Locus 5625

Sequence ID 3R_DroMel_CAF1
Location 14,819,440 – 14,819,550
Length 110
Max. P 0.649516
window9166

overview

Window 6

Location 14,819,440 – 14,819,550
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.16
Mean single sequence MFE -34.08
Consensus MFE -25.16
Energy contribution -26.80
Covariance contribution 1.64
Combinations/Pair 1.11
Mean z-score -1.75
Structure conservation index 0.74
SVM decision value 0.24
SVM RNA-class probability 0.649516
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14819440 110 + 27905053
GCCGGAUUAAUUACGCACAUGUGUGAGCGGGCGAGGCC---------GCCUUAGGGCUAUCAUUUACGCUAAAUGCACACUGAAAACAGUAAUUAGAUUGUCUAUGCC-CGUAAAUCCAG
...(((((..((((((....))))))(((((((((((.---------(((....))).(((......((.....))..((((....)))).....))).)))).))))-))).))))).. ( -36.60)
>DroPse_CAF1 11960 113 + 1
CCCG-------UACGCACAUGUGUGCCUUUGUGAGGCAUGCCCCUGGCCCUGUGGGCUAUCAUUUACGCUAAACGCACACUGAAAGCGGUAAUUAGAUUGUCUAUGCCCCGAAAAUCCAG
.(((-------(...((...((((((.((((((.((....))..((((((...)))))).......))).))).))))))))...))))......((((.((........)).))))... ( -28.40)
>DroSim_CAF1 12454 110 + 1
GCCGGAUUAAUUACGCACAUGUGUGAGCGGGCGAGGCC---------GCCUUAGGGCUAUCAUUUACGCUAAAUGCACACUGAAAACAGUAAUUAGAUUGUCUAUGCC-CGUAAAUCCAG
...(((((..((((((....))))))(((((((((((.---------(((....))).(((......((.....))..((((....)))).....))).)))).))))-))).))))).. ( -36.60)
>DroEre_CAF1 13697 110 + 1
GCCGGAUUAAUUACGCACAUGUGUGAGCGGGCGAGGUC---------GCCUUAGGGCUAUCAUUUACGCUAAAUGCACACUGAAAACAGUAAUUAGAUUGUCUAUGCC-CGUAAAUCCAG
...(((((..((((((....))))))((((((((((..---------.)))).((((.(((......((.....))..((((....)))).....))).))))..)))-))).))))).. ( -35.30)
>DroYak_CAF1 12703 110 + 1
GCCGGAUUAAUUACGCACAUGUGUGAGCGGGAGAGGCC---------GCCUUAGGGCUAUCAUUUACGCUAAAUGCACACUGAAAACAGUAAUUAGAUUGUCUAUGCC-CGUAAAUCCAG
...(((((..((((((....))))))(((((..((((.---------(((....))).(((......((.....))..((((....)))).....))).))))...))-))).))))).. ( -33.50)
>consensus
GCCGGAUUAAUUACGCACAUGUGUGAGCGGGCGAGGCC_________GCCUUAGGGCUAUCAUUUACGCUAAAUGCACACUGAAAACAGUAAUUAGAUUGUCUAUGCC_CGUAAAUCCAG
...(((((..((((((....))))))(((((((((((..........))))).((((.(((......((.....))..((((....)))).....))).))))..))).))).))))).. (-25.16 = -26.80 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:42 2006