Locus 2069

Sequence ID 3R_DroMel_CAF1
Location 5,885,361 – 5,885,460
Length 99
Max. P 0.874960
window3378

overview

Window 8

Location 5,885,361 – 5,885,460
Length 99
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 78.57
Mean single sequence MFE -28.92
Consensus MFE -16.24
Energy contribution -15.77
Covariance contribution -0.47
Combinations/Pair 1.40
Mean z-score -2.16
Structure conservation index 0.56
SVM decision value 0.89
SVM RNA-class probability 0.874960
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5885361 99 + 27905053
CUCAAA------AUC---GCCAAGAACACAACAGGUGUG-CGUUCUUGCUGGCCAUCUUAUCU-GGGCCAAAAUUAGUAGACCGUGCACCUAAAUAAGUUCAAAUGUACU
......------...---.....((((.....(((((..-((.(((.(((((((.........-.))))......)))))).))..)))))......))))......... ( -25.80)
>DroSec_CAF1 10266 99 + 1
CUCAAA------AUC---GCCAAGAACACAACAGGUGUG-CGUUCCUGCUGGCCGACUUAUCU-GGGCCAAAAUUAGCAGACCAUGCACCUAAACAAGUUCAAAUGUACU
......------...---.....((((......((.(((-(((..(((((((((.(......)-.))))......)))))...))))))))......))))......... ( -23.70)
>DroSim_CAF1 9220 99 + 1
CUCAAA------AUC---GCCAAGAACACAACAGGUGUG-CGUUCCUGCUGGCCAACUUAUCU-GGGCCAAAAUUAGCAGACCAUGCACCUAAACAAGUUCAAAUGUACU
......------...---.....((((......((.(((-(((..(((((((((.........-.))))......)))))...))))))))......))))......... ( -22.80)
>DroEre_CAF1 9127 99 + 1
CCUGAA------AUG---GUUAAGAACACAACAGGUGUG-CGUUCUUAUUGGUCAGCUAAUCU-GGGCCAAAAUUAGCAGAGCCUGCACCUAACUAGGUGCAAAUGUACU
((((..------.((---........))...)))).(((-((((......((((.((((((.(-......).)))))).)).))(((((((....)))))))))))))). ( -28.00)
>DroYak_CAF1 9076 99 + 1
CCUGAA------AUG---GCCGAGAGCACAACAGGUGUG-CGUUCUUACCGGCCAUCUUAUCU-GGGCCAAAAUUAGCAGAGCCUGCACUUAACUGGGUUCGAAUGUACG
((((..------.((---..(....)..)).)))).(((-(((((..(((((((.........-.)))).......((((...)))).........)))..)))))))). ( -30.80)
>DroAna_CAF1 11569 109 + 1
CCGAAGCCCCCAACGGGCCCCGAGAACACAACAGGUGUUUAGUGCUUGUUGGCCAUCUUAUCGAUGGCCAAAAUUAGCGACUUCUGCACUUGACC-AGUUCACCUGUACU
.((..((((.....))))..)).((((....(((((((..((((((..(((((((((.....)))))))))....))).)))...)))))))...-.))))......... ( -42.40)
>consensus
CCCAAA______AUC___GCCAAGAACACAACAGGUGUG_CGUUCUUGCUGGCCAUCUUAUCU_GGGCCAAAAUUAGCAGACCCUGCACCUAAACAAGUUCAAAUGUACU
.......................((((.....(((((((......(((((((((...........)))))......))))....)))))))......))))......... (-16.24 = -15.77 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:31 2006