Locus 7441

Sequence ID 3R_DroMel_CAF1
Location 19,809,521 – 19,809,627
Length 106
Max. P 0.999420
window12032

overview

Window 2

Location 19,809,521 – 19,809,627
Length 106
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 75.14
Mean single sequence MFE -53.36
Consensus MFE -40.68
Energy contribution -43.56
Covariance contribution 2.88
Combinations/Pair 1.20
Mean z-score -4.67
Structure conservation index 0.76
SVM decision value 3.59
SVM RNA-class probability 0.999420
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19809521 106 + 27905053
CCAAAUCCAAGCCCAAUCCGUCCCUAGUCCCGCCCCUUG-CGAAUCCGCUUGCGGAUUUGU-GGGGGUGGGGUGUGGGGCGGCUGGGUGGGAGUUUGAUCAU---AACACA
.((((..(..(((((..(((((((...((((((((((.(-((((((((....)))))))))-))))))))))...))))))).)))))..)..)))).....---...... ( -60.40)
>DroSec_CAF1 39983 106 + 1
CCAAAUCCAAGCCCAAUCCGUCCCUGGUCUCGCCCCCUG-CGAAUCCGCAUGCGGAUUUGU-GGGGGUGGGGUAUGGGGCGGCUGGGUGGGAGUUUGAUCUU---AACACA
.((((..(..(((((..(((((((...((((((((((.(-((((((((....)))))))))-))))))))))...))))))).)))))..)..)))).....---...... ( -60.30)
>DroSim_CAF1 40060 106 + 1
CCAAAUCCAAGCCCAAUCCGUCCCUGGUCUCGCCCCCUG-CGAAUCCGCUUGUGGAUUUGG-GGGGGUGGGGUAUGGGGNNNNNNNNNNNNNNNNNNNNNNN---NNNNNN
.....((((.((((...(((....)))...((((((((.-((((((((....)))))))))-))))))))))).))))........................---...... ( -38.10)
>DroEre_CAF1 40618 107 + 1
CCAAAUUCAAGCCCAUUCUGUCC-UGGCUCCGCCCCCUUCCGAUUCCGUAUGCGAAUUAGGUGGGGGUGGGGUGUGGGGCGGACGGGUGGGAGUUUGAUCUU---UACACA
.(((((((..((((..(((((((-(((((((((((((.((..((((.(....)))))..)).))))))))))).))))))))).))))..))))))).....---...... ( -54.90)
>DroYak_CAF1 40746 109 + 1
CCAAAUUCAAGCCCAUUCUGUCC-UGGCUCCGUCCCCCU-CGAUUCCCGGUGCGGAUUAGUGGGGGGUGGGGUGUGGGGCGGACGGGUGGGAGUUUGAUCUUAUAUACACA
.(((((((..((((..(((((((-(((((((..(((((.-(...(((......)))...).)))))..))))).))))))))).))))..))))))).............. ( -53.10)
>consensus
CCAAAUCCAAGCCCAAUCCGUCCCUGGUCCCGCCCCCUG_CGAAUCCGCAUGCGGAUUUGU_GGGGGUGGGGUGUGGGGCGGACGGGUGGGAGUUUGAUCUU___AACACA
.(((((.(..((((...(((((((...((((((((((...((((((((....))))))))..))))))))))...)))))))..))))..).))))).............. (-40.68 = -43.56 +   2.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:07 2006