Locus 2574

Sequence ID 3R_DroMel_CAF1
Location 6,959,527 – 6,959,630
Length 103
Max. P 0.604044
window4200

overview

Window 0

Location 6,959,527 – 6,959,630
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.10
Mean single sequence MFE -28.20
Consensus MFE -14.75
Energy contribution -14.70
Covariance contribution -0.05
Combinations/Pair 1.27
Mean z-score -2.29
Structure conservation index 0.52
SVM decision value 0.14
SVM RNA-class probability 0.604044
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6959527 103 - 27905053
UCGCCUCGUUCCCUUUGGUAAACCCUCUUGGCAAU---------CCAUUCAUGAGCUCAAUUCAGGCGCAA-----GCCGAGCUCAGGCAAUUUUUCUAC---CUUUUGCACUGUGGAAU
..(((..........(((.....((....))....---------)))....(((((((......(((....-----))))))))))))).....((((((---..........)))))). ( -28.90)
>DroSec_CAF1 8721 103 - 1
UCGCCUCGUUCCCUUUGGUAAACCCUCUUGGCAAU---------CCAUUCAUGAGCUCAAUUCAGGCGCAA-----GCCGAGCUCAGGCAAUUUUUCUAC---CUUUUGCACUGCGGAAU
..(((..........(((.....((....))....---------)))....(((((((......(((....-----)))))))))))))...........---.((((((...)))))). ( -27.70)
>DroSim_CAF1 8760 103 - 1
UCGCCUCGUUCCCUUUGGUAAACCCUCUUGGCAAU---------CCAUUCAUGAGCUCAAUUCAGGCGCAA-----GCCGAGCUCAGGCAAUUUUUCUAC---CUUUUGCACUGCGGAAU
..(((..........(((.....((....))....---------)))....(((((((......(((....-----)))))))))))))...........---.((((((...)))))). ( -27.70)
>DroEre_CAF1 7081 103 - 1
UCGCCUCGUUCCCUUUGGUAAACCCUCUUGGCAAU---------CCAUUCAUGAGCUCAAUUCAGGCGCAA-----GCCGAGCUCAGGCACUUUUUCUCC---UUUUUGCACUGCGGAAU
..(((..........(((.....((....))....---------)))....(((((((......(((....-----)))))))))))))...........---.((((((...)))))). ( -27.80)
>DroWil_CAF1 4744 108 - 1
UAGCCC---UCCC-----CAAGCUCUUCCAGCCAUGUCCUGUCGCCAUUCAUUGGCACAAUUCAGGUGCAAUGUGAGCUGGGCUCAGGCUCUUCUACACGUCUCUUCUACUCUAUU----
.((((.---..((-----((.((((.....(((.((...(((.((((.....)))))))...))))).......))))))))....))))..........................---- ( -29.30)
>DroYak_CAF1 9718 103 - 1
UCGCCUCGUUCCCUUUGGUAAACCCUCUUGGCAAU---------CCAUUCAUGAGCUCAAUUCAGGCGCAA-----GCCGAGCUCAGGCAAUUUUUCUCC---UUUUUGCACUGCGGAAU
..(((..........(((.....((....))....---------)))....(((((((......(((....-----)))))))))))))...........---.((((((...)))))). ( -27.80)
>consensus
UCGCCUCGUUCCCUUUGGUAAACCCUCUUGGCAAU_________CCAUUCAUGAGCUCAAUUCAGGCGCAA_____GCCGAGCUCAGGCAAUUUUUCUAC___CUUUUGCACUGCGGAAU
..(((..................((....))....................(((((((......(((.........)))))))))))))............................... (-14.75 = -14.70 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:40 2006