Locus 7802

Sequence ID	3R_DroMel_CAF1
Location	20,915,802 – 20,915,906
Length	104
Max. P	0.950697

overview

Window 2

Location	20,915,802 – 20,915,906
Length	104
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	93.73
Mean single sequence MFE	-37.73
Consensus MFE	-35.38
Energy contribution	-35.62
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.98
Structure conservation index	0.94
SVM decision value	1.40
SVM RNA-class probability	0.950697
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20915802 104 + 27905053
GUGGGCAAGGCGGCGCAGCG--GCUAAGUAGCUUCAACACCGAAAACUAGUUUCACACACAGACUAGUUUGCACUCGAGC--------UCGGCUCGGGUGUUGAUGCUGAUUAA
........(((.((...)).--)))...((((.(((((((((.((((((((((.......)))))))))).)...(((((--------...))))))))))))).))))..... ( -38.00)
>DroSim_CAF1 7561 104 + 1
GUGGGCAAGGCGGCGCAGCG--GCUAAGUAGCUUCAACACCGAAAACUAGUUUCACACACAGACUAGCUUGCACUCGAGC--------UCGGCUCGGGUGUUGAUGCUGAUUAA
........(((.((...)).--)))...((((.((((((((.....(((((((.......)))))))........(((((--------...))))))))))))).))))..... ( -34.00)
>DroEre_CAF1 7426 104 + 1
GUGGGCAAGGCAUCGCAGCG--GCUAAGUAGCUUCAACACCGAAAACUAGUUUCACACACAGACUAGUUUGCACUCGAGC--------UCGGCUCGGGUGUUGAUGCUGAUUAA
...(((...((......)).--)))...((((.(((((((((.((((((((((.......)))))))))).)...(((((--------...))))))))))))).))))..... ( -36.90)
>DroYak_CAF1 5460 114 + 1
GUGGGCAAGGCAUCGCAGCGAAGCUAAGUAGCUUCAACACCGAAAACUAGUUUCACACACAGACUAGUUUGCACUCGAGCUUGGGUGCUCGGCUCGGGUGUUGAUGCUGAUUAA
........((((((.....((((((....))))))(((((((.((((((((((.......)))))))))).)..((((((......))))))....))))))))))))...... ( -42.00)
>consensus
GUGGGCAAGGCAGCGCAGCG__GCUAAGUAGCUUCAACACCGAAAACUAGUUUCACACACAGACUAGUUUGCACUCGAGC________UCGGCUCGGGUGUUGAUGCUGAUUAA
...(((...((......))...)))...((((.(((((((((.((((((((((.......)))))))))).)...(((((...........))))))))))))).))))..... (-35.38 = -35.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:04 2006