Locus 4576

Sequence ID 3L_DroMel_CAF1
Location 13,122,414 – 13,122,534
Length 120
Max. P 0.576087
window7164

overview

Window 4

Location 13,122,414 – 13,122,534
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.58
Mean single sequence MFE -26.96
Consensus MFE -23.94
Energy contribution -24.10
Covariance contribution 0.16
Combinations/Pair 1.09
Mean z-score -1.21
Structure conservation index 0.89
SVM decision value 0.08
SVM RNA-class probability 0.576087
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13122414 120 + 23771897
UUGGAUUGGAGACAGCGGCAAAAUUAGUUAUGUAAAUAUUUGCAGAAAAUUAAAAUUGUCAAGGGACAAACUUCCUUGAGCCAAAGAGCAAAGUUUUCCAAUGAUUGGAUGGCGGGAAAU
((((.(((....))))(((....((((((.(((((....)))))...)))))).....((((((((.....)))))))))))......))).((..((((.....))))..))....... ( -27.90)
>DroSec_CAF1 110306 120 + 1
UAGGAUUGGAGACAGCGGCAAAAUUAGUUAUGUAAAUAUUUGCAGAAAAUUAAAAUUGUCAAGGGACAAACUUUCUUGAGCCAAAGAGCAAAGUUUUCCGAUGAUUGGAUGGCGGGAAAU
...(.(((....))))(((....((((((.(((((....)))))...)))))).....(((((..(.....)..))))))))..........((((((((............)))))))) ( -25.00)
>DroSim_CAF1 108484 120 + 1
CAGGAUUGGAGACAGCGGCAAAAUUAGUUAUGUAAAUAUUUGCAGAAAAUUAAAAUUGUCAAGGGACAAACUUCCUUGAGCCAAAGAGCAAAGUUUUCCGAUGAUUGGAUGGCGGGAAAU
...(.(((....))))(((....((((((.(((((....)))))...)))))).....((((((((.....)))))))))))..........((((((((............)))))))) ( -27.60)
>DroEre_CAF1 107017 120 + 1
UAGGAUUGGGGACAGCGGCGAAAUUAGUUAUGUAAAUAUUUGCAGAAAAUUAAAAUUGUCAAGGGACAAGCUUGCUUCGGCCAAAGAGCAAAGUUUUCCGAUGAUUGGAUGGCGGGAAAU
......((....))(((((....((((((.(((((....)))))...))))))..(((((....))))))).)))(((.((((..((((...))))(((((...))))))))).)))... ( -26.00)
>DroYak_CAF1 110532 120 + 1
UUGGCUUGGAGACAGCGGCGAAAUUAGUUAUGUAAAUAUUUGCAGAAAAUUAAAAUUGUCAAGGGACGAACUUCCUUCAGCCAAAGAGCAAAGUUUUCCGAUGAUUGGAUGGCGGGAAAU
((((((((....))..(((((..((((((.(((((....)))))...))))))..)))))((((((.....)))))).))))))........((((((((............)))))))) ( -28.30)
>consensus
UAGGAUUGGAGACAGCGGCAAAAUUAGUUAUGUAAAUAUUUGCAGAAAAUUAAAAUUGUCAAGGGACAAACUUCCUUGAGCCAAAGAGCAAAGUUUUCCGAUGAUUGGAUGGCGGGAAAU
...(.(((....))))(((....((((((.(((((....)))))...)))))).....((((((((.....)))))))))))..........((..(((((...)))))..))....... (-23.94 = -24.10 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:15 2006