Locus 3366

Sequence ID 2R_DroMel_CAF1
Location 11,408,777 – 11,408,888
Length 111
Max. P 0.554362
window5500

overview

Window 0

Location 11,408,777 – 11,408,888
Length 111
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 86.10
Mean single sequence MFE -33.44
Consensus MFE -21.63
Energy contribution -23.10
Covariance contribution 1.47
Combinations/Pair 1.10
Mean z-score -1.98
Structure conservation index 0.65
SVM decision value 0.04
SVM RNA-class probability 0.554362
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11408777 111 - 20766785
CCAGUCGGAGAUUUCUGAGCGGCAGAUGACAUUCUAUCUAGUAUG--UGUCUCGGGUUUAUUUGUCCUCUGCU--GCUGGCCAGCUCUAUUUGAAUAGUUCUCUGGCAAACUCCA
......((((.......(((((((((.((((....((((((....--...)).)))).....)))).))))))--))).(((((..((((....))))....)))))...)))). ( -38.50)
>DroSec_CAF1 21862 108 - 1
CCAGUCGGAGAUUUCUGAGCGGCAGAUGACAUUCUAUCU---AUG--UGUCUCGGGUUUAUUUGUCCUCUGCU--GCUGGCCAGCUCUAUUUGAAUAGUUCUCUGGCAAACUCCA
......((((.......(((((((((.((((....((((---...--......)))).....)))).))))))--))).(((((..((((....))))....)))))...)))). ( -37.50)
>DroSim_CAF1 21481 108 - 1
CCAGUCGGAGAUUUCUGAGCGGCAGAUGACAUUCUAUCU---AUG--UGUCUCGGGUUUAUUUGUCCUCUGCU--GCUGGCCAGCUCUAUUUGUAUAGUUCUCCGGCAAACUCCA
...((((((((...((((((((((((.((((....((((---...--......)))).....)))).))))))--)))...)))..((((....)))).))))))))........ ( -36.20)
>DroEre_CAF1 24429 110 - 1
CCAGCCGGAGAUUUCUGAGCGGCAGAUGACAUUCUAUCU---AUG--UGUCUCGGGUUUAUUUGUACUGUGCUGUGCUGCCCAGCUCUAUUUGAAUAGUUCGCUGGCAUGCCCUG
...(((((.((.(((.((((....((.(((((.......---..)--))))))((((......((((......)))).)))).)))).....)))....)).)))))........ ( -31.70)
>DroYak_CAF1 22937 97 - 1
CCAGUCGAAGAUUUCUGAGCGCCAGAUGACAUUCUAUCU---AUGUGUGUCUCGGGUGUAUUUGUGCUGGGC---------------UAUUUGAAUAGUUCUCUGACAAACUCCG
(((((((((....(((((((((((((((......)))).---.)).))).))))))....)))).)))))((---------------(((....)))))................ ( -23.30)
>consensus
CCAGUCGGAGAUUUCUGAGCGGCAGAUGACAUUCUAUCU___AUG__UGUCUCGGGUUUAUUUGUCCUCUGCU__GCUGGCCAGCUCUAUUUGAAUAGUUCUCUGGCAAACUCCA
...((((((((...(((..(((((((.((((....((((...((....))...)))).....)))).))))))..(((....))).......)..))).))))))))........ (-21.63 = -23.10 +   1.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:45 2006