Locus 3189

Sequence ID	X_DroMel_CAF1
Location	8,459,198 – 8,459,288
Length	90
Max. P	0.962547

overview

Window 9

Location	8,459,198 – 8,459,288
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.79
Mean single sequence MFE	-27.78
Consensus MFE	-20.91
Energy contribution	-21.05
Covariance contribution	0.14
Combinations/Pair	1.09
Mean z-score	-1.58
Structure conservation index	0.75
SVM decision value	1.54
SVM RNA-class probability	0.962547
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8459198 90 + 22224390
G--GCUAAUUAAAUCAAGUGCUCGGCGGGUUUUCCUCGA------UUC---AACUGCGUCAUUGUUUGGACAAUGGCUGAGCAAUUAGCCACCGAUUC-------------------CAU
(--((((((.........(((((((((((((......))------)))---........((((((....)))))))))))))))))))))........-------------------... ( -28.10)
>DroPse_CAF1 7478 85 + 1
UGCGCUAAUUAAAUCGAGUGCUCAGCGGGUUUUCCUUUU------UUC---GACUGCGUCAUUGUUUGGACAAUGGCUGAGCAAUUAGCCGCCG--------------------------
.((((((((.........((((((((((...........------...---..))))((((((((....))))))))))))))))))).)))..-------------------------- ( -26.69)
>DroEre_CAF1 8519 90 + 1
G--GCUAAUUAAAUCAAGUGCUCGGCGGGUUUUCCUCGA------UUC---AACUGCGUCAUUGUUUGGACAAUGGCUGAGCAAUUAGCCACCGAUUC-------------------CCC
(--((((((.........(((((((((((((......))------)))---........((((((....)))))))))))))))))))))........-------------------... ( -28.10)
>DroYak_CAF1 7316 115 + 1
G--GCUAAUUAAAUCAAGUGCUCGUCGGGCUUUCCUCGGCGGCUUUUC---AACUGCGUCAUUGUUUGGACAAUGGCUGAGCAAUUAGCCACCGAUUCCGAUUCCGAUUCCCUAUUUCCC
(--(((((((...(((...((.(((((((.....))))))))).....---......((((((((....)))))))))))..)))))))).............................. ( -32.80)
>DroAna_CAF1 15548 103 + 1
AGCGCUAAUUAAAUCAAGUGCCUGGCGGGUUUUCCUUUUCCUCAUUUUUGUGCCGUCGUCAUUGUUUGGACAAUGGCUGAGCAAUUAGCCAUCACUGAC--C---------------GCC
.(((((..........)))))..(((((...................((((.(((.((....))..)))))))(((((((....))))))).......)--)---------------))) ( -28.30)
>DroPer_CAF1 8739 85 + 1
UGCGCUAAUUAAAUCGAGUGCUCAGCGGGUUUUCCUUUU------UUC---GACUGCGUCAUUGUUUGGACAAUGGCUGAGAAAUUAGCCGCCG--------------------------
.(((((((((..........((((((((...........------...---..))))((((((((....)))))))))))).)))))).)))..-------------------------- ( -22.69)
>consensus
G__GCUAAUUAAAUCAAGUGCUCGGCGGGUUUUCCUCGU______UUC___AACUGCGUCAUUGUUUGGACAAUGGCUGAGCAAUUAGCCACCGAUUC___________________CCC
...((((((.........(((((((((((....))).......................((((((....))))))))))))))))))))............................... (-20.91 = -21.05 +   0.14)

alignment

secondary structure

dotplot

Window 0

Location	8,459,198 – 8,459,288
Length	90
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.79
Mean single sequence MFE	-27.05
Consensus MFE	-16.37
Energy contribution	-16.73
Covariance contribution	0.36
Combinations/Pair	1.05
Mean z-score	-1.78
Structure conservation index	0.61
SVM decision value	1.12
SVM RNA-class probability	0.918551
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8459198 90 - 22224390
AUG-------------------GAAUCGGUGGCUAAUUGCUCAGCCAUUGUCCAAACAAUGACGCAGUU---GAA------UCGAGGAAAACCCGCCGAGCACUUGAUUUAAUUAGC--C
.((-------------------((..((((((((........)))))))))))).........((((((---(((------(((((................)))))))))))).))--. ( -26.59)
>DroPse_CAF1 7478 85 - 1
--------------------------CGGCGGCUAAUUGCUCAGCCAUUGUCCAAACAAUGACGCAGUC---GAA------AAAAGGAAAACCCGCUGAGCACUCGAUUUAAUUAGCGCA
--------------------------..(((.(((((((((((((((((((....))))))........---...------....((.....)))))))))).........)))))))). ( -26.30)
>DroEre_CAF1 8519 90 - 1
GGG-------------------GAAUCGGUGGCUAAUUGCUCAGCCAUUGUCCAAACAAUGACGCAGUU---GAA------UCGAGGAAAACCCGCCGAGCACUUGAUUUAAUUAGC--C
..(-------------------((..((((((((........)))))))))))..........((((((---(((------(((((................)))))))))))).))--. ( -25.59)
>DroYak_CAF1 7316 115 - 1
GGGAAAUAGGGAAUCGGAAUCGGAAUCGGUGGCUAAUUGCUCAGCCAUUGUCCAAACAAUGACGCAGUU---GAAAAGCCGCCGAGGAAAGCCCGACGAGCACUUGAUUUAAUUAGC--C
.((.......(((((((..(((...(((((((((((((((...(.((((((....)))))).)))))))---....)))))))))((.....))..)))....)))))))......)--) ( -33.52)
>DroAna_CAF1 15548 103 - 1
GGC---------------G--GUCAGUGAUGGCUAAUUGCUCAGCCAUUGUCCAAACAAUGACGACGGCACAAAAAUGAGGAAAAGGAAAACCCGCCAGGCACUUGAUUUAAUUAGCGCU
(((---------------(--(((((((.((((...((.(((((((.(((((........))))).))).......)))).))..((.....))))))..))).))))........)))) ( -28.41)
>DroPer_CAF1 8739 85 - 1
--------------------------CGGCGGCUAAUUUCUCAGCCAUUGUCCAAACAAUGACGCAGUC---GAA------AAAAGGAAAACCCGCUGAGCACUCGAUUUAAUUAGCGCA
--------------------------..(((.((((((.((((((((((((....))))))........---...------....((.....))))))))..........))))))))). ( -21.90)
>consensus
GGG___________________GAAUCGGUGGCUAAUUGCUCAGCCAUUGUCCAAACAAUGACGCAGUC___GAA______AAAAGGAAAACCCGCCGAGCACUUGAUUUAAUUAGC__C
...............................(((((((((((.((((((((....))))))........................((.....)))).))))).........))))))... (-16.37 = -16.73 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:19 2006