Locus 1843

Sequence ID X_DroMel_CAF1
Location 5,088,110 – 5,088,210
Length 100
Max. P 0.698220
window2998

overview

Window 8

Location 5,088,110 – 5,088,210
Length 100
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 84.53
Mean single sequence MFE -27.18
Consensus MFE -19.33
Energy contribution -19.82
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.71
SVM decision value 0.35
SVM RNA-class probability 0.698220
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5088110 100 + 22224390
CCAGAGAGCCAAGUCCAGGAAAAU------CGUACAAAUUAUUAGCUUUUGUCUGCACAGGCAAAUAAAUGGGCGGCACUUUGGAAACUUGGUGUUUCUCUAUUCU
..(((((((((((((((((....(------((..((..(((((.((((.((....)).)))).))))).))..)))...))))))..))))))...)))))..... ( -27.90)
>DroSec_CAF1 5255 100 + 1
CCAGAGAGCCAAGUCCAGGAGAAU------CGUACAAAUUAUUAGCUUUUGUCUGCACAGGCAAGCAAAUGGGCGGCACUUUGGAAACUUGGUGUUUCUCUAUUCU
..((((((((((((((((.((..(------(((.....(((((.(((..(((((....)))))))).)))))))))..)))))))..))))))...)))))..... ( -28.30)
>DroEre_CAF1 5356 89 + 1
CCAGAGAGCCAAGUCCAGAAAAAU------CCUACAAAUUAUAAGCUUUUGUCUGCCCAGGCA----AAUGGGCGGCACUUGGGAAAUUUGGUGUUUCU-------
(((((...((((((((........------...(((((.........)))))..(((((....----..))))))).))))))....))))).......------- ( -25.60)
>DroYak_CAF1 6122 102 + 1
CCAGAUAGCCAAGUCCAGGAAAACGUAAUACGUACAAAUUAUUAGCAUUUGUCUGCACAGGCA----AAUGGGCGGCACUAUGGAAAUUUGGUGUUUCUGUAUUUU
.((((..(((((.((((.....(((.....)))............(((((((((....)))))----))))..........))))...)))))...))))...... ( -26.90)
>consensus
CCAGAGAGCCAAGUCCAGGAAAAU______CGUACAAAUUAUUAGCUUUUGUCUGCACAGGCA____AAUGGGCGGCACUUUGGAAACUUGGUGUUUCUCUAUUCU
.(((((.(((..(((((................(((((.........))))).(((....)))......)))))))).)))))(((((.....)))))........ (-19.33 = -19.82 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:03 2006