Locus 1917

Sequence ID 3R_DroMel_CAF1
Location 5,439,694 – 5,439,805
Length 111
Max. P 0.956550
window3151

overview

Window 1

Location 5,439,694 – 5,439,805
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.26
Mean single sequence MFE -24.74
Consensus MFE -19.59
Energy contribution -19.91
Covariance contribution 0.32
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.79
SVM decision value 1.47
SVM RNA-class probability 0.956550
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5439694 111 + 27905053
CAAAUUAUCAUUUUGCACAAUCACCUCGAUCACUUCGGUGUCAGACACUCAC-----U----UGUUAAGGGUGUCACCGCCAAACACCUAUGGAUAAUUCAUACAUUCGUACUUGACGAU
..(((((((.(((.((...........((.(((....))))).(((((((..-----.----......)))))))...)).)))((....))))))))).......((((.....)))). ( -23.00)
>DroSec_CAF1 26244 108 + 1
CAAAUUAUCAUUUUGCACAAUCACCUCGAUCACUUCGGUGUCAGACACUCAC-----U----UGUUAAGGGUGUCACCGCGAAACACCUAUGGAUAAUUCAUACAUU---ACUUGACGAU
..(((((((.((((((...........((.(((....))))).(((((((..-----.----......)))))))...))))))((....)))))))))........---.......... ( -24.50)
>DroSim_CAF1 21404 111 + 1
CAAAUUAUCAUUUUGCACAAUCACCUCGAUCACUUCGGUGUCAGACACUCAC-----U----UGUUAAGGGUGUCACCGCCAAACACCUAUGGAUAAUUCAUACAUUCGUACUUGACGAU
..(((((((.(((.((...........((.(((....))))).(((((((..-----.----......)))))))...)).)))((....))))))))).......((((.....)))). ( -23.00)
>DroEre_CAF1 26858 120 + 1
CAAAUUAUCAUUUUGCACAAUCACCUCGAUCACUUCGGUGUCAGACACUCACUUCACUUCUCUGUAAAGGGUGUCACCGCAAAACACCUAUGGAUAAUUCAUUCAUUUGUACUUGACGAU
...((..(((((((((...........((.(((....))))).(((((.(.(((.((......)).)))))))))...)))))).((..((((((.....))))))..))...)))..)) ( -26.80)
>DroYak_CAF1 27283 115 + 1
CAAAUUAUCAUUUUGCACAAUCACCUCGAUCACUUCGGUGUCAGACACUCAC-----UUCUCUGUUAAGGGUGUCACCGCAAAACACCUAUGGAUAAUUCAUUCAUUUGUACUUGACGAU
...((..(((((((((...........((.(((....))))).(((((((((-----......))...)))))))...)))))).((..((((((.....))))))..))...)))..)) ( -26.40)
>consensus
CAAAUUAUCAUUUUGCACAAUCACCUCGAUCACUUCGGUGUCAGACACUCAC_____U____UGUUAAGGGUGUCACCGCAAAACACCUAUGGAUAAUUCAUACAUUCGUACUUGACGAU
..(((((((.((((((.....((((..((.....))))))...(((((((..................)))))))...))))))((....)))))))))..................... (-19.59 = -19.91 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:47 2006