Locus 730

Sequence ID	3L_DroMel_CAF1
Location	2,211,647 – 2,211,741
Length	94
Max. P	0.729617

overview

Window 8

Location	2,211,647 – 2,211,741
Length	94
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	81.18
Mean single sequence MFE	-20.80
Consensus MFE	-11.60
Energy contribution	-11.13
Covariance contribution	-0.47
Combinations/Pair	1.24
Mean z-score	-2.02
Structure conservation index	0.56
SVM decision value	0.05
SVM RNA-class probability	0.560772
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2211647 94 + 23771897
GCGGUGCCA-----GCGCUUUUGUCAUAAACCCAUUAAAAGUCAAGGACAAAAUUCAUGUUGCAUGUUUACUCAUGCACACUCACAC-----GCCCACACCACC
..((((...-----(((.(((((((....((.........))....)))))))....(((.(((((......))))))))......)-----))...))))... ( -21.90)
>DroGri_CAF1 255795 90 + 1
----GGGCA-----ACGUUUUUGUCAUAAACCCAUUAAAAGUCAAGGGCGAAAUUCAUGUUGCAUGUUUACUCAUGCACGCUUUUGC-----ACACAAGCGCAC
----(.((.-----..((((.......)))).........((((((((((..........((((((......)))))))))))))).-----))....)).).. ( -20.30)
>DroSim_CAF1 263782 94 + 1
GCGGUGCCA-----GCGCUUUUGUCAUAAACCCAUUAAAAGUCAAGGACAAAAUUCAUGUUGCAUGUUUACUCAUGCACACUCACAC-----GCCCACACCACC
..((((...-----(((.(((((((....((.........))....)))))))....(((.(((((......))))))))......)-----))...))))... ( -21.90)
>DroEre_CAF1 270185 94 + 1
GUGGUGGCA-----GCGCUUUUGUCAUAAACCCAUUAAAAGUCAAGGACAAAAUUCAUGUUGCAUGUUUACUCAUGCACACUCACAC-----ACCCACGCACUC
(((((((..-----....(((((((....((.........))....)))))))....(((.(((((......)))))))).......-----..)))).))).. ( -20.90)
>DroMoj_CAF1 275168 86 + 1
----UAGCA-----ACGUUUUUGUCAUAAACCCAUUAAAAGUCAAGGACGAAAUUCAUGUUGCAUGUUUACUUAAGCACACCCACAC-----ACACAUAC----
----..(((-----(((((((((((....((.........))....)))))))...))))))).(((((....))))).........-----........---- ( -14.40)
>DroAna_CAF1 257338 104 + 1
GCAGCAGGAGGGGCAUGCUUUUGUCAUAAACCCAUUAAAAGUCAAGGACAAAAUUCAUGUUGCAUGUUUACUCAUGCACACUCGCACACUCCGCCCACACCUAC
.....(((.(((((..(((((((............)))))))...(((.........(((.(((((......)))))))).........))))))).).))).. ( -25.37)
>consensus
GCGGUGGCA_____ACGCUUUUGUCAUAAACCCAUUAAAAGUCAAGGACAAAAUUCAUGUUGCAUGUUUACUCAUGCACACUCACAC_____ACCCACACCAAC
..................(((((((....((.........))....)))))))....(((.(((((......))))))))........................ (-11.60 = -11.13 +  -0.47)

alignment

secondary structure

dotplot

Window 9

Location	2,211,647 – 2,211,741
Length	94
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	81.18
Mean single sequence MFE	-30.88
Consensus MFE	-15.23
Energy contribution	-15.82
Covariance contribution	0.59
Combinations/Pair	1.20
Mean z-score	-2.70
Structure conservation index	0.49
SVM decision value	0.42
SVM RNA-class probability	0.729617
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2211647 94 - 23771897
GGUGGUGUGGGC-----GUGUGAGUGUGCAUGAGUAAACAUGCAACAUGAAUUUUGUCCUUGACUUUUAAUGGGUUUAUGACAAAAGCGC-----UGGCACCGC
.(((((((.(((-----((....(((((((((......))))).))))...(((((((...(((((.....)))))...)))))))))))-----).))))))) ( -38.90)
>DroGri_CAF1 255795 90 - 1
GUGCGCUUGUGU-----GCAAAAGCGUGCAUGAGUAAACAUGCAACAUGAAUUUCGCCCUUGACUUUUAAUGGGUUUAUGACAAAAACGU-----UGCCC----
.(((((....))-----)))..((((((((((......)))))..(((((.....((((............)))))))))......))))-----)....---- ( -23.00)
>DroSim_CAF1 263782 94 - 1
GGUGGUGUGGGC-----GUGUGAGUGUGCAUGAGUAAACAUGCAACAUGAAUUUUGUCCUUGACUUUUAAUGGGUUUAUGACAAAAGCGC-----UGGCACCGC
.(((((((.(((-----((....(((((((((......))))).))))...(((((((...(((((.....)))))...)))))))))))-----).))))))) ( -38.90)
>DroEre_CAF1 270185 94 - 1
GAGUGCGUGGGU-----GUGUGAGUGUGCAUGAGUAAACAUGCAACAUGAAUUUUGUCCUUGACUUUUAAUGGGUUUAUGACAAAAGCGC-----UGCCACCAC
..(((.((((..-----((((..(((((((((......))))).))))...(((((((...(((((.....)))))...)))))))))))-----..))))))) ( -30.90)
>DroMoj_CAF1 275168 86 - 1
----GUAUGUGU-----GUGUGGGUGUGCUUAAGUAAACAUGCAACAUGAAUUUCGUCCUUGACUUUUAAUGGGUUUAUGACAAAAACGU-----UGCUA----
----.(((((.(-----(((((....(((....)))..)))))))))))......(((...(((((.....)))))...)))........-----.....---- ( -15.80)
>DroAna_CAF1 257338 104 - 1
GUAGGUGUGGGCGGAGUGUGCGAGUGUGCAUGAGUAAACAUGCAACAUGAAUUUUGUCCUUGACUUUUAAUGGGUUUAUGACAAAAGCAUGCCCCUCCUGCUGC
(((((.(.((((.....((((..(((((((((......))))).))))...(((((((...(((((.....)))))...)))))))))))))))).)))))... ( -37.80)
>consensus
GGGGGUGUGGGC_____GUGUGAGUGUGCAUGAGUAAACAUGCAACAUGAAUUUUGUCCUUGACUUUUAAUGGGUUUAUGACAAAAGCGC_____UGCCACCGC
.................((((..(((((((((......))))).))))...(((((((...(((((.....)))))...))))))))))).............. (-15.23 = -15.82 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:39 2006