Locus 518

Sequence ID	3R_DroMel_CAF1
Location	1,912,643 – 1,912,734
Length	91
Max. P	0.896984

overview

Window 9

Location	1,912,643 – 1,912,734
Length	91
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	87.98
Mean single sequence MFE	-32.15
Consensus MFE	-26.35
Energy contribution	-26.93
Covariance contribution	0.58
Combinations/Pair	1.04
Mean z-score	-2.70
Structure conservation index	0.82
SVM decision value	0.99
SVM RNA-class probability	0.896984
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1912643 91 + 27905053
-------UCAGUUGCCUUAGCGUUGCAGUUUUUGCACGUUAUUCGAGCCAUUUGCAGCAGCAACUACAAGCGACUGCAAUGCGGCAGUUGUUGUUGCC
-------.((..((((...(((((((((((..(((.((.....)).((.....)).)))((........)))))))))))))))))..))........ ( -29.00)
>DroPse_CAF1 57443 80 + 1
-------GCAGU-----------UGCAGUUUUUGCACGUUAUACGAGCCAUUUGCAGCAGCAACUACAUGCGACUGCAUUGCGGCAGUUGUUGUUGCU
-------...((-----------(((((.....((.((.....)).))...)))))))((((((.....((((((((......)))))))).)))))) ( -29.80)
>DroSim_CAF1 71966 91 + 1
-------GCAGUUGCCUUGGCGUUGCAGUUUUUGCACGUUAUUCGAGCCAUUUGCAGCAGCAACUACAAGCGACUGCAAUGCGGCAGUUGUUGUUGCC
-------...(((((..((((..(((((...)))))((.....)).))))...))))).(((((....(((((((((......)))))))))))))). ( -33.50)
>DroEre_CAF1 73138 91 + 1
-------GCAGUUGCCUUGGCGCUGCAGUUUUUGCACGUUAUUCGAGCCAUUUGCAGCAGCAACUACAAGCGACUGCAAUGCGGCAGUUGUUGUUGCC
-------((((((((.((((((((((((.....((.((.....)).))...))))))).)).....)))))))))))...(((((((...))))))). ( -33.70)
>DroYak_CAF1 77024 98 + 1
AGUUGUUGCAGUUGCCUUGGCGUUGCAGUUUUUGCACGUUAUUCGAGCCAUUUGCAGCAGCAACUACAAGCGACUGCAUUGCGGCAGUUGUUGUUGCC
.((.(((((.(((((..((((..(((((...)))))((.....)).))))...))))).))))).)).(((((((((......)))))))))...... ( -37.10)
>DroPer_CAF1 57958 80 + 1
-------GCAGU-----------UGCAGUUUUUGCACGUUAUACGAGCCAUUUGCAGCAGCAACUACAUGCGACUGCAUUGCGGCAGUUGUUGUUGCU
-------...((-----------(((((.....((.((.....)).))...)))))))((((((.....((((((((......)))))))).)))))) ( -29.80)
>consensus
_______GCAGUUGCCUUGGCGUUGCAGUUUUUGCACGUUAUUCGAGCCAUUUGCAGCAGCAACUACAAGCGACUGCAAUGCGGCAGUUGUUGUUGCC
.....................(((((((.....((.((.....)).))...))))))).(((((.....((((((((......)))))))).))))). (-26.35 = -26.93 +   0.58)

alignment

secondary structure

dotplot

Window 0

Location	1,912,643 – 1,912,734
Length	91
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	87.98
Mean single sequence MFE	-27.77
Consensus MFE	-21.42
Energy contribution	-21.20
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-2.43
Structure conservation index	0.77
SVM decision value	0.06
SVM RNA-class probability	0.564715
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1912643 91 - 27905053
GGCAACAACAACUGCCGCAUUGCAGUCGCUUGUAGUUGCUGCUGCAAAUGGCUCGAAUAACGUGCAAAAACUGCAACGCUAAGGCAACUGA-------
((((........))))((.(((((((((.(((((((....))))))).))((.((.....)).))....))))))).))..((....))..------- ( -29.90)
>DroPse_CAF1 57443 80 - 1
AGCAACAACAACUGCCGCAAUGCAGUCGCAUGUAGUUGCUGCUGCAAAUGGCUCGUAUAACGUGCAAAAACUGCA-----------ACUGC-------
.(((.........((((...((((((.(((......))).))))))..))))..........((((.....))))-----------..)))------- ( -22.40)
>DroSim_CAF1 71966 91 - 1
GGCAACAACAACUGCCGCAUUGCAGUCGCUUGUAGUUGCUGCUGCAAAUGGCUCGAAUAACGUGCAAAAACUGCAACGCCAAGGCAACUGC-------
((((........))))((.(((((((((.(((((((....))))))).))((.((.....)).))....))))))).))..((....))..------- ( -29.50)
>DroEre_CAF1 73138 91 - 1
GGCAACAACAACUGCCGCAUUGCAGUCGCUUGUAGUUGCUGCUGCAAAUGGCUCGAAUAACGUGCAAAAACUGCAGCGCCAAGGCAACUGC-------
((((((.((((((((......)))))....))).))))))((((((....((.((.....)).))......))))))((....))......------- ( -30.70)
>DroYak_CAF1 77024 98 - 1
GGCAACAACAACUGCCGCAAUGCAGUCGCUUGUAGUUGCUGCUGCAAAUGGCUCGAAUAACGUGCAAAAACUGCAACGCCAAGGCAACUGCAACAACU
((((........))))....((((((.(((((((((....)))))...((((.((.....))((((.....))))..)))))))).))))))...... ( -31.70)
>DroPer_CAF1 57958 80 - 1
AGCAACAACAACUGCCGCAAUGCAGUCGCAUGUAGUUGCUGCUGCAAAUGGCUCGUAUAACGUGCAAAAACUGCA-----------ACUGC-------
.(((.........((((...((((((.(((......))).))))))..))))..........((((.....))))-----------..)))------- ( -22.40)
>consensus
GGCAACAACAACUGCCGCAAUGCAGUCGCUUGUAGUUGCUGCUGCAAAUGGCUCGAAUAACGUGCAAAAACUGCAACGCCAAGGCAACUGC_______
((((((.((((((((......)))))....))).))))))..((((....((.((.....)).))......))))....................... (-21.42 = -21.20 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:05 2006