Locus 4860

Sequence ID 2R_DroMel_CAF1
Location 15,921,405 – 15,921,505
Length 100
Max. P 0.627751
window7803

overview

Window 3

Location 15,921,405 – 15,921,505
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.99
Mean single sequence MFE -23.56
Consensus MFE -20.21
Energy contribution -23.21
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.86
SVM decision value 0.19
SVM RNA-class probability 0.627751
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15921405 100 + 20766785
------------------GGCGAGAU--UUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCCCAUUUAACACUUGCG
------------------.(((((((--(((.((((..........(((....))).........)))))))))....................(((((((....)))))))..))))). ( -24.01)
>DroPse_CAF1 50826 120 + 1
UAUAUCUCUCUCUCUCUCUGCGAGAUUUUUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCACAUUUAACACUUGCA
...................(((((....(((.((((..........(((....))).........)))))))((((((.((((((............))))))....)))))).))))). ( -23.31)
>DroEre_CAF1 47337 100 + 1
------------------GGCGAGAU--UUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCACAUUUAACACUUGCG
------------------.(((((((--(((.((((..........(((....))).........)))))))))....................(((((((....)))))))..))))). ( -23.51)
>DroYak_CAF1 50604 100 + 1
------------------GGCGAGAU--UUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCACAUUUAACACUUGCG
------------------.(((((((--(((.((((..........(((....))).........)))))))))....................(((((((....)))))))..))))). ( -23.51)
>DroAna_CAF1 42196 100 + 1
------------------AGCGAGAU--UUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCACAUUUAACACUUGCG
------------------.(((((((--(((.((((..........(((....))).........)))))))))....................(((((((....)))))))..))))). ( -23.71)
>DroPer_CAF1 50975 120 + 1
UAUCUCUCUCUCUCUCUCUGCGAGAUUUUUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCACAUUUAACACUUGCA
...................(((((....(((.((((..........(((....))).........)))))))((((((.((((((............))))))....)))))).))))). ( -23.31)
>consensus
__________________GGCGAGAU__UUGCGCUAAAACCACUUUGCGGUGACGCCAAAACUUCUAGCCAAGUUAAAAACUAUUGUCAUUCUCUUAAGUGGUCACAUUUAACACUUGCG
...................(((((....(((.((((..........(((....))).........)))))))((((((.((((((............))))))....)))))).))))). (-20.21 = -23.21 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:58 2006