Locus 3542

Sequence ID	X_DroMel_CAF1
Location	9,492,059 – 9,492,150
Length	91
Max. P	0.995647

overview

Window 9

Location	9,492,059 – 9,492,150
Length	91
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	95.62
Mean single sequence MFE	-26.72
Consensus MFE	-21.98
Energy contribution	-22.02
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-3.02
Structure conservation index	0.82
SVM decision value	2.60
SVM RNA-class probability	0.995647
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9492059 91 + 22224390
CCCAAAAGAGAGGUGAGCGAUGCUAUGCGUCAUCGUAUUUAUGAUCCUCACCUCUUUCCCAGCG-AUCACGUUUGUUUAUCUCGCCUCUUUC
......(((((((((((....((...((((.(((((......((........)).......)))-)).))))..))....))))))))))). ( -26.32)
>DroSec_CAF1 35486 91 + 1
CCCAAAAGAGAGGUGAGCGAUGCUAUGCGUCAUCGUAUUUAUGAUCCUCACCUCUUUCACAGCG-AUCACGUUGGUUUAUCUCGCCUCUUUC
......(((((((((((....((((.((((.(((((......((........)).......)))-)).))))))))....))))))))))). ( -27.82)
>DroSim_CAF1 35403 92 + 1
CCCAAAAGAGAGGUGAGCGAUGCUAUGCGUCAUCGUAUUUAUGAUCCUCACCUCUUUCACAGCAAAUCACGUUUGUUUAUCUCGCCUCUUUC
......(((((((((((.(((((...)))))(((((....))))).)))))))))))...(((((((...)))))))............... ( -24.70)
>DroEre_CAF1 35584 91 + 1
CCCAAAAGAGAGGUGAGCGAUGCUAUGCGUCAUCGUAUUUAUGAUCCUCACCUCUGUUCCAGCG-AUCAUGUUUGUUUAUCUCGCGUCUUUC
....(((((((((((((.(((((...)))))(((((....))))).)))))))).......(((-(..(((......))).)))).))))). ( -26.70)
>DroYak_CAF1 35986 91 + 1
CCCAAAAGAGAGGUGAGCGAUGGUAUGCGUCAUCGUAUUUAUGAUCCUCACCUCUUUCCCAGCG-AUCACGUUUGUUUAUCUCGCGUCUUUC
......(((((((((((.(((.(((((((....))))..))).))))))))))))))....(((-(...............))))....... ( -28.06)
>consensus
CCCAAAAGAGAGGUGAGCGAUGCUAUGCGUCAUCGUAUUUAUGAUCCUCACCUCUUUCCCAGCG_AUCACGUUUGUUUAUCUCGCCUCUUUC
....(((((((((((((.(((...(((((....))))).....))))))))))).......(((....((....))......))).))))). (-21.98 = -22.02 +   0.04)

alignment

secondary structure

dotplot

Window 0

Location	9,492,059 – 9,492,150
Length	91
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	95.62
Mean single sequence MFE	-25.69
Consensus MFE	-21.10
Energy contribution	-21.14
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.85
Structure conservation index	0.82
SVM decision value	0.93
SVM RNA-class probability	0.883623
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9492059 91 - 22224390
GAAAGAGGCGAGAUAAACAAACGUGAU-CGCUGGGAAAGAGGUGAGGAUCAUAAAUACGAUGACGCAUAGCAUCGCUCACCUCUCUUUUGGG
(((((((((((.....((....))..)-))))......((((((((...........(((((.(.....))))))))))))))))))))... ( -26.80)
>DroSec_CAF1 35486 91 - 1
GAAAGAGGCGAGAUAAACCAACGUGAU-CGCUGUGAAAGAGGUGAGGAUCAUAAAUACGAUGACGCAUAGCAUCGCUCACCUCUCUUUUGGG
(((((((((((.....((....))..)-))))......((((((((...........(((((.(.....))))))))))))))))))))... ( -26.20)
>DroSim_CAF1 35403 92 - 1
GAAAGAGGCGAGAUAAACAAACGUGAUUUGCUGUGAAAGAGGUGAGGAUCAUAAAUACGAUGACGCAUAGCAUCGCUCACCUCUCUUUUGGG
((((((((((((....((....))..))))))......((((((((...........(((((.(.....))))))))))))))))))))... ( -24.90)
>DroEre_CAF1 35584 91 - 1
GAAAGACGCGAGAUAAACAAACAUGAU-CGCUGGAACAGAGGUGAGGAUCAUAAAUACGAUGACGCAUAGCAUCGCUCACCUCUCUUUUGGG
((((((.((((...............)-))).......((((((((...........(((((.(.....))))))))))))))))))))... ( -24.36)
>DroYak_CAF1 35986 91 - 1
GAAAGACGCGAGAUAAACAAACGUGAU-CGCUGGGAAAGAGGUGAGGAUCAUAAAUACGAUGACGCAUACCAUCGCUCACCUCUCUUUUGGG
....((((((...........)))).)-).(..(((.(((((((((...........(((((........)))))))))))))).)))..). ( -26.20)
>consensus
GAAAGAGGCGAGAUAAACAAACGUGAU_CGCUGGGAAAGAGGUGAGGAUCAUAAAUACGAUGACGCAUAGCAUCGCUCACCUCUCUUUUGGG
((((((.(((......((....))....))).......((((((((...........(((((........)))))))))))))))))))... (-21.10 = -21.14 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:00 2006