Locus 2085

Sequence ID 3R_DroMel_CAF1
Location 5,936,866 – 5,936,965
Length 99
Max. P 0.512496
window3407

overview

Window 7

Location 5,936,866 – 5,936,965
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 84.72
Mean single sequence MFE -27.55
Consensus MFE -20.65
Energy contribution -20.40
Covariance contribution -0.25
Combinations/Pair 1.11
Mean z-score -1.80
Structure conservation index 0.75
SVM decision value -0.04
SVM RNA-class probability 0.512496
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5936866 99 + 27905053
CGAUAGUCAUAAAUUACCGCUCGUGUUGACGGUAAUUACUGUCAAGCGGCGAUUUGUUGCGGAAAUGCAGUUUCUGAUUUGAUUUUCCCGCGCCCUUGC
.((((((....((((((((.((.....))))))))))))))))..((((.((...(((.(((((((...)))))))....)))..))))))........ ( -28.20)
>DroPse_CAF1 53336 93 + 1
UGAUAGUCAUAAAUUGCCAUUCGCGCUGACAGUAAUUACUGUCAAGAGGCGAUUUGUUGCGGAAAUGCA--UUCAGAUUU----UGCCCUCUCACUCAC
(((..((.((((((((((..((....(((((((....))))))).)))))))))))).))(((...(((--.........----)))..)))...))). ( -23.30)
>DroSec_CAF1 50540 99 + 1
CGAUAGUCAUAAAUUACCGCUCGUGUUGACGGUAAUUACUGUCAAGCGGCGAUUUGUUGCGGAAAUGCAGUUUCUGAUUUGAUUUUCCCGCGCCCUGGC
.((((((....((((((((.((.....))))))))))))))))..((((.((...(((.(((((((...)))))))....)))..))))))((....)) ( -29.20)
>DroEre_CAF1 40637 89 + 1
CGAUAGUCAUAAAUUACCGCUCGUGUUGACGGUAAUUACUGUCAAGCGGCGAUUUGUUGCGGAAAUGCAGUUUCUGAUUUGAUUUCCCC----------
.....((.((((((..(((((.....(((((((....))))))))))))..)))))).))((((((.(((........)))))))))..---------- ( -28.90)
>DroYak_CAF1 42061 99 + 1
CGAUAGUCAUAAAUUACCGCUCGUGUUGACGGUAAUUACUGUCAAGCGGCGAUUUGUUGCGGAAAUGCAGUUUCUGAUUUGAUUUUCCCUCGCUCUUCG
(((..((.((((((..(((((.....(((((((....))))))))))))..)))))).))(((((..(((........)))..))))).)))....... ( -28.50)
>DroPer_CAF1 56609 93 + 1
UGAUAGUCAUAAAUUGCCAUUCGCGCUGGCAGUAAUUACUGUCAAGAGGCGAUUUGUUGCGGAAAUGCA--UUCAGAUUU----UGCCCUCUCACUCAC
(((((((.....(((((((.......)))))))....)))))))((((((((((((.((((....))))--..)))))).----.).)))))....... ( -27.20)
>consensus
CGAUAGUCAUAAAUUACCGCUCGUGUUGACGGUAAUUACUGUCAAGCGGCGAUUUGUUGCGGAAAUGCAGUUUCUGAUUUGAUUUUCCCUCGCACUCAC
....(((((((((((.(((((.....(((((((....)))))))))))).)))))))((((....))))......)))).................... (-20.65 = -20.40 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:58 2006