Locus 7609

Sequence ID	X_DroMel_CAF1
Location	18,970,254 – 18,970,398
Length	144
Max. P	0.878414

overview

Window 1

Location	18,970,254 – 18,970,358
Length	104
Sequences	4
Columns	104
Reading direction	forward
Mean pairwise identity	87.30
Mean single sequence MFE	-24.28
Consensus MFE	-22.08
Energy contribution	-22.20
Covariance contribution	0.12
Combinations/Pair	1.14
Mean z-score	-1.73
Structure conservation index	0.91
SVM decision value	0.90
SVM RNA-class probability	0.878414
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18970254 104 + 22224390
AAAAAAUAUUUCGUCAUGUUUUUAGGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUUUAUCGUUUUGCAUUUUUUUUUUCUUUGUUUUCUUGCGGUU
.((((((((......)))))))).....((((((((((.((((.....)))).)))..(((((..(....)..)))))...................))))))) ( -23.30)
>DroSec_CAF1 21527 101 + 1
-AAUAAUAUUUCGUCAUGUUGUUAGGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUAUAUCGUUUUGCGUUUUUUUG--UUUUGUUUUCUUGCGGUU
-((((((((......)))))))).....((((((((((.((((.....)))).)))..((((((........))))))......--...........))))))) ( -25.30)
>DroSim_CAF1 6048 100 + 1
-AAUAAUAUUUCGUCAUGUUGUUAGGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUAUAUAGUUUUGCGUUUUUUU---UUUUGUUUUCUUGCGGUU
-((((((((......)))))))).....((((((((((.((((.....)))).)))..((((((........)))))).....---...........))))))) ( -25.30)
>DroEre_CAF1 11596 96 + 1
-AAUAAUAUUUCGUCAUGUUGUUAGGUUGGCCGAAGGCAGUGCUCACUGUACCGCCAAAGAGUUCAUCGUUUUACAUUACGUG-------UUUUUCUUGCGGUU
-((((((((......)))))))).....(((((..(((.((((.....)))).))).(((((..((.(((........)))))-------...))))).))))) ( -23.20)
>consensus
_AAUAAUAUUUCGUCAUGUUGUUAGGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUAUAUCGUUUUGCAUUUUUUU___UUUUGUUUUCUUGCGGUU
.((((((((......)))))))).....((((((((((.((((.....)))).)))..((((((........))))))...................))))))) (-22.08 = -22.20 +   0.12)

alignment

secondary structure

dotplot

Window 2

Location	18,970,278 – 18,970,398
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.31
Mean single sequence MFE	-27.32
Consensus MFE	-20.70
Energy contribution	-20.66
Covariance contribution	-0.04
Combinations/Pair	1.15
Mean z-score	-1.91
Structure conservation index	0.76
SVM decision value	0.63
SVM RNA-class probability	0.804232
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18970278 120 + 22224390
GGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUUUAUCGUUUUGCAUUUUUUUUUUCUUUGUUUUCUUGCGGUUUCCCCUAAUUAUCUUUAGUAUAAACUUAGUCUACUGUCUU
((..((((((((((.((((.....)))).)))..(((((..(....)..)))))...................)))))))..))((((......))))...................... ( -26.30)
>DroSec_CAF1 21550 117 + 1
GGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUAUAUCGUUUUGCGUUUUUUUG--UUUUGUUUUCUUGCGGUU-CCCCCAAUUAUCUUUAGUAUAAACUUAGUCUACUGUCUU
((..((((((((((.((((.....)))).)))..((((((........))))))......--...........)))))))-..))..........(((((...........))))).... ( -27.10)
>DroSim_CAF1 6071 116 + 1
GGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUAUAUAGUUUUGCGUUUUUUU---UUUUGUUUUCUUGCGGUU-CACCCAAUUAUCUUUAGUAUAAACUUAGUCUACUGUCUU
(((..(((((((((.((((.....)))).)))..((((((........)))))).....---...........)))))).-.)))..........(((((...........))))).... ( -28.40)
>DroEre_CAF1 11619 112 + 1
GGUUGGCCGAAGGCAGUGCUCACUGUACCGCCAAAGAGUUCAUCGUUUUACAUUACGUG-------UUUUUCUUGCGGUUUCC-CCAAUUAUCUUUAGUAUAAACUUAGUCUACUGUCUU
((..(((((..(((.((((.....)))).))).(((((..((.(((........)))))-------...))))).)))))..)-)..........(((((...........))))).... ( -25.60)
>DroYak_CAF1 13437 113 + 1
GGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAAGUUUAUCGUUUUACAUUAUGUU-------CUUUUCGUGCGGUUUCCCCCAGUUAUCUUUAGUAUAAACUUAGUCUACUGUCUU
((..((((((((((.((((.....)))).)))..((((..(((.((.....)).)))..-------))))...)))))))..)).((((...((..(((....))).))...)))).... ( -29.20)
>consensus
GGUUGGCCGCAGGCAGUGCUCACUGUACCGCCACAAUGUUUAUCGUUUUGCAUUUUUUU____UUUGUUUUCUUGCGGUUUCCCCCAAUUAUCUUUAGUAUAAACUUAGUCUACUGUCUU
((..((((((((((.((((.....)))).)))..(((((..........)))))...................)))))))....)).........(((((...........))))).... (-20.70 = -20.66 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:18 2006