Locus 6799

Sequence ID 2L_DroMel_CAF1
Location 19,007,136 – 19,007,258
Length 122
Max. P 0.979525
window10852 window10853

overview

Window 2

Location 19,007,136 – 19,007,248
Length 112
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 76.49
Mean single sequence MFE -48.41
Consensus MFE -26.62
Energy contribution -27.63
Covariance contribution 1.01
Combinations/Pair 1.43
Mean z-score -1.94
Structure conservation index 0.55
SVM decision value 0.82
SVM RNA-class probability 0.859954
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19007136 112 - 22407834
GGCGACACUGCUCCUCCAGGAUUCGUCGAGCACACGGUUGUCCUGGAUCAGAAUGAUCGUGUGCUCGUUCUCGGUGGCCACCAUCGUCUCCUGGCGGCGGGUGCGCAGCCGC
.(((.((((.(.((.((((((.....((((((((((((..(.(((...))).)..))))))))))))....((((((...))))))..)))))).)).))))))))...... ( -53.80)
>DroPse_CAF1 9200 112 - 1
CGAUGAGCUAUUCCUACGCGCCUCAUCUAAAAUAUUCGUAUCCUGUACGAGUAUGAUCAUGUGCUCGUUCUCAGCGGCCACCAGAAUCUCACUGUUGAGGGUUCGCAUCCGC
.(((((((...........).))))))....((((((((((...))))))))))......((((..(..((((((((..............))))))))..)..)))).... ( -29.54)
>DroSec_CAF1 10055 112 - 1
GGCGACACUGCUCCUCCGGGAUUCGUCGAGCAUACGGUUGUCCUGGAUCAGAAUGAUCGUGUGCUCGUUCUCGGUGGCCACCAUCGUCUCCUGGCGGCGGGUGCGCAGCCGC
.(((...((((.((.((((((.....((((((((((((..(.(((...))).)..)))))))))))).)))))).)).((((.(((((....)))))..)))).)))).))) ( -52.50)
>DroEre_CAF1 10207 112 - 1
GGCCGCACUGUUCCUCCGGGAUUCGUCCAGCACAUGGUUGUCCUGGAUAAGGAUGAUCGUGUGCUCGUUCCCGGUGGCCACCAGCGUCUCCUGGCGGCGGGUGCGCAGCCGC
(((((((((....(.((((((..((...((((((((((..((((.....))))..)))))))))))).)))))).)(((.((((......)))).))).))))))..))).. ( -62.40)
>DroYak_CAF1 7280 112 - 1
AGCGACACUGUUCCUCCGGGAUUCGUCUAGCACACGGUUGUCCUGGAUAAGGAUGAUCGUAUGCUCGUGCCCGGUGGCCACCAUCGUCUCCUGGCGGCGGGUGCGCAGCCGC
.(((.(((....((.(((((...((...((((.(((((..((((.....))))..))))).))))))..))))).))...((..((((....))))..))))))))...... ( -50.80)
>DroAna_CAF1 1962 112 - 1
AGCGGAAGUGCUCCGUCGAGUCUGGUCCAGGGACUGGACAUCCUGGAUGACGAUGAUCGUGUGCUGGCUUUCGGUGGCCACCAUCAGCUCCUGUUUGCGUGUCCGCAAACGA
.(((((.....))))).(((.(((((((((((........)))))))).(((.....)))(((.(((((......))))).))))))))).((((((((....)))))))). ( -41.40)
>consensus
GGCGACACUGCUCCUCCGGGAUUCGUCCAGCACACGGUUGUCCUGGAUAAGGAUGAUCGUGUGCUCGUUCUCGGUGGCCACCAUCGUCUCCUGGCGGCGGGUGCGCAGCCGC
.(((...((((.((.(((((...((...(((((((((((((.((.....)).)))))))))))))))..))))).)).......((((....))))))))...)))...... (-26.62 = -27.63 +   1.01)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,007,168 – 19,007,258
Length 90
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 65.87
Mean single sequence MFE -36.85
Consensus MFE -17.45
Energy contribution -18.93
Covariance contribution 1.48
Combinations/Pair 1.42
Mean z-score -2.16
Structure conservation index 0.47
SVM decision value 1.84
SVM RNA-class probability 0.979525
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19007168 90 - 22407834
--------------------------CUCUCCG----CGAGGCGACACUGCUCCUCCAGGAUUCGUCGAGCACACGGUUGUCCUGGAUCAGAAUGAUCGUGUGCUCGUUCUCGGUGGCCA
--------------------------.((.(((----.(((((((..(((......)))...)))))(((((((((((..(.(((...))).)..)))))))))))..)).))).))... ( -37.90)
>DroPse_CAF1 9232 120 - 1
GUCACAUUGCAUACAGAAUUCAUUCACUCUUCUUGGACGACGAUGAGCUAUUCCUACGCGCCUCAUCUAAAAUAUUCGUAUCCUGUACGAGUAUGAUCAUGUGCUCGUUCUCAGCGGCCA
(((.((((((.....(((....)))..(((....))).).))))).(((......(((.((..(((.....((((((((((...))))))))))....))).)).)))....)))))).. ( -24.30)
>DroSec_CAF1 10087 90 - 1
--------------------------CUCUCCG----CGAGGCGACACUGCUCCUCCGGGAUUCGUCGAGCAUACGGUUGUCCUGGAUCAGAAUGAUCGUGUGCUCGUUCUCGGUGGCCA
--------------------------.((.((.----...)).)).......((.((((((.....((((((((((((..(.(((...))).)..)))))))))))).)))))).))... ( -39.60)
>DroEre_CAF1 10239 90 - 1
--------------------------AGCGCCG----CGAGGCCGCACUGUUCCUCCGGGAUUCGUCCAGCACAUGGUUGUCCUGGAUAAGGAUGAUCGUGUGCUCGUUCCCGGUGGCCA
--------------------------.(((((.----...)).)))......((.((((((..((...((((((((((..((((.....))))..)))))))))))).)))))).))... ( -48.90)
>DroYak_CAF1 7312 90 - 1
--------------------------ACCGCCG----GGAAGCGACACUGUUCCUCCGGGAUUCGUCUAGCACACGGUUGUCCUGGAUAAGGAUGAUCGUAUGCUCGUGCCCGGUGGCCA
--------------------------.((((((----((..(((((...(((((...)))))..))).((((.(((((..((((.....))))..))))).)))).)).))))))))... ( -42.70)
>DroAna_CAF1 1994 83 - 1
-------------------------------------CGAAGCGGAAGUGCUCCGUCGAGUCUGGUCCAGGGACUGGACAUCCUGGAUGACGAUGAUCGUGUGCUGGCUUUCGGUGGCCA
-------------------------------------((((((...((..(((((..(((((..(((....)))..))).)).))))..(((.....))))..)).)).))))....... ( -27.70)
>consensus
__________________________CUCUCCG____CGAGGCGACACUGCUCCUCCGGGAUUCGUCCAGCACACGGUUGUCCUGGAUAAGGAUGAUCGUGUGCUCGUUCUCGGUGGCCA
....................................................((.(((((...((...(((((((((((((.((.....)).)))))))))))))))..))))).))... (-17.45 = -18.93 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:13 2006