Locus 5948

Sequence ID 3R_DroMel_CAF1
Location 15,689,805 – 15,689,910
Length 105
Max. P 0.500000
window9705

overview

Window 5

Location 15,689,805 – 15,689,910
Length 105
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 82.05
Mean single sequence MFE -30.53
Consensus MFE -20.38
Energy contribution -20.13
Covariance contribution -0.24
Combinations/Pair 1.34
Mean z-score -1.44
Structure conservation index 0.67
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15689805 105 + 27905053
GGGGCGUUCCCCCUCUACUCCUUUUGCUCCGCUUAUUGCGACUAUAGUCGCGAUAAUUAAAAAUGCGCAAUGAGUUGCAGUUUUCAUUG-------UUCAACUGCGCUGAUU
((((.....)))).............(..(((((((((((((....)))))))))).......((.((((((((........)))))))-------).))...)))..)... ( -31.10)
>DroSec_CAF1 217581 105 + 1
GGGGCGUUCUCCCUCGACUCCUUUUGCUCCGCUUACUGCGACUAUAGUCGCGAUAAUUAGAAAUGCGCAAUGAGUUGCAGUUUUCAUUG-------UUCAACUGCGCUGAUU
((((((........)).)))).....(..((((((.((((((....)))))).))).......((.((((((((........)))))))-------).))...)))..)... ( -26.80)
>DroSim_CAF1 213528 105 + 1
GGGGCGUUCUCCCUCGGCUCCUUUUGCUCCGCUUAUUGCGACUAUAGUCGCGAUAAUUAGAAAUGCGCAAUGAGUUGCAGUUUUCAUUG-------UUCAACUGCGCUGAUU
((((.....))))(((((.......(((((((((((((((((....))))))))))........)))....)))).((((((.......-------...))))))))))).. ( -32.60)
>DroEre_CAF1 195180 105 + 1
GGGGCGUUCCCCCUCGACUCCUUUUACUCCGCUUAUGGCGACUAUGGUCGCCAUAAUUACAAAUGCGCAAUAAGUUGCAGUUUUCAUUG-------UUCCACUGCGGUGACU
((((.....)))).............(.((((((((((((((....))))))))))..........((((....))))...........-------.......)))).)... ( -32.70)
>DroYak_CAF1 216945 105 + 1
GGGACGUUCCCCGUCGACAGCUUUUACCCCGUUAAUGGCGACUACAGUCGCGAUAAUUAGAAAUGCGCAAUGAGUUGCAGUUUUCAUUG-------UUCAACUGCGCUGAUU
(((......))).....((((.............((.(((((....))))).)).........((.((((((((........)))))))-------).)).....))))... ( -28.40)
>DroAna_CAF1 211434 100 + 1
GGGGCGUUCCUCCGCCACA------------GAUACCACGGCUAUCGCCGCGAUAAUUAGAAAUGCGCAAUGAGUUGCGAUUUUCAUUGUUUGUUGUUCGGCUGCGCUGCUC
(.(((((..((..((.(((------------((((.(.((((....)))).).......((((..(((((....)))))..))))..))))))).))..))..))))).).. ( -31.60)
>consensus
GGGGCGUUCCCCCUCGACUCCUUUUGCUCCGCUUAUUGCGACUAUAGUCGCGAUAAUUAGAAAUGCGCAAUGAGUUGCAGUUUUCAUUG_______UUCAACUGCGCUGAUU
((((....)))).((.................((((((((((....))))))))))........(((((....((((((((....)))).........))))))))).)).. (-20.38 = -20.13 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:40 2006