Locus 2924

Sequence ID	3R_DroMel_CAF1
Location	7,846,006 – 7,846,096
Length	90
Max. P	0.983271

overview

Window 6

Location	7,846,006 – 7,846,096
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.73
Mean single sequence MFE	-31.32
Consensus MFE	-16.35
Energy contribution	-16.55
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-2.87
Structure conservation index	0.52
SVM decision value	1.94
SVM RNA-class probability	0.983271
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7846006 90 + 27905053
GUCUUGGAAUGUGUUGACACAAGUACUCAG--GCUAAAUACGC--------------------------UGGAG--CCGGUCUUAUUCAAAAUGAAUGAGAUUAAACGCCUCCAACGGAA
((((.((..((((....))))....)).))--))......((.--------------------------(((((--.(((((((((((.....)))))))))....)).))))).))... ( -26.40)
>DroPse_CAF1 9928 118 + 1
GACUUGAAUUGUGUUGACACAAGUACUCGG--GCUAAAUACGUAUGUACUCGAAGGUAUGUGUGUACGCCGGAGCGCUGGUCUUAUUCAAAAUGAAUGAGAUUAGACGCCACCAGCAGAC
..(((((.(((((....)))))....))))--)........(((..(((.(....)...)))..)))((.((.(((((((((((((((.....)))))))))))).)))..)).)).... ( -39.30)
>DroEre_CAF1 9209 90 + 1
AUCUUGAAGUGUGUUGACACAAGUACUCAG--GCUAAAUACGC--------------------------UGGAG--CCGGUCUUAUUCAAAAUGAAUGAGAUUAAACGCCUCCAACGUAA
..(((((..((((....)))).....))))--).....((((.--------------------------(((((--.(((((((((((.....)))))))))....)).))))).)))). ( -28.40)
>DroYak_CAF1 9312 90 + 1
GUCUUGAAAUGUGUUGACACAAGUACUCAG--GCUAAAUACGC--------------------------UGGAG--CCGGUCUUAUUCAAAAUGAAUGAGAUUAAACGCCUCCAACGGAA
((((.((..((((....)))).....))))--))......((.--------------------------(((((--.(((((((((((.....)))))))))....)).))))).))... ( -25.30)
>DroAna_CAF1 9918 92 + 1
GACUUGAAUUGUGUUGACACAAGUACUCAGGGGCUAAAUACGU--------------------------AGGAG--CUGAUCUUAUUCAAAAUGAAUGAGAUUAGACGCCUCCAACAGGC
..(((((.(((((....)))))....)))))..........((--------------------------.((((--((((((((((((.....))))))))))))....)))).)).... ( -29.20)
>DroPer_CAF1 9961 118 + 1
GACUUGAAUUGUGUUGACACAAGUACUCGG--GCUAAAUACGUAUGUACUCGAAGGUAUGUGUGUACGCCGGAGCGCUGGUCUUAUUCAAAAUGAAUGAGAUUAGACGCCACCAGCAGAC
..(((((.(((((....)))))....))))--)........(((..(((.(....)...)))..)))((.((.(((((((((((((((.....)))))))))))).)))..)).)).... ( -39.30)
>consensus
GACUUGAAUUGUGUUGACACAAGUACUCAG__GCUAAAUACGC__________________________UGGAG__CCGGUCUUAUUCAAAAUGAAUGAGAUUAAACGCCUCCAACAGAA
.........((((....)))).................................................((((....((((((((((.....))))))))))......))))....... (-16.35 = -16.55 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	7,846,006 – 7,846,096
Length	90
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.73
Mean single sequence MFE	-26.25
Consensus MFE	-14.78
Energy contribution	-14.95
Covariance contribution	0.17
Combinations/Pair	1.08
Mean z-score	-2.00
Structure conservation index	0.56
SVM decision value	0.80
SVM RNA-class probability	0.853326
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7846006 90 - 27905053
UUCCGUUGGAGGCGUUUAAUCUCAUUCAUUUUGAAUAAGACCGG--CUCCA--------------------------GCGUAUUUAGC--CUGAGUACUUGUGUCAACACAUUCCAAGAC
....(((((((.((.....(((.((((.....)))).))).)).--)))))--------------------------))((((((...--..)))))).((((....))))......... ( -24.40)
>DroPse_CAF1 9928 118 - 1
GUCUGCUGGUGGCGUCUAAUCUCAUUCAUUUUGAAUAAGACCAGCGCUCCGGCGUACACACAUACCUUCGAGUACAUACGUAUUUAGC--CCGAGUACUUGUGUCAACACAAUUCAAGUC
((.((((((.((((.((..(((.((((.....)))).)))..)))))))))))).))........(((.((((......((((((...--..)))))).((((....))))))))))).. ( -30.70)
>DroEre_CAF1 9209 90 - 1
UUACGUUGGAGGCGUUUAAUCUCAUUCAUUUUGAAUAAGACCGG--CUCCA--------------------------GCGUAUUUAGC--CUGAGUACUUGUGUCAACACACUUCAAGAU
.((((((((((.((.....(((.((((.....)))).))).)).--)))))--------------------------)))))......--.((((....((((....)))).)))).... ( -25.90)
>DroYak_CAF1 9312 90 - 1
UUCCGUUGGAGGCGUUUAAUCUCAUUCAUUUUGAAUAAGACCGG--CUCCA--------------------------GCGUAUUUAGC--CUGAGUACUUGUGUCAACACAUUUCAAGAC
....(((((((.((.....(((.((((.....)))).))).)).--)))))--------------------------))((((((...--..)))))).((((....))))......... ( -24.40)
>DroAna_CAF1 9918 92 - 1
GCCUGUUGGAGGCGUCUAAUCUCAUUCAUUUUGAAUAAGAUCAG--CUCCU--------------------------ACGUAUUUAGCCCCUGAGUACUUGUGUCAACACAAUUCAAGUC
....((.((((....((.((((.((((.....)))).)))).))--)))).--------------------------))((((((((...))))))))(((((....)))))........ ( -21.40)
>DroPer_CAF1 9961 118 - 1
GUCUGCUGGUGGCGUCUAAUCUCAUUCAUUUUGAAUAAGACCAGCGCUCCGGCGUACACACAUACCUUCGAGUACAUACGUAUUUAGC--CCGAGUACUUGUGUCAACACAAUUCAAGUC
((.((((((.((((.((..(((.((((.....)))).)))..)))))))))))).))........(((.((((......((((((...--..)))))).((((....))))))))))).. ( -30.70)
>consensus
GUCCGUUGGAGGCGUCUAAUCUCAUUCAUUUUGAAUAAGACCAG__CUCCA__________________________ACGUAUUUAGC__CUGAGUACUUGUGUCAACACAAUUCAAGAC
.......((((....((..(((.((((.....)))).)))..))..)))).............................((((((((...)))))))).((((....))))......... (-14.78 = -14.95 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:53 2006