Locus 6047

Sequence ID X_DroMel_CAF1
Location 15,516,203 – 15,516,322
Length 119
Max. P 0.983716
window9831

overview

Window 1

Location 15,516,203 – 15,516,322
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 78.00
Mean single sequence MFE -24.30
Consensus MFE -18.83
Energy contribution -18.45
Covariance contribution -0.38
Combinations/Pair 1.10
Mean z-score -2.17
Structure conservation index 0.77
SVM decision value 1.95
SVM RNA-class probability 0.983716
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15516203 119 - 22224390
CCCGACGCAAGUCGCACGCACACACACAGAGAAGUCUAAAAAAAAAUACGAAAAACUAAAAAAAGGAAACAAACAGACGACCUUUGGUGAAGUGCGUUUGUAAAUUUGUUUGCCAAAUC
..((((....)))).((((((.(((.(((((..((((............(.....)........(....)....))))...))))))))..))))))..(((((....)))))...... ( -28.30)
>DroSec_CAF1 76638 112 - 1
CCCGACGCAAGUCGCACAA--ACACACAAGGAAGCGUAAA---AAAUACGAAAAACUAAA--AACGAAACAAACAGGCGACCUUUGGUGAAGUGCGUUUGUAAAUUUGUUUGCCAAAUC
..((((....)))).....--........((...((((..---...)))).........(--((((((....(((((((..((((...))))..)))))))...))))))).))..... ( -23.60)
>DroSim_CAF1 88621 102 - 1
CCCGACGCAAGUCGCACAA--A----------GGCCUAAA---AAAUACGAACAACUAAA--AACGAAACAAACAGGCGACCUUUGGUGAAGUGCGUUUGUAAAUUUGUUUGCCAAAUC
...((((((..((((.(((--(----------(((((...---.....((..........--..))........))))...)))))))))..)))))).(((((....)))))...... ( -22.59)
>DroEre_CAF1 78550 92 - 1
CCCGACGCAAGUCGCGCA--------CAAA-------ACG---GAAGAA---------AAAAAAGGAAAUAAACAGGCGACCUUUGGUGAAGUGCGUUUGUAAAUUUGUUUGCCAAAUC
...(((....)))(((.(--------((((-------.(.---...)..---------..............(((((((..((((...))))..)))))))...))))).)))...... ( -22.70)
>consensus
CCCGACGCAAGUCGCACAA__A____CAAA__AGCCUAAA___AAAUACGAAAAACUAAA__AACGAAACAAACAGGCGACCUUUGGUGAAGUGCGUUUGUAAAUUUGUUUGCCAAAUC
..((((....))))....................................................(((((((((((((..((((...))))..)))))))....))))))........ (-18.83 = -18.45 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:55 2006