Locus 3557

Sequence ID	X_DroMel_CAF1
Location	9,530,665 – 9,530,814
Length	149
Max. P	0.977727

overview

Window 2

Location	9,530,665 – 9,530,781
Length	116
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	93.39
Mean single sequence MFE	-24.97
Consensus MFE	-21.20
Energy contribution	-21.20
Covariance contribution	0.00
Combinations/Pair	1.16
Mean z-score	-2.33
Structure conservation index	0.85
SVM decision value	1.31
SVM RNA-class probability	0.940217
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9530665 116 - 22224390
GUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCAAAAUUGCAAAGUAUAGUUAGAAAUUUAGUGCGUGGCA
((..((...((((((.((((((((.....)))))((((((..((((.....)))).((((.....))))...)))))).................))).))))))....))..)). ( -24.50)
>DroSec_CAF1 14501 116 - 1
GUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCAAAAUUGCAAAGUAUAGUUAGAAAUUUAGUGCGUGGCA
((..((...((((((.((((((((.....)))))((((((..((((.....)))).((((.....))))...)))))).................))).))))))....))..)). ( -24.50)
>DroSim_CAF1 14007 116 - 1
GUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCAAAAUUGCAAAGUAUAGUUAGAAAUUUAGUGCGUGGCA
((..((...((((((.((((((((.....)))))((((((..((((.....)))).((((.....))))...)))))).................))).))))))....))..)). ( -24.50)
>DroEre_CAF1 14824 116 - 1
GUUGCGAAAAAGUUUGUGGGAUUUUUCUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCAAAAUUACAAAGAAUAUUUAGAAAUUUAGUGCGUGGCA
((..((...((((((.((((((((.....)))))((((((..((((.....)))).((((.....))))...)))))).................))).))))))....))..)). ( -24.50)
>DroYak_CAF1 15093 116 - 1
GUUGCGAAAAAGUUUGUGGGAUUUUUCUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCAAAAUUGCAAAGAAUAUUUAGAAAUUUAGUGCGUGGCA
((..((...((((((.((((((((.....)))))((((((..((((.....)))).((((.....))))...)))))).................))).))))))....))..)). ( -24.50)
>DroAna_CAF1 21056 116 - 1
GUUGCGAAAAAGUUUGUGGGAAUUUUAAAAAAUUCGCGGAAAAUGUGAAAAAUAUAUGGUAUUAAAUCAAAAUUCUAGAAAAUUCCCAAGAAUAUUCUAAAAUUGAGUGCGUGGCA
((..((.....((((.((((((((((......((((((.....)))))).......((((.....)))).........)))))))))).))))((((.......)))).))..)). ( -27.30)
>consensus
GUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCAAAAUUGCAAAGAAUAGUUAGAAAUUUAGUGCGUGGCA
((..((...((((((.((((((((.....)))))((((((..((((.....)))).((((.....))))...)))))).................))).))))))....))..)). (-21.20 = -21.20 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	9,530,702 – 9,530,814
Length	112
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	95.67
Mean single sequence MFE	-25.25
Consensus MFE	-22.45
Energy contribution	-22.12
Covariance contribution	-0.33
Combinations/Pair	1.14
Mean z-score	-2.00
Structure conservation index	0.89
SVM decision value	1.80
SVM RNA-class probability	0.977727
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9530702 112 - 22224390
AACACA-AGCGGACUGAAAUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCA
..((((-(((..((((((((......)))))))).((......))))))))).(((((.....)))))((((((..((((.....)))).((((.....))))...)))))). ( -26.50)
>DroSec_CAF1 14538 112 - 1
AACACA-AGCGGACUGAAAUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCA
..((((-(((..((((((((......)))))))).((......))))))))).(((((.....)))))((((((..((((.....)))).((((.....))))...)))))). ( -26.50)
>DroSim_CAF1 14044 112 - 1
AACACA-AGCGGACUGAAAUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCA
..((((-(((..((((((((......)))))))).((......))))))))).(((((.....)))))((((((..((((.....)))).((((.....))))...)))))). ( -26.50)
>DroEre_CAF1 14861 112 - 1
AACACA-AGCGGACUGAAAUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAUUUUUCUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCA
..((((-(((..((((((((......)))))))).((......))))))))).(((((.....)))))((((((..((((.....)))).((((.....))))...)))))). ( -26.50)
>DroYak_CAF1 15130 112 - 1
AACACA-AGCGGACUGAAAUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAUUUUUCUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCA
..((((-(((..((((((((......)))))))).((......))))))))).(((((.....)))))((((((..((((.....)))).((((.....))))...)))))). ( -26.50)
>DroAna_CAF1 21093 113 - 1
AACACACAGCGGACUGAAGUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAAUUUUAAAAAAUUCGCGGAAAAUGUGAAAAAUAUAUGGUAUUAAAUCAAAAUUCUAGA
..(((.(((....)))((..((((((((.........))))))))..)))))((((((((......((((((.....))))))........(((.....)))))))))))... ( -19.00)
>consensus
AACACA_AGCGGACUGAAAUUUUUUUGUUUUAGUGUUGCGAAAAAGUUUGUGGGAUUUUUAUAAAAUCGCCGGAAAAUGUGAAAAAUAUAUGGUAUAAAACCGAAAUUCGGCA
..((((..((((((((((((......)))))))).)))).........)))).(((((.....)))))((((((..((((.....)))).((((.....))))...)))))). (-22.45 = -22.12 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:22 2006