Locus 4399

Sequence ID X_DroMel_CAF1
Location 11,587,747 – 11,587,843
Length 96
Max. P 0.500000
window7223

overview

Window 3

Location 11,587,747 – 11,587,843
Length 96
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 79.68
Mean single sequence MFE -22.15
Consensus MFE -16.30
Energy contribution -16.13
Covariance contribution -0.16
Combinations/Pair 1.23
Mean z-score -1.00
Structure conservation index 0.74
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11587747 96 + 22224390
GAA----UGUAUUUUUAUUGAAGUGCUAGAUGUAAGUUUCUUUUUAUUGGUCGUCUAAUUGGCAGGCUAUUCUAUGUCAUUAGGCCGCUUGAUUAGCGCC--
...----.(((((((....)))))))((((((..(((........)))...))))))...(((.((((..............))))(((.....))))))-- ( -20.24)
>DroSec_CAF1 19561 100 + 1
GAAUGUAUGUAUUUUUAUUGAAGUGCUAGAUGUAAGUUUCUUUUUAUUGGUCGUCUAAUUGGCAGGCUAUUCUAUGUCAUUAGGCCGCUUGAUUAGCGCC--
........(((((((....)))))))((((((..(((........)))...))))))...(((.((((..............))))(((.....))))))-- ( -20.24)
>DroSim_CAF1 18533 100 + 1
NAAUGUAUGUAUUUUUAUUGAAGUGCUAGAUGUAAGUUUCUUUUCAUUGGUCGUCUAAUUGGCAGGCUAUUCUAUGUCAUUAGGCCGCUUGAUUAGCGCC--
......................((((((((((.(((.....)))))))(((.(((((((.((((..........))))))))))).)))....)))))).-- ( -19.90)
>DroEre_CAF1 19352 91 + 1
GAU----UGGAUUUUUUUGGAAAUGCUAGAUGUUAGUUUUUGUUUAUUGUCUGCCUGAUUGGCAGGCU-----UUGUCAUUAGGCCGCUUGAUUAGCGCC--
..(----((((((((....))))).))))..(((((((...((.....(((((((.....))))))).-----..(((....))).))..)))))))...-- ( -20.90)
>DroYak_CAF1 20529 91 + 1
GAA---------AAUUAUCAAAGUGCUAGAUGUAAGUUUCUUUUUAUUGGCCGUCUAAUUGGCAGGCUAUUCUAUGUCAUUAGGCCGCUUGAUUAGCGCC--
...---------..........(((((((...(((((...........(((((((.....))).(((........)))....))))))))).))))))).-- ( -22.30)
>DroAna_CAF1 26741 91 + 1
GAGUGGCU--GAUUUUAUUGG-CUGCUAUA--------CUUUUUUAUUGGUCGUCUAAUUGGCAACCGAUUCUAUGUCAUUAGGCCGCUUGAUUAGCGGCGC
.((..((.--.((...))..)-)..))...--------.......((((((.(((.....))).)))))).(((......)))((((((.....)))))).. ( -29.30)
>consensus
GAA____UGUAUUUUUAUUGAAGUGCUAGAUGUAAGUUUCUUUUUAUUGGUCGUCUAAUUGGCAGGCUAUUCUAUGUCAUUAGGCCGCUUGAUUAGCGCC__
......................((((((((........))........(((.(((((((.((((..........))))))))))).)))....))))))... (-16.30 = -16.13 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:00 2006