Locus 4670

Sequence ID X_DroMel_CAF1
Location 12,190,233 – 12,190,325
Length 92
Max. P 0.749737
window7662

overview

Window 2

Location 12,190,233 – 12,190,325
Length 92
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 82.59
Mean single sequence MFE -29.05
Consensus MFE -20.25
Energy contribution -19.75
Covariance contribution -0.50
Combinations/Pair 1.19
Mean z-score -1.81
Structure conservation index 0.70
SVM decision value 0.47
SVM RNA-class probability 0.749737
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12190233 92 + 22224390
CCCCCCAUUCAUAUAUAUGCCUCUGCGGCGCUCCUUUUUCAG-------CUAUCUGAGUUGAGCAGAGCAGA-----GCAGAUCCCGAGAUCCAAAUCCGGGAU
.................(((.(((((...((((....(((((-------....)))))..))))...)))))-----))).((((((.(((....))))))))) ( -30.50)
>DroSec_CAF1 16571 98 + 1
-CUCCCAUUCAUAUAUAUGCCUCUGCGGCGUUCCUUUUUCAGUCCACCGCUAUCUGAGUUGAGCAGAGCAGA-----GCAGAUCCCGAGAUCCAAAUCCGGGAU
-................(((.(((((...((((....(((((...........)))))..))))...)))))-----))).((((((.(((....))))))))) ( -28.10)
>DroEre_CAF1 16446 93 + 1
UC-GCCACUCACAUAUAUGCCUCUGCGACGCUCCUUCUUCAGUCCACGGCUAUCUGAGUUCAGCAGAGCAG----------AUCCCGAGAUCCAAAUCCGGGAU
..-..............(((.(((((...((((.......(((.....)))....))))...)))))))).----------((((((.(((....))))))))) ( -25.70)
>DroYak_CAF1 892 104 + 1
ACACCCAUUCAUAUAUAUGCCUCUGCGGCGCUCCUUUUUCAAUCCACCGCUAUCUGAGUGGAGCAGAGCGGAGGAGAGCGGGUCCUGAUAUCCAAAUCCGGGAU
...(((............(((.....)))((((.........(((.(((((.(((....)))....))))).))))))))))(((((...........))))). ( -31.90)
>consensus
_C_CCCAUUCAUAUAUAUGCCUCUGCGGCGCUCCUUUUUCAGUCCACCGCUAUCUGAGUUGAGCAGAGCAGA_____GCAGAUCCCGAGAUCCAAAUCCGGGAU
.................(((.(((((...((((......................))))...))))))))...........((((((.(((....))))))))) (-20.25 = -19.75 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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