Locus 6170

Sequence ID 2R_DroMel_CAF1
Location 19,403,935 – 19,404,034
Length 99
Max. P 0.680219
window9884

overview

Window 4

Location 19,403,935 – 19,404,034
Length 99
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 66.11
Mean single sequence MFE -30.73
Consensus MFE -6.80
Energy contribution -4.37
Covariance contribution -2.44
Combinations/Pair 1.77
Mean z-score -2.27
Structure conservation index 0.22
SVM decision value 0.30
SVM RNA-class probability 0.680219
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19403935 99 - 20766785
GGCUUCCAUUCGUUUUCGAGUGGAACCUUCCUUUUCAUAUACCUAG----AAAUUCUCU-----------GGGUUACUUUACCGACUCCGAAGAAAUCGGGUUGCAUGAUGAGA
((.(((((((((....)))))))))))...(((.((((..((((((----(.....)))-----------))))........((((.((((.....)))))))).)))).))). ( -34.60)
>DroPse_CAF1 7446 114 - 1
UCCGGCCAAUAGCGAUCAUCUGGUUCCUCUAUCUGUACAGAACGAGGAUAAAAUUGGCCAACAAGAAGAGGGGUCAUAUUUCCGAUCCCUGUUAAAUCGAGCUGAAGCAUUAUA
...(((((((....(((....)))(((((..(((....)))..)))))....)))))))......((.(((((((........))))))).)).......((....))...... ( -32.20)
>DroSec_CAF1 7245 99 - 1
GGCUUCCAUUCGUUUUCGAGUGGAACCUUCUUUUUCAUAAAGCUAG----AAAUUCUCU-----------GGGUUACUUUACCGACUCCGAAGAAAUCGGGUUGCAUGAUGAGA
((.(((((((((....))))))))))).((((..((((.((.((((----(.....)))-----------)).)).......((((.((((.....)))))))).)))).)))) ( -31.40)
>DroSim_CAF1 7262 99 - 1
GGCUUCCAUUCGUUUUCGAGUGGAACCUUCUUUUUCAUAAAGCUAG----AAAUUCUCU-----------GGGUUACUUUACCGACUCCGAAGAAAUCGGGUUGCAUGAUGAGA
((.(((((((((....))))))))))).((((..((((.((.((((----(.....)))-----------)).)).......((((.((((.....)))))))).)))).)))) ( -31.40)
>DroYak_CAF1 7254 99 - 1
CCCGUCCAUUCGAGUUCAACUGGAACUUUCUUUUGCACCAAGCUUG----CAAUUCUCU-----------GGGUUACUACACCAGCGCCGAAGAAAUCGGGUUGUAGGAUAAGG
...((((....((((((.....))))))......((.....)).((----((((...((-----------((((....)).))))..((((.....)))))))))))))).... ( -22.60)
>DroPer_CAF1 7475 114 - 1
UCCGGCCAAUAGCGAUCAUCUGGUUCCUCUAUCUGUACAGAACGAGGAUAAAAUUGGCCAACAAGAAGAGGGGUCAUAUUUCCGAUCCCUGUUAAAUCGAGCUGAAGCAUUAUA
...(((((((....(((....)))(((((..(((....)))..)))))....)))))))......((.(((((((........))))))).)).......((....))...... ( -32.20)
>consensus
GCCGUCCAUUCGUGUUCAACUGGAACCUUCUUUUGCACAAAGCUAG____AAAUUCUCU___________GGGUUACUUUACCGACUCCGAAGAAAUCGGGUUGCAGGAUGAGA
........((((.((((....)))).............................................(((((........)))))))))...................... ( -6.80 =  -4.37 +  -2.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:35 2006