Locus 7706

Sequence ID X_DroMel_CAF1
Location 19,203,233 – 19,203,331
Length 98
Max. P 0.962383
window12637

overview

Window 7

Location 19,203,233 – 19,203,331
Length 98
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 75.34
Mean single sequence MFE -23.70
Consensus MFE -19.58
Energy contribution -19.70
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -1.71
Structure conservation index 0.83
SVM decision value 1.54
SVM RNA-class probability 0.962383
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19203233 98 - 22224390
AAUUCCCUUACCGGCGCUAGUAUCAAUGACAUCGAUUGGUAAAUUAGCUACCAGGCAACGAGGAAGCG-CUCCUCGACCCAUC---------------CAUUCCGCCAAUCAC------C
............(((((((.(((((((.......)))))))...)))).....((...((((((....-.))))))..))...---------------......)))......------. ( -24.90)
>DroSec_CAF1 24649 90 - 1
AAUUCC-----CGGCGCUAGUAUCAAUGACAUCGAUUGGUAAAUUAGCUACCAGGCAACGAGGAAGCC-C-CUCCGACCCAUC---------------CAAUCCGCCAGUCC--------
......-----.(((((((.(((((((.......)))))))...)))).....((....((((.....-)-)))....))...---------------......))).....-------- ( -21.10)
>DroEre_CAF1 22238 114 - 1
AAUU-C-----CUGCGCUAGUAUCAAUGACAUCGAUUGGUAAAUUAGCUACCAGGCAACGAGGAGGCCACCCCUCGACCUAUCAACCCACCAAUACUCCACUCCGCCAAUCCUCCAAUCC
....-(-----(((.((((.(((((((.......)))))))...))))...))))...(((((.((...)))))))............................................ ( -21.10)
>DroYak_CAF1 22325 104 - 1
AAUUGC-----CGGCGCUAGUAUCAAUGACAUCGAUUGGUAAAUUAGCUACCAGGCAACGAGGAGGC---CCCUCGACCCCUCGACCCACCA--------AACCGCCAAUCCGCCAAUCU
......-----.((((...((.......))...(((((((......(((....)))..(((((.((.---.......)))))))........--------....)))))))))))..... ( -27.70)
>consensus
AAUUCC_____CGGCGCUAGUAUCAAUGACAUCGAUUGGUAAAUUAGCUACCAGGCAACGAGGAAGCC_CCCCUCGACCCAUC_______________CAAUCCGCCAAUCC_______C
............(((((((.(((((((.......)))))))...)))).....((...(((((........)))))..))........................)))............. (-19.58 = -19.70 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:30 2006