Locus 5852

Sequence ID 2R_DroMel_CAF1
Location 18,510,608 – 18,510,714
Length 106
Max. P 0.825301
window9398

overview

Window 8

Location 18,510,608 – 18,510,714
Length 106
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 90.42
Mean single sequence MFE -32.62
Consensus MFE -25.58
Energy contribution -27.62
Covariance contribution 2.04
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.78
SVM decision value 0.70
SVM RNA-class probability 0.825301
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18510608 106 - 20766785
GCGUAAUGAUCCAGAAAACCGAAAAGUCGGCGGCAAA---AGCUUCUUUCUCACGUUAAGCGCCUGUACCUAGGCAAUGGC-CAAAUCCCAUUCCGGGCCAGGCCAACAA
((.(((((....(((((.((((....)))).(((...---.)))..)))))..))))).))(((((....)))))..((((-(....(((.....)))...))))).... ( -31.40)
>DroSec_CAF1 9546 106 - 1
GCGUAAUGAUCCAGAAAACCGAAAAGUCGGCGGCAAA---AGCUUCUUUCUCACGUUAAGCGCCUGGACCUAGGCAAUGGC-CAAGUCCCAUUCCGGGCCAGGUCAACAA
((.(((((....(((((.((((....)))).(((...---.)))..)))))..))))).))((((((.(((.((.(((((.-......))))))))))))))))...... ( -32.30)
>DroSim_CAF1 7787 106 - 1
GCGUAAUGAUCCAGAAAACCGAAAAGUCGGCGGCAAA---AGCUUCUUUCUCACGUUAAGCGCCUGGACCUAGGCAAUGGC-CAAGUCCCAUUCCGGGCCAGGCCAACAA
((.(((((....(((((.((((....)))).(((...---.)))..)))))..))))).))((((((.(((.((.(((((.-......))))))))))))))))...... ( -34.40)
>DroEre_CAF1 12737 99 - 1
GCGUAAUGAUCCAGAA-ACCGAAAAAUCGGCGGCAAA---AGCUUCUUUCUCACGUUUAGCGCCUGGGCCUGGGC-------CAAAUCCAAUUCCGGGCCAGGCCAACAA
((((((((....((((-(((((....)))).(((...---.)))..)))))..))))..))))...(((((((.(-------(............)).)))))))..... ( -31.50)
>DroYak_CAF1 15218 109 - 1
GCGUAAUGAUCCAGAA-ACCGAAAAUCCAGCGGCAAAUUCGGCUUCUUUCUCACGUUUAGCGCCUGGGCCUAGGCAAUGGCCAAAAUCCCAUUCCGGGCCAGGCCAACAA
((((...((...((((-.(((((...((...))....))))).)))).))..))))...(.((((((.(((.((.(((((........)))))))))))))))))..... ( -33.50)
>consensus
GCGUAAUGAUCCAGAAAACCGAAAAGUCGGCGGCAAA___AGCUUCUUUCUCACGUUAAGCGCCUGGACCUAGGCAAUGGC_CAAAUCCCAUUCCGGGCCAGGCCAACAA
((.(((((....(((((.(((......))).(((.......)))..)))))..))))).))((((((.(((.((.(((((........))))))))))))))))...... (-25.58 = -27.62 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:27 2006