Locus 5790

Sequence ID	3L_DroMel_CAF1
Location	15,674,151 – 15,674,247
Length	96
Max. P	0.855671

overview

Window 9

Location	15,674,151 – 15,674,247
Length	96
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	92.62
Mean single sequence MFE	-30.80
Consensus MFE	-29.04
Energy contribution	-28.96
Covariance contribution	-0.08
Combinations/Pair	1.08
Mean z-score	-1.27
Structure conservation index	0.94
SVM decision value	0.81
SVM RNA-class probability	0.855671
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15674151 96 + 23771897
ACCCA--GCCGCGUGACGUCGUCGCAGCCGUAGUUUAAAAUUGAAAAUUAAAAUUGUUAGACAGCGUGUCGCGCUGUCGCCUGUCAGUGGCAUUUGUU--
.....--(((((.((((......((((...((((((........))))))...))))..(((((((.....)))))))....))))))))).......-- ( -30.50)
>DroSec_CAF1 33699 96 + 1
ACCCA--GCCGCGUGACGUCGUCGCAGCCGUAGUUUAAAAUUGAAAAUUAAAAUUGUUAGACAGCGUGUCGCGCUGUCGCCUGUCGGUGGCAUUUGUU--
.....--(((((.((((......((((...((((((........))))))...))))..(((((((.....)))))))....))))))))).......-- ( -29.80)
>DroEre_CAF1 33095 96 + 1
AGCCA--GCCGCGUGACGUCGUCGCAGCCGUAGUUUAAAAUUGAAAAUUAAAAUUGUUAGACAGCGUGUCGCGCUGUCGCCUGUCAGUGGCAUUUGCU--
(((..--(((((.((((......((((...((((((........))))))...))))..(((((((.....)))))))....)))))))))....)))-- ( -30.60)
>DroYak_CAF1 34180 96 + 1
AGCCA--GCCGCGUGACGUCGUCGCAGCCGUAGUUUAAAAUUGAAAAUUAAAAUUGUUAGACAGCGUGUCGCGCUGUCGCCUGUCAGUGGCAUUUGUU--
.....--(((((.((((......((((...((((((........))))))...))))..(((((((.....)))))))....))))))))).......-- ( -30.50)
>DroAna_CAF1 91590 100 + 1
AGCCAGAGCCUGUUGACGCGGUUGCAGCCGUAGCUUAGAAUUGAAAAUUAAAAUUGUUAGACAGCGUGUCGCGCUGUCGCCUGUCACUGGCAUUCGCUGG
..((((.(((.((.((((((((....)))))............................(((((((.....)))))))....))))).))).....)))) ( -32.60)
>consensus
AGCCA__GCCGCGUGACGUCGUCGCAGCCGUAGUUUAAAAUUGAAAAUUAAAAUUGUUAGACAGCGUGUCGCGCUGUCGCCUGUCAGUGGCAUUUGUU__
.......(((((.((((......((((...((((((........))))))...))))..(((((((.....)))))))....)))))))))......... (-29.04 = -28.96 +  -0.08)

alignment

secondary structure

dotplot

Window 0

Location	15,674,151 – 15,674,247
Length	96
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	92.62
Mean single sequence MFE	-29.40
Consensus MFE	-22.32
Energy contribution	-22.92
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.94
Structure conservation index	0.76
SVM decision value	0.46
SVM RNA-class probability	0.746294
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15674151 96 - 23771897
--AACAAAUGCCACUGACAGGCGACAGCGCGACACGCUGUCUAACAAUUUUAAUUUUCAAUUUUAAACUACGGCUGCGACGACGUCACGCGGC--UGGGU
--.......(((.......)))(((((((.....))))))).............................((((((((.........))))))--))... ( -28.30)
>DroSec_CAF1 33699 96 - 1
--AACAAAUGCCACCGACAGGCGACAGCGCGACACGCUGUCUAACAAUUUUAAUUUUCAAUUUUAAACUACGGCUGCGACGACGUCACGCGGC--UGGGU
--.......(((.......)))(((((((.....))))))).............................((((((((.........))))))--))... ( -28.30)
>DroEre_CAF1 33095 96 - 1
--AGCAAAUGCCACUGACAGGCGACAGCGCGACACGCUGUCUAACAAUUUUAAUUUUCAAUUUUAAACUACGGCUGCGACGACGUCACGCGGC--UGGCU
--(((....(((.......)))(((((((.....))))))).............................((((((((.........))))))--))))) ( -30.00)
>DroYak_CAF1 34180 96 - 1
--AACAAAUGCCACUGACAGGCGACAGCGCGACACGCUGUCUAACAAUUUUAAUUUUCAAUUUUAAACUACGGCUGCGACGACGUCACGCGGC--UGGCU
--.......(((.......)))(((((((.....))))))).............................((((((((.........))))))--))... ( -28.30)
>DroAna_CAF1 91590 100 - 1
CCAGCGAAUGCCAGUGACAGGCGACAGCGCGACACGCUGUCUAACAAUUUUAAUUUUCAAUUCUAAGCUACGGCUGCAACCGCGUCAACAGGCUCUGGCU
..(((.(..(((..((((.((.(((((((.....)))))))........................(((....)))....))..))))...)))..).))) ( -32.10)
>consensus
__AACAAAUGCCACUGACAGGCGACAGCGCGACACGCUGUCUAACAAUUUUAAUUUUCAAUUUUAAACUACGGCUGCGACGACGUCACGCGGC__UGGCU
.........(((.......)))(((((((.....)))))))..........................(((..((((((.........))))))..))).. (-22.32 = -22.92 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:01 2006