Locus 3115

Sequence ID 3R_DroMel_CAF1
Location 8,205,393 – 8,205,508
Length 115
Max. P 0.887739
window5053

overview

Window 3

Location 8,205,393 – 8,205,508
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 82.84
Mean single sequence MFE -28.02
Consensus MFE -18.49
Energy contribution -19.05
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.21
Structure conservation index 0.66
SVM decision value 0.95
SVM RNA-class probability 0.887739
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8205393 115 - 27905053
AAAGUUACGGCUUCCAAUUUGAAAUUACUUCAAAAUGUCAUUUAUUC---UGACUGCAGUAAUUACAAUUUGAUGAUAGGUCAUUAGAACUGCGCGACUGAAAA--GAAUGCCGUGAAAG
....((((((((((...((((((.....))))))..((((.......---)))).(((((........((((((((....)))))))))))))...........--))).)))))))... ( -27.30)
>DroSim_CAF1 21089 106 - 1
---GUUACGGCUUCCAAUUUGAAUUUACUUCAAAAUGUCAUUUAUUCUGCUGACUGCAGUAAUUAGAAUUUGAUGAUAGGUCAUUA-----------CUGAAAAGAGAAUGCCGUGACAG
---((((((((..((..((((((.....)))))).(((((((.(((((((((....))))....)))))..)))))))))......-----------((....)).....)))))))).. ( -30.40)
>DroEre_CAF1 17833 115 - 1
AAAGUUACGGCUUCCAAUUUGAAUUUACUUCAAAAUGUCAUUUAUUC---CGUCUGCAGUAAUUACGAAUUGAUGAUAGGUCAUUAGAGCUGUGCGACUGUACA--GAAGGCACUGAAAC
..(((((((((((((..((((((.....)))))).(((((((.((((---.((...........)))))).)))))))))......)))))))..))))...((--(......))).... ( -21.30)
>DroYak_CAF1 26954 115 - 1
AAAGUUACGGCUUUCAAUUUGAAUUUACUUCAAAAUGACAACUAUUU---UGACUGCAGUAAUUAGAAAUUGAUGAUAGGUCAUUAUAGCUGUGCGACUGAAAA--GAAGGCCGUGAAAC
....(((((((((((..((((((.....))))))...(((.((((..---(((((.((.((((.....)))).))...)))))..)))).)))...........--)))))))))))... ( -33.10)
>consensus
AAAGUUACGGCUUCCAAUUUGAAUUUACUUCAAAAUGUCAUUUAUUC___UGACUGCAGUAAUUACAAAUUGAUGAUAGGUCAUUAGAGCUGUGCGACUGAAAA__GAAGGCCGUGAAAC
....((((((((((((.((((((.....)))))).))...................((((..........((((((....))))))..........))))......))).)))))))... (-18.49 = -19.05 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:27 2006