Locus 616

Sequence ID	X_DroMel_CAF1
Location	1,692,589 – 1,692,684
Length	95
Max. P	0.998413

overview

Window 7

Location	1,692,589 – 1,692,684
Length	95
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	97.90
Mean single sequence MFE	-25.54
Consensus MFE	-24.76
Energy contribution	-24.60
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.08
Structure conservation index	0.97
SVM decision value	3.09
SVM RNA-class probability	0.998413
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1692589 95 + 22224390
UUCAAUUGUUGAUCUUAAUUUAGAACAACGAGUGGGUUGUGUGAUGCUGUGAUUUCCUCUCUAUAAACGUAGUGUUGGAUC-CAUCACCGCCCCAU
.....((((((.(((......))).))))))(((((.((.((((((....((..(((.(.((((....)))).)..)))))-)))))))).))))) ( -26.20)
>DroSec_CAF1 32728 96 + 1
UUCAAUUGUUGAUCUUAAUUUAGAACAACGAGUGGGUUGUGUGAUGCUGUGAUUUCCUCUCUAUAAACGUAGUGUUGGAUCCCAUCACCGCCCCAU
.....((((((.(((......))).))))))(((((.((.((((((..(.((..(((.(.((((....)))).)..)))))))))))))).))))) ( -26.50)
>DroSim_CAF1 26852 95 + 1
UUCAAUUGUUGAUCUUAAUUUAGAACAACGAGUGGGUUGUGUGAUGCUGUGAUUUCCUCUCUAUAAACGUAGUGUUGGAUC-CAUCACCGCCCCAU
.....((((((.(((......))).))))))(((((.((.((((((....((..(((.(.((((....)))).)..)))))-)))))))).))))) ( -26.20)
>DroEre_CAF1 28556 95 + 1
UUCAAUUGUUGAUCUUAAUUUAGAACAACGAGUGGGUUGUGUGAUGCUGUGAUUUCCUCUCUAUAAACUUAGUGUUGGACC-CAUCAUCGCCCCAU
.....((((((.(((......))).))))))(((((....((((((..(((...(((.(.(((......))).)..)))..-)))))))))))))) ( -24.20)
>DroYak_CAF1 26659 95 + 1
UUCAAUUGUUGAUCUUAAUUUAGAACAACGAGUGGGUUGUGUGAUGCUGUGAUUUCCUCUCUAUAAACUUAGUGUUGGACC-CAUCACCGCCCCAU
.....((((((.(((......))).))))))(((((.((.((((((........(((.(.(((......))).)..)))..-)))))))).))))) ( -24.60)
>consensus
UUCAAUUGUUGAUCUUAAUUUAGAACAACGAGUGGGUUGUGUGAUGCUGUGAUUUCCUCUCUAUAAACGUAGUGUUGGAUC_CAUCACCGCCCCAU
.....((((((.(((......))).))))))(((((.((.((((((........(((.(.(((......))).)..)))...)))))))).))))) (-24.76 = -24.60 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	1,692,589 – 1,692,684
Length	95
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	97.90
Mean single sequence MFE	-20.60
Consensus MFE	-19.74
Energy contribution	-19.70
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.16
Structure conservation index	0.96
SVM decision value	0.07
SVM RNA-class probability	0.570755
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1692589 95 - 22224390
AUGGGGCGGUGAUG-GAUCCAACACUACGUUUAUAGAGAGGAAAUCACAGCAUCACACAACCCACUCGUUGUUCUAAAUUAAGAUCAACAAUUGAA
.((((...((((((-.........(((......))).((.....))....))))))....))))...((((.(((......))).))))....... ( -20.60)
>DroSec_CAF1 32728 96 - 1
AUGGGGCGGUGAUGGGAUCCAACACUACGUUUAUAGAGAGGAAAUCACAGCAUCACACAACCCACUCGUUGUUCUAAAUUAAGAUCAACAAUUGAA
.((((...((((((.(((((....(((......)))...)))..))....))))))....))))...((((.(((......))).))))....... ( -21.70)
>DroSim_CAF1 26852 95 - 1
AUGGGGCGGUGAUG-GAUCCAACACUACGUUUAUAGAGAGGAAAUCACAGCAUCACACAACCCACUCGUUGUUCUAAAUUAAGAUCAACAAUUGAA
.((((...((((((-.........(((......))).((.....))....))))))....))))...((((.(((......))).))))....... ( -20.60)
>DroEre_CAF1 28556 95 - 1
AUGGGGCGAUGAUG-GGUCCAACACUAAGUUUAUAGAGAGGAAAUCACAGCAUCACACAACCCACUCGUUGUUCUAAAUUAAGAUCAACAAUUGAA
.(((((((((((((-(((......(((......))).((.....)).............))))).))))))))))).................... ( -19.30)
>DroYak_CAF1 26659 95 - 1
AUGGGGCGGUGAUG-GGUCCAACACUAAGUUUAUAGAGAGGAAAUCACAGCAUCACACAACCCACUCGUUGUUCUAAAUUAAGAUCAACAAUUGAA
.((((...((((((-.........(((......))).((.....))....))))))....))))...((((.(((......))).))))....... ( -20.80)
>consensus
AUGGGGCGGUGAUG_GAUCCAACACUACGUUUAUAGAGAGGAAAUCACAGCAUCACACAACCCACUCGUUGUUCUAAAUUAAGAUCAACAAUUGAA
.((((...((((((.(((((....(((......)))...)))..))....))))))....))))...((((.(((......))).))))....... (-19.74 = -19.70 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:31 2006