Locus 1300

Sequence ID X_DroMel_CAF1
Location 3,883,324 – 3,883,435
Length 111
Max. P 0.566253
window2080

overview

Window 0

Location 3,883,324 – 3,883,435
Length 111
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 85.63
Mean single sequence MFE -35.67
Consensus MFE -31.10
Energy contribution -31.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.87
SVM decision value 0.07
SVM RNA-class probability 0.566253
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3883324 111 - 22224390
AGAUGGAAAGUGGGU--G----GUGGCUGGUGGGUGGCCUCAAGUGAACAGCGAGUUCAUUAGCUGGCAAAGGGUUUAAUUACCUACUCUGUUCAUUUAGCGCCACUUGGCUAACGC
.............((--(----.(((((...(((((((((.(((((((((((.(((......))).))...((((......))))....))))))))))).)))))))))))).))) ( -37.90)
>DroSec_CAF1 1044 110 - 1
CGAUGGAAAGUGGGA--G----GGAGUGGGU-GGUGGCCUCAAGUGAACAGCGAGUUCAUUAGCUGGCAAAGGGUUUAAUUACCUACUCUGUUCAUUUAGCGCCACUUGGCUAACGC
((.(((.((((((..--.----(((((((((-(((.((((...(....).((.(((......))).))...))))...))))))))))))(((.....))).))))))..))).)). ( -37.20)
>DroEre_CAF1 1530 116 - 1
AGCUGGAAAAUGGGAAUGGGGGAAAGGGGGU-GGUGGCCUCAAGUGAACAGCGAGUUCAUUAGCUGGCAAAGGGUUUAAUUACCUACUCUGUUCAUUUAGCGCCACUUGGCUAACGC
.((((((......(((((((((..(((((((-....))))).(((((((.....)))))))..))..)...((((......)))).)))))))).))))))(((....)))...... ( -33.90)
>DroYak_CAF1 3551 99 - 1
----------U-------GGGAAAAGCGGGU-GGUGGCCUCAAGUGAACAGCGAGUUCAUUAGCUGGCAAAGGGUUUAAUUACCUACUCUGUUCAUUUAGCGCCACUUGGCUAACGC
----------.-------.......((((((-((((((((.(((((((((((.(((......))).))...((((......))))....))))))))))).))))))..)))..))) ( -33.70)
>consensus
AGAUGGAAAGUGGGA__G____AAAGCGGGU_GGUGGCCUCAAGUGAACAGCGAGUUCAUUAGCUGGCAAAGGGUUUAAUUACCUACUCUGUUCAUUUAGCGCCACUUGGCUAACGC
.........................(..(((..(((((((.(((((((((((.(((......))).))...((((......))))....))))))))))).)))))...)))..).. (-31.10 = -31.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:04 2006