Locus 1991

Sequence ID 3L_DroMel_CAF1
Location 5,467,342 – 5,467,442
Length 100
Max. P 0.782804
window3118

overview

Window 8

Location 5,467,342 – 5,467,442
Length 100
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 86.38
Mean single sequence MFE -30.82
Consensus MFE -23.99
Energy contribution -24.52
Covariance contribution 0.53
Combinations/Pair 1.20
Mean z-score -1.81
Structure conservation index 0.78
SVM decision value 0.56
SVM RNA-class probability 0.782804
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5467342 100 - 23771897
GCCCACAUCGAUGGCUGUGCCACGCCCAC-----------CUUUUCUUAACUUCAACUUCAACUUGAAGUUGAGAAUGCAUUUGGUCCUGGCAAAAAGUUUUCGGCAAGCA
((.....((((..(((.(((((.(.(((.-----------...(((((((((((((.......)))))))))))))......))).).)))))...)))..))))...)). ( -33.50)
>DroSec_CAF1 28883 110 - 1
GCCCACAUCGAAAGCUGUGCCACGCCCACUCCGGAGUCUCCUUUUCUUAACUCCAACUUCAACUUGAAGUUGAGAAUGCAUUUGGUCCUGGUAA-AAGUUUUCGGCAAGCA
((.....(((((((((.(((((.(.(((....((.....))..(((((((((.(((.......))).)))))))))......))).).))))).-.)))))))))...)). ( -30.30)
>DroSim_CAF1 30519 110 - 1
GCCCACAUCGAAGGCUGUGCCACGCCCACUCCGGAGUCUCCUUUUCUUAACUUCAACUUCAACUUGAAGUUGAGAAUGCAUUUGGUCCUGGUAA-AAGUUUUCGGCAAGCA
((.....(((((((((.(((((.(.(((....((.....))..(((((((((((((.......)))))))))))))......))).).))))).-.)))))))))...)). ( -34.30)
>DroEre_CAF1 28383 109 - 1
GCCCACAUAGAAGCCGGCGCCACGCCCACUCCGCAG-CGCCUUGCCUUAACUUUAACUUCAACUUGAAGUUGGAAGUGCAUUUGGUCCUGGUAA-AAGUUUUCGGCAAGCA
(((.........(((((.((((....((((((((((-....)))).........((((((.....)))))))).))))....)))).)))))..-........)))..... ( -29.41)
>DroYak_CAF1 16220 109 - 1
GUCCACAUAAAAGGCUGUGCCACGCCCACUUUGGAG-CUCCAUGCCUUAAGUUUAACUUCAAGUUGAAGUUGGAAAUGCAUUUGGUCCUGGUAA-AAGUUUUCGGCAAGCA
.............(((.((((((....(((..(((.-(...((((......(((((((((.....)))))))))...))))..).))).)))..-..))....))))))). ( -26.60)
>consensus
GCCCACAUCGAAGGCUGUGCCACGCCCACUCCGGAG_CUCCUUUUCUUAACUUCAACUUCAACUUGAAGUUGAGAAUGCAUUUGGUCCUGGUAA_AAGUUUUCGGCAAGCA
(((......(((((((.(((((.(.(((....((.....))..........(((((((((.....)))))))))........))).).)))))...))))))))))..... (-23.99 = -24.52 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:57 2006