Locus 144

Sequence ID 3R_DroMel_CAF1
Location 758,306 – 758,396
Length 90
Max. P 0.883503
window234

overview

Window 4

Location 758,306 – 758,396
Length 90
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 69.61
Mean single sequence MFE -19.84
Consensus MFE -10.27
Energy contribution -10.47
Covariance contribution 0.20
Combinations/Pair 1.19
Mean z-score -1.83
Structure conservation index 0.52
SVM decision value 0.93
SVM RNA-class probability 0.883503
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 758306 90 + 27905053
CAAGAGGUAAGCAACAAUAUCAUAUUAUUUGAUUUUUGAUUAGCGUUGCUUUGACUAAA--------------------------UUUUAAUUCGAUUUAUGAUUAGGGCAACGUU
..............(((.((((.......))))..)))...((((((((((((((((((--------------------------((.......)))))).).))))))))))))) ( -18.40)
>DroSec_CAF1 15029 80 + 1
CAAGAGGUAAGCAACAAUAUCAUAGUAUUUGGUUUUUGAUUAGCGUUGCUUUGACUAAU--------------------------G----------GUUAUGGUUAGGGCACCGUU
((((((.((((..((.........)).)))).))))))...((((.(((((((((((..--------------------------.----------....))))))))))).)))) ( -18.00)
>DroSim_CAF1 15312 80 + 1
CAAGAGGUAAGCAACAAUAUCAUAUUAUAUGGUUUUUGAUUAGCGUUGCUUUGACUAAU--------------------------G----------GUUAUGGUUAGGGCAACGUU
..............(((.((((((...))))))..)))...((((((((((((((((..--------------------------.----------....)))))))))))))))) ( -22.10)
>DroEre_CAF1 15237 79 + 1
CAAGAGGUAAGCAACAAUUUUAUUUUAAUUGAUUUUUGUGUAGCGUUGCUUUGA-------------------------------------UUUUAUUUAUUGUUAGAGCAACGAU
..........((.(((.....(((......))).....))).))((((((((((-------------------------------------(..........)))))))))))... ( -16.80)
>DroYak_CAF1 17239 115 + 1
CAAGAGGUAAGCAACA-UUUUAUUUCAUUUGAUUUUUGAUUAGCGUUGCCUUGACUCAAUAAGGGAAAAUUAAAGUAAAAGUAAAAUUGAAUUUGACUUAUUACUAGGGCAACGAU
...((((((((.....-.)))))))).................(((((((((..(((.....)))........(((((((((.((((...)))).)))).)))))))))))))).. ( -23.90)
>consensus
CAAGAGGUAAGCAACAAUAUCAUAUUAUUUGAUUUUUGAUUAGCGUUGCUUUGACUAAA__________________________G_____UU__AGUUAUGGUUAGGGCAACGUU
.....(.(((.(((....((((.......))))..))).))).)((((((((((.................................................))))))))))... (-10.27 = -10.47 +   0.20) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:19 2006