCCCAACCACAAAGUUCACUGGGUUCAUCUAACGAGCAGUUUGAGUCCUUGUCUAGGCCAUUUGGCCAGCGAUGAGCCUUAUAAUGCGCUUAAUUUGCGUAUGAUGAGCU
......................((((((..(((((((((..(((((...........)))))...((((....))))...)))))))))....((((((.......))))))..)))))) ( -34.50)
>consensus
GGCAGUCUCUUUCCAACCACAAAGUUCACUGGGCUCAUCUAACGAGCAGUUUGAGCCCUUGUCUAGGUCAUUUGGCCAGCAAUGAGCCUUAUAAUGCGCUUAAUUUGCGUAUGAUGAGUU
.......................(((((..(((((((...(((.....))))))))))(((.((.((((....))))))))))))))(((((.((((((.......)))))).))))).. (-33.08 = -32.28 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:35 2006