Locus 6040

Sequence ID 3L_DroMel_CAF1
Location 16,109,086 – 16,109,183
Length 97
Max. P 0.728095
window9671

overview

Window 1

Location 16,109,086 – 16,109,183
Length 97
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 67.96
Mean single sequence MFE -21.60
Consensus MFE -8.76
Energy contribution -9.12
Covariance contribution 0.36
Combinations/Pair 1.18
Mean z-score -1.82
Structure conservation index 0.41
SVM decision value 0.42
SVM RNA-class probability 0.728095
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16109086 97 + 23771897
CAGCGAAAUGAAGUAACUUUCCAAGUGGGAAAGAUGAAGCCGAUUGGGAAGGUGGCGCAG-AGAAAAAGUUUGUGACGUCACUUUUAGGACGUUGAUU
(((((...(((((...((((((((.(((...........))).))))))))((((((((.-(((.....))).)).)))))))))))...)))))... ( -28.80)
>DroSec_CAF1 11349 97 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGAGGUGGCGCAG-GGAAAAAGUUUGUGACGUCACUUUAAGGACGUUGAUC
................................................(((((((((((.-(((.....))).)).)))))))))............. ( -13.90)
>DroSim_CAF1 11300 97 + 1
AAGCGAAAUGAAGUAACUUUCCAAGUGGGAAAGAUGAAACCGAUUGGGAAGGUGGCGCAG-GGAAAAAGUUUGUGACGUCACUUUAAGGACGUUGAUC
.((((...........((((((((.(((...........))).))))))))((((((((.-(((.....))).)).))))))........)))).... ( -26.20)
>DroEre_CAF1 11350 96 + 1
AAGCGAAUUGAAGUGACAGUGCAAGUGAGAAGAUGGAACC--GUUGGGAAGGUGGCGCAGAAGAAAAAGAUUGUGACGUCACUAAUAGGACUUUGAUA
......((..((((.................((((....)--))).....(((((((((.((........)).)).)))))))......))))..)). ( -19.40)
>DroYak_CAF1 16007 98 + 1
AAGCCAACUGAAGUGACAGUGGAAGUGCGAAGGAAGAAACAGAUUGGGAAGGUGACGCAAAAGAAAAAGGUUGUGACGUCACUUAUAGGACGUUGGUA
..((((((........((((.(.....(....)......)..))))...((((((((((...((......)).)).)))))))).......)))))). ( -19.70)
>consensus
AAGCGAAAUGAAGUAACAGUCCAAGUGGGAAAGAUGAAAC_GAUUGGGAAGGUGGCGCAG_AGAAAAAGUUUGUGACGUCACUUUUAGGACGUUGAUA
................................................(((((((((((..............)).)))))))))............. ( -8.76 =  -9.12 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:42 2006