Locus 4135

Sequence ID 2R_DroMel_CAF1
Location 13,587,006 – 13,587,104
Length 98
Max. P 0.998835
window6659

overview

Window 9

Location 13,587,006 – 13,587,104
Length 98
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 89.92
Mean single sequence MFE -32.53
Consensus MFE -30.56
Energy contribution -30.78
Covariance contribution 0.22
Combinations/Pair 1.07
Mean z-score -2.52
Structure conservation index 0.94
SVM decision value 3.25
SVM RNA-class probability 0.998835
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13587006 98 - 20766785
U----GACGGUAUUCGCU--CGCGAUGGUAAUUGACAAUGCCAAAUGACUGACUGUGGGCCAGGCCCACAAUUAGUUCCACAUAAUGAUGCCUCAUUAUGGCCA
.----...(((..(((..--..)))(((((........)))))...((((((.(((((((...))))))).))))))...((((((((....))))))))))). ( -33.30)
>DroSec_CAF1 140095 100 - 1
C----GACGGUAUUCGCAUCGGCGAUGGUAAUUGACAAUGCCAAAUGACUGACUGUGGGCCAGGCCCGCAAUUAGUUCCACAUAAUGAUGCAUCAUUAUGGCCA
.----...(((..((((....))))(((((........)))))...((((((.(((((((...))))))).))))))...((((((((....))))))))))). ( -35.30)
>DroSim_CAF1 138453 100 - 1
C----GACGGUAUUCACAUCGGCGAUGGUAAUUGACAAUGCCAAAUGACUGACUGUGGGCCAGGCCCGCAAUUAGUUCCACAUAAUGAUGCAUCAUUAUGGCCA
.----...(((.........((((.((........)).))))....((((((.(((((((...))))))).))))))...((((((((....))))))))))). ( -34.50)
>DroEre_CAF1 135633 98 - 1
C----GACGUUAUUCGCU--GGCGAUGGUAAUUGACAAUGCCAAAUGACUGACUGUGGGCCAGGCCCGCAAUUAGUUCCACAUAAUGAUGCAUCAUUACGGCCA
.----.............--(((..(((((........)))))...((((((.(((((((...))))))).))))))...(.((((((....)))))).)))). ( -28.80)
>DroYak_CAF1 139888 98 - 1
G----AACGGUAUUCGCU--GGCGAUGGUAAUUGACAAUGCCAAAUGACUGACUGUGGGCCAGGCCCGCAAUUAGUUCCACAUAAUGAUGCAUCAUUAUGGCCA
.----...(((......(--((((.((........)).)))))...((((((.(((((((...))))))).))))))...((((((((....))))))))))). ( -35.00)
>DroAna_CAF1 133111 102 - 1
UCUCCCUCAUGAUUCGUA--UGCAAUGGUAAUUGACAAUGCCAAAUGGCUGAAUGUGGGCCAUGCCCGCAAUUAGUUCAACAUAAUGACGCAUCAUUAUGGCCA
..................--.((..(((((........)))))..(((((((.(((((((...))))))).)))).))).((((((((....)))))))))).. ( -28.30)
>consensus
C____GACGGUAUUCGCA__GGCGAUGGUAAUUGACAAUGCCAAAUGACUGACUGUGGGCCAGGCCCGCAAUUAGUUCCACAUAAUGAUGCAUCAUUAUGGCCA
....................(((..(((((........)))))...((((((.(((((((...))))))).))))))...((((((((....))))))))))). (-30.56 = -30.78 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:41 2006