Locus 2452

Sequence ID	2L_DroMel_CAF1
Location	6,709,661 – 6,709,756
Length	95
Max. P	0.982836

overview

Window 3

Location	6,709,661 – 6,709,756
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	92.42
Mean single sequence MFE	-28.38
Consensus MFE	-20.56
Energy contribution	-20.04
Covariance contribution	-0.52
Combinations/Pair	1.30
Mean z-score	-2.43
Structure conservation index	0.72
SVM decision value	0.47
SVM RNA-class probability	0.750249
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6709661 95 + 22407834
CAGUUCAUUAGUUUAUCCACCAAUUAUUAUGGUGGAGUCGCCCACUUGGGCUGCCCCAAUUGUAGAUCGUUUGGGCCAUUAAACUGAAACUCAAU
.((((..(((((((((((((((.......)))))))...(((((..((..((((.......))))..))..)))))...)))))))))))).... ( -31.70)
>DroSec_CAF1 22287 95 + 1
CAGCUCAUUAGUUCAUCCACCAAUUAUUAUGGGGGAGUUCCCCACUUGGGCUGCCCCAAUUGUGGAUCGUAUGGGCCAUUAAACUGAAACUCAAU
..((((((......((((((.(((.....(((((.((...(((....))))).))))))))))))))...))))))................... ( -27.70)
>DroSim_CAF1 22159 95 + 1
CAGUUCAUUAGCUCAUCCACCAAUUAUUAUGCGGGAGUUGCCCACUUGGGCUGCCCCAGUUGUGGAUCGUAUGGGCCAUUAAACUGAAACUCAAU
(((((.....((((((((((.((((.......(((.((.((((....)))).)))))))))))))).....))))).....)))))......... ( -29.11)
>DroEre_CAF1 23433 95 + 1
CAGUUCAUUAGUCUAUCCACCAAUUAUUAUGGGGGAGCUGCCCACUUGAGCUGCCCCAGUUGUGGAUCGUUUGGGCCAUUAAACUGAAACUCAAU
(((((.....((((((((((.(((.....(((((.((((.........)))).)))))))))))))).....)))).....)))))......... ( -27.90)
>DroYak_CAF1 23751 95 + 1
CAGUUCAUUAGUUUAUCCAUUAAUUAUUAUGGGGGAGUUGCCCACUUGAGCUGCCCCAGUUGAGGAUCGUUUGGGCCAUUAAACUGAAACUCAAU
(((((((..(((....((((........))))(((.....))))))))))))).....((((((..((((((((....)))))).))..)))))) ( -25.50)
>consensus
CAGUUCAUUAGUUUAUCCACCAAUUAUUAUGGGGGAGUUGCCCACUUGGGCUGCCCCAGUUGUGGAUCGUUUGGGCCAUUAAACUGAAACUCAAU
(((((.....((((((((((.(((.....(((((.((((.........)))).))))))))))))).....))))).....)))))......... (-20.56 = -20.04 +  -0.52)

alignment

secondary structure

dotplot

Window 4

Location	6,709,661 – 6,709,756
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	92.42
Mean single sequence MFE	-28.68
Consensus MFE	-23.26
Energy contribution	-23.10
Covariance contribution	-0.16
Combinations/Pair	1.19
Mean z-score	-2.30
Structure conservation index	0.81
SVM decision value	1.93
SVM RNA-class probability	0.982836
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6709661 95 - 22407834
AUUGAGUUUCAGUUUAAUGGCCCAAACGAUCUACAAUUGGGGCAGCCCAAGUGGGCGACUCCACCAUAAUAAUUGGUGGAUAAACUAAUGAACUG
....(((((.((((((.((.(((((...........))))).))((((....))))...(((((((.......)))))))))))))...))))). ( -33.00)
>DroSec_CAF1 22287 95 - 1
AUUGAGUUUCAGUUUAAUGGCCCAUACGAUCCACAAUUGGGGCAGCCCAAGUGGGGAACUCCCCCAUAAUAAUUGGUGGAUGAACUAAUGAGCUG
.........(((((((.(((..((.....(((((..(((((....)))))((((((.....))))))........)))))))..))).))))))) ( -30.20)
>DroSim_CAF1 22159 95 - 1
AUUGAGUUUCAGUUUAAUGGCCCAUACGAUCCACAACUGGGGCAGCCCAAGUGGGCAACUCCCGCAUAAUAAUUGGUGGAUGAGCUAAUGAACUG
.........(((((((.((((.((.....(((((...((((....)))).(((((.....)))))..........))))))).)))).))))))) ( -30.60)
>DroEre_CAF1 23433 95 - 1
AUUGAGUUUCAGUUUAAUGGCCCAAACGAUCCACAACUGGGGCAGCUCAAGUGGGCAGCUCCCCCAUAAUAAUUGGUGGAUAGACUAAUGAACUG
.........(((((((.(((.(......((((((....(((((.((((....)))).)))))..((.......)))))))).).))).))))))) ( -26.70)
>DroYak_CAF1 23751 95 - 1
AUUGAGUUUCAGUUUAAUGGCCCAAACGAUCCUCAACUGGGGCAGCUCAAGUGGGCAACUCCCCCAUAAUAAUUAAUGGAUAAACUAAUGAACUG
....(((((.((((((...(((((...((.((((....))))....))...))))).......((((........)))).))))))...))))). ( -22.90)
>consensus
AUUGAGUUUCAGUUUAAUGGCCCAAACGAUCCACAACUGGGGCAGCCCAAGUGGGCAACUCCCCCAUAAUAAUUGGUGGAUAAACUAAUGAACUG
....(((((.((((((.((.((((.............)))).))((((....))))...(((.(((.......))).)))))))))...))))). (-23.26 = -23.10 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:16 2006