Locus 9884

Sequence ID 3R_DroMel_CAF1
Location 26,381,878 – 26,381,974
Length 96
Max. P 0.683243
window15769

overview

Window 9

Location 26,381,878 – 26,381,974
Length 96
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 77.24
Mean single sequence MFE -14.50
Consensus MFE -9.31
Energy contribution -8.37
Covariance contribution -0.94
Combinations/Pair 1.42
Mean z-score -1.38
Structure conservation index 0.64
SVM decision value 0.31
SVM RNA-class probability 0.683243
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26381878 96 + 27905053
CCCCUUUAUUCCACCCAUUUCCCCUGGAUUUC----------CCCGCCUAUUCCCUGCGCUUUUUCCCACUUUUCUCACUCAACUGAGAGU---UGAACGUAGUUGAGU
.........................(((....----------..(((.........))).....)))..........(((((((((...(.---....).))))))))) ( -13.50)
>DroSec_CAF1 111251 87 + 1
CCAUUU-------CCCAUUUC-CCUGGAUUUC----------CCCGCCUAUUCCCUGCGCUU-UUCCCACUUUUCUCACUCAACUGAGAGU---UGAACCUAGUUGAGU
......-------........-...(((....----------..(((.........)))...-.)))..........((((((((.((...---.....)))))))))) ( -12.50)
>DroSim_CAF1 108895 88 + 1
CCAUUU-------CCCAUUUC-CCUGGAUUUC----------CCCGCCUAUUCCCUGCGCUUUUUCCCACUUUUCUCACUCAACUGAGAGU---UGAACCUAGUUGAGU
......-------........-...(((....----------..(((.........))).....)))..........((((((((.((...---.....)))))))))) ( -12.90)
>DroEre_CAF1 115524 106 + 1
CCCCUUUUCGCCGCCCAUUGCCACUGGAUUUCCCCUGGCUUUCCCGCCUACUCCCUGCGCUUUUUCCCACUUUUCUCACUCAACCGAGAGU---UGAACCUAGUUGAGU
............((.....((((..((....))..))))......((.........)))).................(((((((..((...---.....)).))))))) ( -16.50)
>DroYak_CAF1 109691 104 + 1
--CCCUCUUGCCGCCCAUUUCCCCUGGAUUUCCACUGGAUUUCCCGCCUAUUCCCUGCGCUUUUUCCCACUUUUCUCGCUCAACUGAGAGU---UGAACCCAGUUGAGU
--.......((.((...........(((..(((...)))..)))............)))).................(((((((((.(...---.....)))))))))) ( -19.40)
>DroAna_CAF1 124646 93 + 1
CCCUUC----CCCGCCAUCUCCGC--CAUUUC----------CCUCUUUAUUCUCCAGACUUUUUCCCACUUUUCUCGCUCAACCGUGAGCUGGUGAACCCAGUUGAGU
......----..............--......----------..........(((..((((......((((...(((((......)))))..)))).....))))))). ( -12.20)
>consensus
CCCCUU____CC_CCCAUUUCCCCUGGAUUUC__________CCCGCCUAUUCCCUGCGCUUUUUCCCACUUUUCUCACUCAACUGAGAGU___UGAACCUAGUUGAGU
............................................(((.........)))..................(((((((((..............))))))))) ( -9.31 =  -8.37 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:12 2006