Locus 4424

Sequence ID 3R_DroMel_CAF1
Location 11,662,622 – 11,662,718
Length 96
Max. P 0.600473
window7231

overview

Window 1

Location 11,662,622 – 11,662,718
Length 96
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 77.40
Mean single sequence MFE -31.94
Consensus MFE -14.89
Energy contribution -15.25
Covariance contribution 0.36
Combinations/Pair 1.26
Mean z-score -2.01
Structure conservation index 0.47
SVM decision value 0.14
SVM RNA-class probability 0.600473
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11662622 96 - 27905053
CGCAACGGUAGGUGGCGACCCAUCCC-----------CUCACAUCCGUUGUUUUCCGGGAAAUUU-CC-CAUUUUCGUGGAAAUCGCGGCGAGUGAGGUUAUGUAAGCU
(((.((.....)).)))...(((..(-----------(((((..((((...((((((.((((...-..-...)))).))))))..))))...))))))..)))...... ( -32.10)
>DroSec_CAF1 1949 96 - 1
CGCAACGGUAGGUUGCGACCCAUCCC-----------CUCACAUCCGUUGUUUUCCGGGAAAUUU-CG-CAUUUUCGUGGAAAUCGCGGCGAGUGAGGUUAUGUAAGCU
((((((.....))))))...(((..(-----------(((((..((((...((((((.((((...-..-...)))).))))))..))))...))))))..)))...... ( -36.20)
>DroSim_CAF1 1950 96 - 1
CGCAACGGUAGGUUGCGACCCAUCCC-----------CUCACAUCCGUUGUUUUCCGGGAAAUUU-CG-CAUUUUCGUGGAAAUCGCGGCGAGUGAGGUUAUGUAAGCU
((((((.....))))))...(((..(-----------(((((..((((...((((((.((((...-..-...)))).))))))..))))...))))))..)))...... ( -36.20)
>DroEre_CAF1 1984 97 - 1
CGCAACGGUAGGUGGCGACCCAACCC-----------CUCACAUCCUUCGUUUUCCGGGAAAUCU-AAAAAUUUCCGUGAAAAUCGCGCCGAGUGAGGUUAUGUAAGCU
.((...(((.((.(....))).)))(-----------(((((.((...(((((((((((((....-.....)))))).))))).))....))))))))........)). ( -28.50)
>DroYak_CAF1 2007 96 - 1
CGCAACGGUAGGUGGAGACACAACAC-----------CUCACAUCCAUCGUUUUCCGGAAUAUCU-AA-AAUUUCCGUGAAAAUCACGCCGAGUGAGGUUAUGUAAGCU
.((........(((....)))...((-----------(((((.((...((((((((((((.....-..-...))))).))))...)))..))))))))).......)). ( -28.30)
>DroAna_CAF1 1760 105 - 1
CGCAAUGGUUAGUGGCGAAUGGAAAGCUUAAAUCUCACUCACUUCCAAG---CGCUGGAAAACCGUGAAAACUGGCG-AAAAAUAGCGCUUAGUGAGGUUAUGUAAGCU
(((.((.....)).))).......((((((.......((((((...(((---(((((.....((((....)).))..-.....))))))))))))))......)))))) ( -30.32)
>consensus
CGCAACGGUAGGUGGCGACCCAACCC___________CUCACAUCCGUUGUUUUCCGGGAAAUCU_CA_AAUUUUCGUGAAAAUCGCGCCGAGUGAGGUUAUGUAAGCU
(((.((.....)).)))....................(((((.((((........))))...............(((((.....)))))...)))))............ (-14.89 = -15.25 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:54 2006