Locus 4844

Sequence ID 3R_DroMel_CAF1
Location 12,691,884 – 12,691,990
Length 106
Max. P 0.651800
window7935

overview

Window 5

Location 12,691,884 – 12,691,990
Length 106
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 95.39
Mean single sequence MFE -29.90
Consensus MFE -24.90
Energy contribution -25.62
Covariance contribution 0.72
Combinations/Pair 1.09
Mean z-score -1.90
Structure conservation index 0.83
SVM decision value 0.25
SVM RNA-class probability 0.651800
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12691884 106 + 27905053
CUGCACUGUCCAAAGUGGCUGGGCGAUAACCAAAAUGGAUGCGGUGCA--UUCCCAAUGCUCAAAGUGCCAAGA-AAAUAUUAAAAUUCAAUGCAUUUUAGGCGGGACA
.(((((((((((...(((.((.....)).)))...)))..))))))))--.((((...((..(((((((...((-(..........)))...)))))))..)))))).. ( -30.90)
>DroSec_CAF1 67774 106 + 1
CUGCACUGUCCAAAGUGGCUGGGCGAUAACCAAAAUGGAUGCGGUGCA--UUCCCAAUGCUCAAAGUGCCAAGA-AAAUAUUAAAAUUCAAUGCAUUUUAGGCGGGACA
.(((((((((((...(((.((.....)).)))...)))..))))))))--.((((...((..(((((((...((-(..........)))...)))))))..)))))).. ( -30.90)
>DroSim_CAF1 68847 106 + 1
CUGCACUGUCCAAAGUGGCUGGGCGAUAACCAAAAUGGAUGCGGUGCA--UUCCCAAUGCUCAAAGUGCCAAGA-AAAUAUUAAAAUUCAAUGCAUUUUAGGCGGGACA
.(((((((((((...(((.((.....)).)))...)))..))))))))--.((((...((..(((((((...((-(..........)))...)))))))..)))))).. ( -30.90)
>DroEre_CAF1 72403 106 + 1
CUGCACUGUCCAAAGUGGCUGGGCGAUAACCAAAAUGGAUGCGGUGCA--UUCCCAAUGCCCAAAGUGCCAAGA-AAAUAUUAAAAUUCAAUGCAUUUUAGGCGGGACA
.(((((((((((...(((.((.....)).)))...)))..))))))))--.((((...(((.(((((((...((-(..........)))...))))))).))))))).. ( -32.40)
>DroYak_CAF1 61317 106 + 1
CUGCACUGUCCAAAGUGCCUGGGCGAUAACCAAAAUGGAUGCGGUGCA--UUCCCAAUGCCCAAAGUGCCAAGA-AAAUAUUAAAAUUCAAUGCAUUUUAGGCGGGACA
.((((((((......(((....)))....((.....))..))))))))--.((((...(((.(((((((...((-(..........)))...))))))).))))))).. ( -30.90)
>DroAna_CAF1 55289 107 + 1
CUGCACUGUCCAAAGUGGCUGGGCGAUAACCGAAAUGGAUGCGGUGCGACUUCCCAAUGGCCAAAGUGCCAAGAGAAAUAUUAAAAUUCAAUGCAUUCGAAGCG--ACU
...((((......))))(((((.......))....(((((((((..(.....((....)).....)..))....(((.........)))...))))))).))).--... ( -23.40)
>consensus
CUGCACUGUCCAAAGUGGCUGGGCGAUAACCAAAAUGGAUGCGGUGCA__UUCCCAAUGCCCAAAGUGCCAAGA_AAAUAUUAAAAUUCAAUGCAUUUUAGGCGGGACA
.(((((((((((...(((.((.....)).)))...)))..))))))))...((((...(((.(((((((...((.............))...))))))).))))))).. (-24.90 = -25.62 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:12 2006