Locus 4336

Sequence ID 2R_DroMel_CAF1
Location 14,245,263 – 14,245,360
Length 97
Max. P 0.843183
window6949

overview

Window 9

Location 14,245,263 – 14,245,360
Length 97
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.33
Mean single sequence MFE -28.78
Consensus MFE -13.51
Energy contribution -14.87
Covariance contribution 1.36
Combinations/Pair 1.10
Mean z-score -2.84
Structure conservation index 0.47
SVM decision value 0.76
SVM RNA-class probability 0.843183
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14245263 97 + 20766785
--------------GAACGCAUCGUGAAAUCAGUCUUAAUUGGCACUAAUAAAAGGUGCUAAGUGG--CAUG--CAGAUGCCGU--AGACUGAAUCCGAAUCAAGUUCAGAAACAGA
--------------((((...(((.((..(((((((...((((((((.......))))))))..((--(((.--...)))))..--))))))).))))).....))))......... ( -31.30)
>DroSec_CAF1 2014 97 + 1
--------------GAACGCAUCGUGAAAUCAGUCUUAAUUGGCCCUAAUAAAAGGUGCUAAGUGG--CAUG--CAGAUGCCGU--AGACUGAAUCCGAAUCAAGUUCAGAAACAGA
--------------((((...(((.((..(((((((...((((((((......))).)))))..((--(((.--...)))))..--))))))).))))).....))))......... ( -30.30)
>DroSim_CAF1 2113 97 + 1
--------------GAACGCAUCGUGAAAUCAGUCUUAAUUGGCACUAAUAAAAGGUGCUAAGUGG--CAUG--CAGAUGCCGU--AGACUGAAUCCGAAUCAAGUUCAGAAACAGA
--------------((((...(((.((..(((((((...((((((((.......))))))))..((--(((.--...)))))..--))))))).))))).....))))......... ( -31.30)
>DroEre_CAF1 2181 111 + 1
GUGAAACGCAAACGGAACGCAUCGUGAAAUGAGUCUUAAUUGGCACUAAUAAAAGGUGCUAAGUGG--CAUG--CAGAUGCCGG--AGACUGAAUCCGAAUCAAAUUCAGAAACAGA
.((((.......((((.(((...)))...(.((((((..((((((((.......)))))))).(((--(((.--...)))))))--))))).).)))).......))))........ ( -29.24)
>DroYak_CAF1 2176 106 + 1
-----UCGCAAACGGAACGCAUCGUGAAAUGAGUCUUAAUUGGCACUAAUAAAAGGUGCUAAGUGG--CAUG--CAGAUGCCAG--AGUCGGAAUCCGAAUCAAAUUCAGAAACAGA
-----.......((((.(((...)))...(((.((....((((((((.......)))))))).(((--(((.--...)))))))--).)))...))))................... ( -26.10)
>DroPer_CAF1 1916 91 + 1
--------------GAAAACAGCUCGGAAUCAUUCUUAAUUGGCACUAAUAAAAGGCGCUAAGUGAGCGAUGCACAGAUGCCAGCCAGACCGAGAC------------UGAGACUGA
--------------.....((((((((..((..(((...((((((((.........((((.....))))......)).))))))..)))..))..)------------)))).))). ( -24.46)
>consensus
______________GAACGCAUCGUGAAAUCAGUCUUAAUUGGCACUAAUAAAAGGUGCUAAGUGG__CAUG__CAGAUGCCGG__AGACUGAAUCCGAAUCAAGUUCAGAAACAGA
..................(((((..........((....((((((((.......))))))))..))..........)))))........((((((.........))))))....... (-13.51 = -14.87 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:18 2006