Locus 2908

Sequence ID 3R_DroMel_CAF1
Location 7,791,528 – 7,791,647
Length 119
Max. P 0.853480
window4687

overview

Window 7

Location 7,791,528 – 7,791,647
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 80.11
Mean single sequence MFE -40.00
Consensus MFE -27.99
Energy contribution -27.10
Covariance contribution -0.89
Combinations/Pair 1.35
Mean z-score -1.85
Structure conservation index 0.70
SVM decision value 0.80
SVM RNA-class probability 0.853480
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7791528 119 + 27905053
GCCACCAGCGGCGGGCAAAUUAAAGCUAGGCUCGUUUAACGCAUCCUUAACUUCGUGAGCGCCCGAAUCCUCGAUGGGUUUGGGAGCUACGCCUACAUUUUUGUUGCCCUCCAUAUCAU
(((......)))((((((...(((..(((((.((.....)).............((.(((.(((((((((.....))))))))).))))))))))..)))...)))))).......... ( -43.30)
>DroPse_CAF1 1969 114 + 1
-----CCGCUGCAGGCAAAUUGAAACUGGGCUCGUUCAUGGCAUCUUUGACUUCGUGUGCACCCGAGUCCUCAAUGGGUUUGGGGCCCACGCCCAAGUUCUUGUUGUUCUCGAGAUCAU
-----....((..(((((...(((..(((((..((.....))............(((.((.(((((..((.....))..))))))).))))))))..)))...)))))..))....... ( -35.60)
>DroSim_CAF1 1981 119 + 1
GCCACCAGCGGCGGGCAAAUUAAAGCUGGGCUCGUUUAACGCGUCCUUAACUUCAUGGGCGCCCGAAUCCUCGAUGGGUUUGGGUGCUACACCUACAUUUUUGUUGCCCUCCAUAUCAU
(((......)))((((((...((((..((((.((.....)).))))...........(((((((((((((.....))))))))))))).........))))..)))))).......... ( -45.20)
>DroYak_CAF1 2035 119 + 1
GCCACCAGCGGCAGGCAAAUUAAAGCUGAGCUCGUUCAACGCGUCCUUAACUUCGUGUGCACCCGAAUCCUCAAGAGGUUUGGGUGCCACACCUACAUUUUUGUUGCCCUCCAUAUCAU
(((......))).(((((....(((.((((..(((.....)))..)))).))).(((((((((((((.(((....))))))))))).)))))...........)))))........... ( -39.70)
>DroAna_CAF1 30874 119 + 1
ACCUCCGGCUGCCGGUAGAUUAAAACUGGGCUCGUUCAACGCGUCUUUGACUUCAUGUGCGCCCGAGUCCUCGAGCGGCUUAGGCGCCACGCCCAAGUUUCGAUUGUUCUCCAGAUCAU
....((((...))))..(((..(((((((((...........(((...))).....(((((((..(((((....).))))..)))).))))))).)))))..))).............. ( -36.40)
>DroPer_CAF1 1975 114 + 1
-----CGGCUGCAGGCAAAUUGAAGCUGGGCUCGUUCAUGGCAUCUUUGACUUCGUGUGCACCCGAGUCCUCAAUGGGUUUGGGGGCCACGCCCAAGUUCUUGUUGUUCUCGAGAUCAU
-----(((((.(((.....))).)))))((((((...(..(((.....(((((((((.((.(((((..((.....))..))))).))))))...)))))..)))..)...)))).)).. ( -39.80)
>consensus
GCCACCAGCGGCAGGCAAAUUAAAGCUGGGCUCGUUCAACGCAUCCUUAACUUCGUGUGCACCCGAAUCCUCAAUGGGUUUGGGGGCCACGCCCAAAUUUUUGUUGCCCUCCAGAUCAU
.........((..(((((...(((..(((((..((.....))............(((.((.(((((((((.....))))))))).))))))))))..)))...)))))..))....... (-27.99 = -27.10 +  -0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:34 2006