Locus 5520

Sequence ID 2L_DroMel_CAF1
Location 15,785,878 – 15,785,981
Length 103
Max. P 0.888415
window8761

overview

Window 1

Location 15,785,878 – 15,785,981
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 70.60
Mean single sequence MFE -23.23
Consensus MFE -11.05
Energy contribution -10.55
Covariance contribution -0.50
Combinations/Pair 1.44
Mean z-score -1.88
Structure conservation index 0.48
SVM decision value 0.95
SVM RNA-class probability 0.888415
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15785878 103 + 22407834
GAUUGGAUCCCGAGCACUAUUAUAUGGAAAAGGAUAAUAGAUUGGAUCUAGUACAAUAUUUCGAGUUUAGGAGAAAGCU-GGAAAGGAAAAGAUC---------------ACUGUAA-AU
.(((((((((.((...(((((((.(....)...))))))).)))))))))))......((((.(((((......)))))-.))))..........---------------.......-.. ( -20.60)
>DroSec_CAF1 9759 103 + 1
GAUUAGAUCCCGAUCACUAUUAUAUGGAAAAGGAUAAUAGAUUGGAUCUAGUACAAUAUUUCGAGUUUAGAAGGAAGCU-GGAAAGGAAAAGAUC---------------ACAGUAA-AU
.(((((((((.((((..((((((.(....)...)))))))))))))))))))......((((.(((((......)))))-.))))..........---------------.......-.. ( -21.40)
>DroAna_CAF1 9082 119 + 1
AAUUGGACUUUAUCGGCUACUAUGAGGGAAGAGAUCAAAGGUUGUGGUUGAUACAACGUUUUGGAUUUAAAAGGAAGGCCAGGAUGGUAAAA-UCCGAUGGCCACCCUUUGCAGUAAGAA
............((...((((..(((((...(((((.((.((((((.....)))))).))...)))))........(((((((((......)-)))..))))).)))))...)))).)). ( -33.10)
>DroSim_CAF1 905 103 + 1
GAUUAGAUCCCGAUCACUAUUAUAUGGAAAAGGAUAAUAGAUUGGAUCUAGUUCAAUAUUUCGAGUUUAGAAGGAAGCU-GGAAAGGAAAAGAUC---------------ACAGUAA-AU
.....(((....))).(((((((.(....)...)))))))(((((((((..(((....((((.(((((......)))))-.)))).))).)))))---------------.))))..-.. ( -21.80)
>DroEre_CAF1 4417 103 + 1
GAUUGGAUCCCGAGUGCUAUUAUAUGGAUAAGGAUAAUAGAUUGGGUCUAGUACAGUUUUUCGAGUUUAAGAGGAAGAC-ACAAAAAAAUUGAAC---------------ACUUACA-AU
.((((((.(((((...(((((((..........))))))).)))))))))))...(((((((..........)))))))-...............---------------.......-.. ( -21.90)
>DroYak_CAF1 914 97 + 1
GAUUGGACCCCGAGCGCUAUUAUAUGGAAAAGGAUAAUAGAUUGGGUCUGGUACAAUUUUUUGAGUUUAGGAGGAAAA--ACAAAAAA-----UC---------------ACCUAAA-AC
.((..(((((.((...(((((((.(....)...))))))).)))))))..)).(((....)))..((((((..((...--........-----))---------------.))))))-.. ( -20.60)
>consensus
GAUUGGAUCCCGAGCACUAUUAUAUGGAAAAGGAUAAUAGAUUGGAUCUAGUACAAUAUUUCGAGUUUAGAAGGAAGCU_AGAAAGGAAAAGAUC_______________ACAGUAA_AU
.(((((((((......(((((((..........)))))))...))))))))).................................................................... (-11.05 = -10.55 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:12 2006