Locus 5547

Sequence ID	2L_DroMel_CAF1
Location	15,809,161 – 15,809,293
Length	132
Max. P	0.999771

overview

Window 9

Location	15,809,161 – 15,809,254
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	99.57
Mean single sequence MFE	-18.12
Consensus MFE	-18.28
Energy contribution	-18.12
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-2.08
Structure conservation index	1.01
SVM decision value	2.66
SVM RNA-class probability	0.996176
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15809161 93 + 22407834
AUGAAGCAAAAGUAAAUUUCCACUUGCAGUCAAUAAUCAACUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCC
..((((((................((((.((((((.(((((((.........))))...)))..))))))))))(((......))))))))). ( -18.60)
>DroSec_CAF1 3711 93 + 1
AUGAAGCAAAAGUAAAUUUCCACUUGCAGUCAAUAAUCAACUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCC
..((((((................((((.((((((.(((((((.........))))...)))..))))))))))(((......))))))))). ( -18.60)
>DroSim_CAF1 3725 93 + 1
AUGAAGCAAAAGUAAAUUUCCACUUGCAGUCAAUAAUCAACUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCC
..((((((................((((.((((((.(((((((.........))))...)))..))))))))))(((......))))))))). ( -18.60)
>DroEre_CAF1 3801 93 + 1
AUGAAGCAAAAGUAAAUUUCCACUUGCAGUCAAUAAUCAACUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCC
..((((((................((((.((((((.(((((((.........))))...)))..))))))))))(((......))))))))). ( -18.60)
>DroYak_CAF1 28805 93 + 1
AUGAAGCAAAAGUAAAUUUCCACUUGCAGUCAAUAAUCAACUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGUUUCC
..((((((................((((.((((((.(((((((.........))))...)))..))))))))))(((......))))))))). ( -16.20)
>consensus
AUGAAGCAAAAGUAAAUUUCCACUUGCAGUCAAUAAUCAACUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCC
..((((((................((((.((((((.(((((((.........))))...)))..))))))))))(((......))))))))). (-18.28 = -18.12 +  -0.16)

alignment

secondary structure

dotplot

Window 0

Location	15,809,161 – 15,809,254
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	99.57
Mean single sequence MFE	-24.78
Consensus MFE	-24.60
Energy contribution	-24.80
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-3.35
Structure conservation index	0.99
SVM decision value	4.04
SVM RNA-class probability	0.999771
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15809161 93 - 22407834
GGAAGCAGCACAUUUUUGCUGCAUCAAUAGUUCAAAUACUAUUUUAUGCUUAGUUGAUUAUUGACUGCAAGUGGAAAUUUACUUUUGCUUCAU
.(((((((...(((((..((((((((((((((.....((((.........)))).))))))))).))).))..)))))......))))))).. ( -25.90)
>DroSec_CAF1 3711 93 - 1
GGAAGCAGCACAUUUUUGCUGCAUCAAUAGUUCAAAUACUAUUUUAUGCUUAGUUGAUUAUUGACUGCAAGUGGAAAUUUACUUUUGCUUCAU
.(((((((...(((((..((((((((((((((.....((((.........)))).))))))))).))).))..)))))......))))))).. ( -25.90)
>DroSim_CAF1 3725 93 - 1
GGAAGCAGCACAUUUUUGCUGCAUCAAUAGUUCAAAUACUAUUUUAUGCUUAGUUGAUUAUUGACUGCAAGUGGAAAUUUACUUUUGCUUCAU
.(((((((...(((((..((((((((((((((.....((((.........)))).))))))))).))).))..)))))......))))))).. ( -25.90)
>DroEre_CAF1 3801 93 - 1
GGAAGCAGCACAUUUUUGCUGCAUCAAUAGUUCAAAUACUAUUUUAUGCUUAGUUGAUUAUUGACUGCAAGUGGAAAUUUACUUUUGCUUCAU
.(((((((...(((((..((((((((((((((.....((((.........)))).))))))))).))).))..)))))......))))))).. ( -25.90)
>DroYak_CAF1 28805 93 - 1
GGAAACAGCACAUUUUUGCUGCAUCAAUAGUUCAAAUACUAUUUUAUGCUUAGUUGAUUAUUGACUGCAAGUGGAAAUUUACUUUUGCUUCAU
(....)((((.(((((..((((((((((((((.....((((.........)))).))))))))).))).))..))))).......)))).... ( -20.30)
>consensus
GGAAGCAGCACAUUUUUGCUGCAUCAAUAGUUCAAAUACUAUUUUAUGCUUAGUUGAUUAUUGACUGCAAGUGGAAAUUUACUUUUGCUUCAU
.(((((((...(((((..((((((((((((((.....((((.........)))).))))))))).))).))..)))))......))))))).. (-24.60 = -24.80 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	15,809,201 – 15,809,293
Length	92
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	95.69
Mean single sequence MFE	-18.60
Consensus MFE	-15.68
Energy contribution	-15.52
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-1.89
Structure conservation index	0.84
SVM decision value	1.37
SVM RNA-class probability	0.946919
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15809201 92 + 22407834
CUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCCCUUCCUCGACUUAUAGCAGAAAUAUGGGA-AAACAUAACU
..........((((((......))))))...((((((......))))))(((((....((..(.....)..)).....))))-)......... ( -18.70)
>DroSec_CAF1 3751 92 + 1
CUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCCCUUGCUCGACUUAUAGCAGAAAUAUGGGA-AAACAAAACU
..........((((((......))))))...((((((......))))))((((((((((........)))))......))))-)......... ( -20.40)
>DroSim_CAF1 3765 92 + 1
CUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCCCUUGCUCGACUUAUAGCAGAAAUAUGGGA-AAACAAAACU
..........((((((......))))))...((((((......))))))((((((((((........)))))......))))-)......... ( -20.40)
>DroEre_CAF1 3841 93 + 1
CUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCCCUUCCCCGACUUAUAGCAGAAAUAUGGCAAAAACAAAUCU
....((((((((((((......))))))((.((((((......)))))).))...........)))).))....................... ( -16.00)
>DroYak_CAF1 28845 93 + 1
CUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGUUUCCCUUCCCCGACUUAUAGCCGAAAUAUGGCAAAAACAAAACU
.(((((....((((((......))))))((.((((((......)))))).))........).))))..((((.....))))............ ( -17.50)
>consensus
CUAAGCAUAAAAUAGUAUUUGAACUAUUGAUGCAGCAAAAAUGUGCUGCUUCCCUUCCUCGACUUAUAGCAGAAAUAUGGGA_AAACAAAACU
....((((((((((((......))))))((.((((((......)))))).))...........)))).))....................... (-15.68 = -15.52 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:51 2006