Locus 3763

Sequence ID	X_DroMel_CAF1
Location	9,973,828 – 9,973,926
Length	98
Max. P	0.645145

overview

Window 0

Location	9,973,828 – 9,973,926
Length	98
Sequences	4
Columns	105
Reading direction	forward
Mean pairwise identity	88.31
Mean single sequence MFE	-30.33
Consensus MFE	-23.14
Energy contribution	-24.45
Covariance contribution	1.31
Combinations/Pair	1.03
Mean z-score	-1.60
Structure conservation index	0.76
SVM decision value	0.23
SVM RNA-class probability	0.645145
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9973828 98 + 22224390
GUAUUAGUGUGCUAGAGUUGCAGUUGCACUUUGCGAUUCGUGA-AUGCAUUUUGGCCAUUGAUUGAAAUUGACCAAUUCGCUGUGGUGGCGCUAAUGCA------
((((((((((((..(((((((((.......)))))))))....-..))......(((((.(((((........)))))....))))).)))))))))).------ ( -31.20)
>DroSec_CAF1 19217 95 + 1
GUAUUAGUGUGCGAGAGUUGCAGUUGCACU-UGCGACUCGUGAAAUGCAUUUUGGCCAUUGAUUGAAAUUGACCAAUUCGCUGUGGUGGCGCA---GCA------
..(((((((.((..(((((((((......)-))))))))((.....))......)))))))))................((((((....))))---)).------ ( -28.50)
>DroEre_CAF1 6545 101 + 1
GUAUUAGUGUGC--GAACUGGAGUUGCACU-UGCGAUUCGUGA-AUGCAUUUUGGCCAUUGAUGGAAAUUGACCAAUUCGCUGUGGUGGCGCUAAUGCAACAACG
((((((((((((--(((.(((..((((...-.))))(((((.(-((((......).)))).)))))......))).))))).......))))))))))....... ( -30.61)
>DroYak_CAF1 6782 101 + 1
GUAUUAGUGUGC--GACUUGCAGUGGCACU-UGCGAUUCGUGA-AUGCAUUUUGGCCAUUGAUUGAAAUUGACCAAUUCGCUGUGGUGGCGCUAAUGCAACAACA
((((((((..((--.(((.(((((((((.(-..((...))..)-.)))...(((((.(((......))).).))))..))))))))).))))))))))....... ( -31.00)
>consensus
GUAUUAGUGUGC__GAGUUGCAGUUGCACU_UGCGAUUCGUGA_AUGCAUUUUGGCCAUUGAUUGAAAUUGACCAAUUCGCUGUGGUGGCGCUAAUGCA______
((((((((((((......((.((((((.....))))))))......))......(((((.(((((........)))))....))))).))))))))))....... (-23.14 = -24.45 +   1.31)

alignment

secondary structure

dotplot

Window 1

Location	9,973,828 – 9,973,926
Length	98
Sequences	4
Columns	105
Reading direction	reverse
Mean pairwise identity	88.31
Mean single sequence MFE	-21.95
Consensus MFE	-16.59
Energy contribution	-17.34
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.56
Structure conservation index	0.76
SVM decision value	0.16
SVM RNA-class probability	0.614248
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9973828 98 - 22224390
------UGCAUUAGCGCCACCACAGCGAAUUGGUCAAUUUCAAUCAAUGGCCAAAAUGCAU-UCACGAAUCGCAAAGUGCAACUGCAACUCUAGCACACUAAUAC
------((((((..(((.......)))..(((((((...........))))))))))))).-.........((..(((((....)).)))...)).......... ( -19.10)
>DroSec_CAF1 19217 95 - 1
------UGC---UGCGCCACCACAGCGAAUUGGUCAAUUUCAAUCAAUGGCCAAAAUGCAUUUCACGAGUCGCA-AGUGCAACUGCAACUCUCGCACACUAAUAC
------((.---((((........(((..(((((((...........)))))))..))).......((((.(((-........))).)))).))))))....... ( -21.80)
>DroEre_CAF1 6545 101 - 1
CGUUGUUGCAUUAGCGCCACCACAGCGAAUUGGUCAAUUUCCAUCAAUGGCCAAAAUGCAU-UCACGAAUCGCA-AGUGCAACUCCAGUUC--GCACACUAAUAC
(((...((((((..(((.......)))..(((((((...........))))))))))))).-..))).......-.(((((((....))).--))))........ ( -24.50)
>DroYak_CAF1 6782 101 - 1
UGUUGUUGCAUUAGCGCCACCACAGCGAAUUGGUCAAUUUCAAUCAAUGGCCAAAAUGCAU-UCACGAAUCGCA-AGUGCCACUGCAAGUC--GCACACUAAUAC
.((...((((((..(((.......)))..(((((((...........))))))))))))).-..))........-.((((.((.....)).--))))........ ( -22.40)
>consensus
______UGCAUUAGCGCCACCACAGCGAAUUGGUCAAUUUCAAUCAAUGGCCAAAAUGCAU_UCACGAAUCGCA_AGUGCAACUGCAACUC__GCACACUAAUAC
......((((((..(((.......)))..(((((((...........)))))))))))))................((((.............))))........ (-16.59 = -17.34 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:48 2006