Locus 2410

Sequence ID	X_DroMel_CAF1
Location	6,448,591 – 6,448,701
Length	110
Max. P	0.914791

overview

Window 7

Location	6,448,591 – 6,448,701
Length	110
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	90.79
Mean single sequence MFE	-26.42
Consensus MFE	-20.24
Energy contribution	-20.08
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-2.20
Structure conservation index	0.77
SVM decision value	1.10
SVM RNA-class probability	0.914791
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6448591 110 + 22224390
CGACAAAUGACAAAUGACGCGGCUAUAUGCAUAUAGUAUGUAUCCAUCCAUAUAUGGAUUUCCAUAAAAUAUGUCAUUCGACCAGGGAUAAGGUU--CCAGAUCCAGUUUUA
(((...((((((........((.(((((((.....))))))).)).......(((((....))))).....))))))))).....((((..(...--.)..))))....... ( -25.70)
>DroSec_CAF1 6099 110 + 1
CGACAAAUGACAAAUGACGCGGCUAUAUGCAUAUAGUAUGUAU--AUCCAUAUAUGGAUUUCCAUAAAAUAUGUCAUUCGACCAGGGAUAAGGUUCUCCAGAUCCAGUUUUA
(((...((((((........((..(((((((((...)))))))--))))...(((((....))))).....))))))))).....((((..((....))..))))....... ( -26.50)
>DroSim_CAF1 6102 110 + 1
CGACGAAUGACAAAUGACGCGGCUAUAUGCAUAUAGUAUGUAU--AUCCAUAUAUGGAUUUCCAUAAAAUAUGUCAUUCGACCAGGGAUAAGGUUCUCCAGAUCCAGUUUUA
...(((((((((........((..(((((((((...)))))))--))))...(((((....))))).....))))))))).....((((..((....))..))))....... ( -32.10)
>DroEre_CAF1 5668 99 + 1
CGACAAAUGACAAAUGACGCGGCUAUAUGCAU---------AC--AUCCAUAUAUGGAUGUCCGUAACAUAUGUCAUACGACCAGGGAUAAGGUU--CCAGAUCCAGUUUUA
.(((..((((((.(((..(((((.....))..---------((--(((((....))))))).)))..))).))))))........((((..(...--.)..)))).)))... ( -26.40)
>DroYak_CAF1 6438 103 + 1
CGACAAAUGACAAAUGUCGCGGCUAUAUGCAUA-----UGCAC--AUCCAUAUAUGGAUUUCCAUAAAAUAUGUCAUACGACCAGGGAUAAGGUU--CCAGAUCCAGUUUUA
.(((..((((((.((((.((.((.....))...-----.))))--)).....(((((....))))).....))))))........((((..(...--.)..)))).)))... ( -21.40)
>consensus
CGACAAAUGACAAAUGACGCGGCUAUAUGCAUAUAGUAUGUAU__AUCCAUAUAUGGAUUUCCAUAAAAUAUGUCAUUCGACCAGGGAUAAGGUU__CCAGAUCCAGUUUUA
.(((..((((((......(((......)))......................(((((....))))).....))))))........((((..((....))..)))).)))... (-20.24 = -20.08 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	6,448,591 – 6,448,701
Length	110
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	90.79
Mean single sequence MFE	-26.48
Consensus MFE	-20.82
Energy contribution	-21.46
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-1.80
Structure conservation index	0.79
SVM decision value	0.72
SVM RNA-class probability	0.832834
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6448591 110 - 22224390
UAAAACUGGAUCUGG--AACCUUAUCCCUGGUCGAAUGACAUAUUUUAUGGAAAUCCAUAUAUGGAUGGAUACAUACUAUAUGCAUAUAGCCGCGUCAUUUGUCAUUUGUCG
.......((((..(.--...)..)))).(((.((((((((((((..((((...((((((......)))))).))))..))))((........)))))))))))))....... ( -26.10)
>DroSec_CAF1 6099 110 - 1
UAAAACUGGAUCUGGAGAACCUUAUCCCUGGUCGAAUGACAUAUUUUAUGGAAAUCCAUAUAUGGAU--AUACAUACUAUAUGCAUAUAGCCGCGUCAUUUGUCAUUUGUCG
.......((((..((....))..))))...(.(((((((((.......(((....)))((((((.((--(((.....))))).))))))...........))))))))).). ( -27.30)
>DroSim_CAF1 6102 110 - 1
UAAAACUGGAUCUGGAGAACCUUAUCCCUGGUCGAAUGACAUAUUUUAUGGAAAUCCAUAUAUGGAU--AUACAUACUAUAUGCAUAUAGCCGCGUCAUUUGUCAUUCGUCG
.......((((..((....))..))))...(.(((((((((.......(((....)))((((((.((--(((.....))))).))))))...........))))))))).). ( -29.40)
>DroEre_CAF1 5668 99 - 1
UAAAACUGGAUCUGG--AACCUUAUCCCUGGUCGUAUGACAUAUGUUACGGACAUCCAUAUAUGGAU--GU---------AUGCAUAUAGCCGCGUCAUUUGUCAUUUGUCG
........((((.((--(......)))..))))..((((((.(((...((((((((((....)))))--))---------..........)))...))).))))))...... ( -24.60)
>DroYak_CAF1 6438 103 - 1
UAAAACUGGAUCUGG--AACCUUAUCCCUGGUCGUAUGACAUAUUUUAUGGAAAUCCAUAUAUGGAU--GUGCA-----UAUGCAUAUAGCCGCGACAUUUGUCAUUUGUCG
.......((((..(.--...)..))))..(((((((((.((((((((((((....)))))...))))--)))))-----))))......))).(((((.........))))) ( -25.00)
>consensus
UAAAACUGGAUCUGG__AACCUUAUCCCUGGUCGAAUGACAUAUUUUAUGGAAAUCCAUAUAUGGAU__AUACAUACUAUAUGCAUAUAGCCGCGUCAUUUGUCAUUUGUCG
.......((((..((....))..))))...(.(((((((((.....(((((....)))))....................((((........))))....))))))))).). (-20.82 = -21.46 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:47 2006