Locus 4608

Sequence ID 3R_DroMel_CAF1
Location 12,114,841 – 12,114,951
Length 110
Max. P 0.574260
window7573

overview

Window 3

Location 12,114,841 – 12,114,951
Length 110
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 90.96
Mean single sequence MFE -23.70
Consensus MFE -17.62
Energy contribution -19.02
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.574260
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12114841 110 - 27905053
GAAACAGAUAUUGUGUUAUUGUUAUAGGUGGGCGUUACUAUCGACUCAUAAAUAAGUUUUUAUUCUUGUCCCAGUAAGA-----AAAAAAG-AACCCAGGACAAUGACACAGAAAC
..........(((((((((((((...((((((((.......)).))).........(((((.((((((......)))))-----).)))))-.)))...))))))))))))).... ( -26.80)
>DroSec_CAF1 20894 110 - 1
GAAACAGAUAUUGUGUUAUUGUUAUAGGUGGGCGUUACUAUCGACUCAUAAAUAAGUUUUUAUUAUUGUCCCAGUAAGA-----AAAAAAG-AACCCAGGACAAUGACACAGAAAC
..........(((((((((((((...((((((((.......)).))).........(((((.((((((...)))))).)-----))))...-.)))...))))))))))))).... ( -25.40)
>DroSim_CAF1 20842 113 - 1
GAAACAGAUAUUGUGAUAUUGUUAUAGGUGGGCGUUACUAUCGACUCAUAAAUAAGUUUUUAUUCUUGUCCCAGUAAGAGAA--AAAAAAG-AACCCAGGACAAUGACACAGAAAC
..........(((((.(((((((...((((((((.......)).))).........(((((.((((((......)))))).)--))))...-.)))...))))))).))))).... ( -22.20)
>DroEre_CAF1 20452 113 - 1
GAAACAGAUAUUG--UUAUUGUUAUAGGUGGGCGUUACUAUCGACUGAUAAAUAAGAUUUUAUUCUUGUCUUAGUAAGAACAGUAAGAAAU-AACCCAGGACAAUGACACAGAAAC
...........((--((((((((...(((.....(((((.((.(((((...((((((......)))))).)))))..))..))))).....-.)))...))))))))))....... ( -23.60)
>DroYak_CAF1 25466 112 - 1
GAAACAGAUGUUG--UUAUUGUUAUAGGUGGGCGUUACUAACGACUCAUAAAUAAGUUUUCAUUCUUGUCCCAGUAAGUACAA--AAAAAUAAACCCAGGACAAUGACACAGAAAC
........(((.(--((((((((...(((((((((.....))).)))....(((((........)))))..............--........)))...))))))))))))..... ( -20.50)
>consensus
GAAACAGAUAUUGUGUUAUUGUUAUAGGUGGGCGUUACUAUCGACUCAUAAAUAAGUUUUUAUUCUUGUCCCAGUAAGA__A__AAAAAAG_AACCCAGGACAAUGACACAGAAAC
..........(((((((((((((...((((((((.......)).)))....(((((........)))))........................)))...))))))))))))).... (-17.62 = -19.02 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:30 2006