Locus 4680

Sequence ID	2R_DroMel_CAF1
Location	15,321,360 – 15,321,451
Length	91
Max. P	0.621295

overview

Window 6

Location	15,321,360 – 15,321,451
Length	91
Sequences	6
Columns	94
Reading direction	forward
Mean pairwise identity	88.58
Mean single sequence MFE	-32.37
Consensus MFE	-25.83
Energy contribution	-26.67
Covariance contribution	0.84
Combinations/Pair	1.14
Mean z-score	-2.22
Structure conservation index	0.80
SVM decision value	0.18
SVM RNA-class probability	0.621295
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15321360 91 + 20766785
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCUGGCUCGCGAGCUUGCAUGUAAGCAGUCGCAGCUAGGAAG---GACAGUAGCGA
((((((((((..........((((.....))))......((((((.(((((((((....)))))..))))))))))....---)))))))))). ( -38.10)
>DroSec_CAF1 127380 94 + 1
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCCGGCCCGCGAGCUUGCAUGUAAGCAGUCGCAGCUAGGAAGGAGGACAGUAGCGA
((((((((((....((((..((((.....))))......(((((..(((((((((....)))))..)))).))).)).)))).)))))))))). ( -35.70)
>DroSim_CAF1 105111 94 + 1
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCCGGCCCGCGAGCUUGCAUGUAAGCAGUCGCAGCUAGGAAGGAGGACAGUAGCGA
((((((((((....((((..((((.....))))......(((((..(((((((((....)))))..)))).))).)).)))).)))))))))). ( -35.70)
>DroEre_CAF1 113895 90 + 1
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCCGGCCCGCGAGCUUGCAUGUA-GCAGUCGCAGCUAGGAAG---GACAGUAGCGA
((((((((((.....(((.(((.(((((((((((((((((((.....)).)).)).)))))-)))).)).)).))).)))---)))))))))). ( -33.40)
>DroYak_CAF1 117838 91 + 1
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCCGGCCCACGAGCUUGCAUGUAAGCAGUCGCAGCUAGGAAG---GACAGUAGCGA
((((((((((....(((((.......(((((.((((.(((((.....)).))).)).((....)))).))))))))))..---)))))))))). ( -31.51)
>DroAna_CAF1 101215 87 + 1
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCCCGCCAG----CCAGCCUGUAAGCUUUUAUGUAUUGGGAG---GACAGUGGGCC
..((((((((..........((((.....))))......((((.((.----..(((......)))....))...))))..---))))))))... ( -19.80)
>consensus
CGCUACUGUCAUUAUCUUGUUAACUUGUUGUUACGUCAGCCGGCCCGCGAGCUUGCAUGUAAGCAGUCGCAGCUAGGAAG___GACAGUAGCGA
((((((((((....(((((....((.((((......)))).))...((((..((((......))))))))...))))).....)))))))))). (-25.83 = -26.67 +   0.84)

alignment

secondary structure

dotplot

Window 7

Location	15,321,360 – 15,321,451
Length	91
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	88.58
Mean single sequence MFE	-28.30
Consensus MFE	-22.74
Energy contribution	-23.63
Covariance contribution	0.89
Combinations/Pair	1.18
Mean z-score	-1.96
Structure conservation index	0.80
SVM decision value	-0.01
SVM RNA-class probability	0.526505
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15321360 91 - 20766785
UCGCUACUGUC---CUUCCUAGCUGCGACUGCUUACAUGCAAGCUCGCGAGCCAGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((((((((((---....((.(((((((((((......)).)).)))).))).))((....((((.....))))...)).....)))))))))) ( -30.80)
>DroSec_CAF1 127380 94 - 1
UCGCUACUGUCCUCCUUCCUAGCUGCGACUGCUUACAUGCAAGCUCGCGGGCCGGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((((((((((.......(..(((((((((((......)).)).)))).)))..)((....((((.....))))...)).....)))))))))) ( -30.60)
>DroSim_CAF1 105111 94 - 1
UCGCUACUGUCCUCCUUCCUAGCUGCGACUGCUUACAUGCAAGCUCGCGGGCCGGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((((((((((.......(..(((((((((((......)).)).)))).)))..)((....((((.....))))...)).....)))))))))) ( -30.60)
>DroEre_CAF1 113895 90 - 1
UCGCUACUGUC---CUUCCUAGCUGCGACUGC-UACAUGCAAGCUCGCGGGCCGGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((((((((((---....(..(((((((((((-.....)).)).)))).)))..)((....((((.....))))...)).....)))))))))) ( -30.40)
>DroYak_CAF1 117838 91 - 1
UCGCUACUGUC---CUUCCUAGCUGCGACUGCUUACAUGCAAGCUCGUGGGCCGGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((((((((((---.....((((((.....((((((..(....)..))))))))))))...((((.....))))..........)))))))))) ( -28.90)
>DroAna_CAF1 101215 87 - 1
GGCCCACUGUC---CUCCCAAUACAUAAAAGCUUACAGGCUGG----CUGGCGGGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((..((((((---..(((....((....((((....))))..----.))..)))((....((((.....))))...)).....)))))).)). ( -18.50)
>consensus
UCGCUACUGUC___CUUCCUAGCUGCGACUGCUUACAUGCAAGCUCGCGGGCCGGCUGACGUAACAACAAGUUAACAAGAUAAUGACAGUAGCG
.((((((((((.......((.(((((((.(((......)))...)))).))).))((....((((.....))))...)).....)))))))))) (-22.74 = -23.63 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:33 2006