Locus 5592

Sequence ID 2R_DroMel_CAF1
Location 17,862,327 – 17,862,431
Length 104
Max. P 0.544470
window8955

overview

Window 5

Location 17,862,327 – 17,862,431
Length 104
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 84.31
Mean single sequence MFE -35.48
Consensus MFE -22.23
Energy contribution -22.22
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.63
SVM decision value 0.02
SVM RNA-class probability 0.544470
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17862327 104 + 20766785
GGCGUCCAUGUGACGUCACGAAAGCUUAGGCACAGCGAGAUGGG-AAAAAGGAUACAAGAG-------CGCCCAUGCGCAUUGGCGAAAGCUCGC--AAUCGCUGGAG---AAAUAG
((((((.....))))))......((....)).((((((..((.(-(.........(((..(-------(((....)))).)))((....)))).)--).))))))...---...... ( -34.70)
>DroSec_CAF1 27650 104 + 1
GGCGUCCCUGUGACGUCACUAAAGCUUAGGCACAGCGAGAUGGG-AAAAAGGAUACGAGAG-------CGCUCCUGCGCAUUGGCGAAAGCUCGC--AAUCGCUGGAG---AAAUAC
((((((.....))))))......((....)).((((((..((.(-(.........(((..(-------(((....)))).)))((....)))).)--).))))))...---...... ( -35.60)
>DroEre_CAF1 30252 104 + 1
GGCGUCCCUGUGACGUCACAAAAGCUUAAGCACAGCUAGAUGGG-AAAAAGGACGAGAGAG-------CGCUCCUGCGCACUGGCGAAAGCUCGC--AAGCGCUGGAG---AACUAA
..(((((.((((....))))..((((.......)))).......-.....)))))....((-------..((((.((((.(.(((....))).).--..)))).))))---..)).. ( -34.30)
>DroYak_CAF1 26304 117 + 1
GGCGUCCCUGUGACGUCACAAAAGCUUGAGCACAGCUAGAUGGGCAAAAAGGAUACGAGAGCGCAUUGCGCUUCUGCGCAUUGGCAAAAGCUCACACAGACGCUGGAGACGAAAUAG
((((((..((((....))))...(..(((((...(((.....)))...............((.((.(((((....))))).))))....)))))..).))))))(....)....... ( -37.30)
>consensus
GGCGUCCCUGUGACGUCACAAAAGCUUAAGCACAGCGAGAUGGG_AAAAAGGAUACGAGAG_______CGCUCCUGCGCAUUGGCGAAAGCUCGC__AAUCGCUGGAG___AAAUAG
((((((.....))))))......((....)).((((................................(((....)))....(((....))).........))))............ (-22.23 = -22.22 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:22 2006