Locus 1780

Sequence ID 3L_DroMel_CAF1
Location 5,065,780 – 5,065,887
Length 107
Max. P 0.530651
window2757

overview

Window 7

Location 5,065,780 – 5,065,887
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.55
Mean single sequence MFE -20.32
Consensus MFE -14.72
Energy contribution -15.32
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.72
SVM decision value -0.01
SVM RNA-class probability 0.530651
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5065780 107 - 23771897
CCCACCAUUUUCCCUUGAUUUGCCACCC-------------AAUUUCCCCACCAUAUGUCAACAGGCAACAAACAAACUUCUGUCAGCAAAAUCAUGGAAAAUGUGACACCGAGCGAAAG
..(((.(((((((..((((((((.....-------------...............((((....))))....(((......)))..)).)))))).)))))))))).............. ( -18.80)
>DroSec_CAF1 272324 107 - 1
CACCACAUUUUCCCUUGAUUUGCCACCC-------------AAUUUCCCCACCAUAUGUCAACAGGCAACAAACAAACUUCUGUCAGCAAAAUCAUGGAAAAUGUGACACCGAGCGAAAG
...((((((((((..((((((((.....-------------...............((((....))))....(((......)))..)).)))))).)))))))))).............. ( -22.60)
>DroSim_CAF1 293654 107 - 1
CACCACAUUUUCCCUUGAUUUGCCACCC-------------AAUUUCCCCACCAUAUGUCAACAGGCAACAAACAAACUUCUGUCAGCAAAAUCAUGGAAAAUGUGACACCGAGCGAAAG
...((((((((((..((((((((.....-------------...............((((....))))....(((......)))..)).)))))).)))))))))).............. ( -22.60)
>DroEre_CAF1 279241 107 - 1
UCCCCGAUUUUGCCUUGAUUUGCCCCCC-------------AAUUGCCCCACCAUAUGUCAACAGGCAACAAACAAACUUCUGUCAGCAAAAUCAUGGAAAAUGUGACACCGAGCGAAAG
(((..((((((((..((((.........-------------..(((((................))))).............))))))))))))..)))..................... ( -17.14)
>DroYak_CAF1 283040 120 - 1
CCCCCGAUUUUCCCUUGAUUUGCCCCCCCCCCCCCCCCCGAAAUUGCCCCACCAUAUGUCAACGGGCAACAAACAAACUUCUGUCAGCAAAAUCAUGGAAAAUGUGACACCAAGCGAAGG
...((.(((((((..((((((((....................((((((..............))))))...(((......)))..)).)))))).)))))))((........))...)) ( -20.44)
>consensus
CCCCCCAUUUUCCCUUGAUUUGCCACCC_____________AAUUUCCCCACCAUAUGUCAACAGGCAACAAACAAACUUCUGUCAGCAAAAUCAUGGAAAAUGUGACACCGAGCGAAAG
.....((((((((..((((((((.................................((((....))))....(((......)))..)).)))))).))))))))................ (-14.72 = -15.32 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:10 2006