Locus 1954

Sequence ID 3R_DroMel_CAF1
Location 5,510,331 – 5,510,422
Length 91
Max. P 0.694758
window3210

overview

Window 0

Location 5,510,331 – 5,510,422
Length 91
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 81.08
Mean single sequence MFE -30.98
Consensus MFE -20.04
Energy contribution -19.82
Covariance contribution -0.22
Combinations/Pair 1.41
Mean z-score -1.78
Structure conservation index 0.65
SVM decision value 0.34
SVM RNA-class probability 0.694758
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5510331 91 - 27905053
CAAGAGCUUCUUUGAGGCCAAGAAACUGGUGUGAGGUGCUC--CGG-GGCUAGGGCAUCAUCAGCAC---CACUGGCCAACCACUGGCCUCAUUGUU
.........(..((((((((......(((((((((((((.(--(..-.....))))))).))).)))---)).(((....))).))))))))..).. ( -34.60)
>DroSec_CAF1 4520 91 - 1
CAAGAGCUUCUUUGAGGCCAAGAAACUGGUGUGAGGUGCUC--CGG-GGCUAGGGCAUCAUCACCAC---CACUGGCCAACCACUGGCCUCAUUGUU
.........(..((((((((......(((((((((((((.(--(..-.....))))))).))).)))---)).(((....))).))))))))..).. ( -34.60)
>DroSim_CAF1 4511 91 - 1
CAAGAGCUUCUUUGAGGCCAAGAAACUGGUGUGAGGUGCUC--CGG-GGCUAGGGCAUCAUCAGCAC---CACUGGCCAACCACUGGCCUCAUUGUU
.........(..((((((((......(((((((((((((.(--(..-.....))))))).))).)))---)).(((....))).))))))))..).. ( -34.60)
>DroEre_CAF1 4553 88 - 1
UAAGAGCUUCUUUGAGGCCAAGAAACUGGUGUGAGGUGCUC--CGGAAACUGCGGCAUCAUCAGCAC---CACUGGCC----ACCGGCCUCAUUGUU
.........(..(((((((.......((((((((((((((.--((....).).)))))).))).)))---))..((..----.)))))))))..).. ( -32.70)
>DroWil_CAF1 5524 91 - 1
GAAGAGCUUCUUUGAAGCCAAGAAACUGGUCUGAAGAAUUAACGAG-UGCUU-GGUAUCUUCAAUUUAUAUUCUGCUCAUCAUUUGGCUUCAU----
((((.....))))(((((((((((..(((..((((((.....(((.-...))-)...))))))..)))..))))..........)))))))..---- ( -18.60)
>DroYak_CAF1 4559 88 - 1
CAAGAGCUUCUUUGAGGCCAAGAAACUGGUGUGAGGUGCUC--CGGAGGCUAGUGCAUCAUCAGCAC---CACUGGCC----ACCGGCCUUAUUGUU
.........(..(((((((......((((.((.....)).)--))).((((((((............---))))))))----...)))))))..).. ( -30.80)
>consensus
CAAGAGCUUCUUUGAGGCCAAGAAACUGGUGUGAGGUGCUC__CGG_GGCUAGGGCAUCAUCAGCAC___CACUGGCCAACCACUGGCCUCAUUGUU
............((((((((......(((((((..(((((........((....))......)))))...)))..)))).....))))))))..... (-20.04 = -19.82 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:46 2006