Locus 1530

Sequence ID	3L_DroMel_CAF1
Location	4,421,647 – 4,421,743
Length	96
Max. P	0.998198

overview

Window 9

Location	4,421,647 – 4,421,743
Length	96
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	91.80
Mean single sequence MFE	-24.04
Consensus MFE	-19.24
Energy contribution	-20.04
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-3.51
Structure conservation index	0.80
SVM decision value	3.03
SVM RNA-class probability	0.998198
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4421647 96 + 23771897
AUAUGCCAGUUGGCUUAGUCAAUAAAUUGA--GUUAGCCGUGGCAACUUCAUUAGGUUGCCCAAAA--AUAAAGAUAAACAAGAAACAAAAACUGCAACU
...(((.((((((((.(.((((....))))--.).))))(.(((((((......))))))))....--......................)))))))... ( -25.40)
>DroPse_CAF1 4332 95 + 1
AUAUGUCAGUC-GCUUAGUCAAUAAAUUGUCUGGUAGCCAUGGCAACUUCAUUAGGCUGCCCAAAAAUAUAAAAAUAAAUAAGAA----AAACUGCAGCA
...((.((((.-.(((((.(((....))).).(((((((((((.....))))..)))))))..................))))..----..))))))... ( -18.60)
>DroSec_CAF1 3672 96 + 1
AUAUGCCAGUUGGCUUAGUCAAUAAAUUGA--GUUAGCCGUGGCAACUUCAUUAGGUUGCCCAAAA--AUAAAGAUAAACAAGAAACAAAAACUGCAACU
...(((.((((((((.(.((((....))))--.).))))(.(((((((......))))))))....--......................)))))))... ( -25.40)
>DroSim_CAF1 1026 96 + 1
AUAUGCCAGUUGGCUUAGUCAAUAAAUUGA--GUUAGCCGUGGCAACUUCAUUAGGUUGCCCAAAA--AUAAAGAUAAACAAGAAACAAAAACUGCAACU
...(((.((((((((.(.((((....))))--.).))))(.(((((((......))))))))....--......................)))))))... ( -25.40)
>DroYak_CAF1 4692 96 + 1
AUAUGCCAGUUGGCUUAGUCAAUAAAUUGA--GUUAGCCGUGGCAACUUCAUUAGGUUGCCCAAAA--AUAAAGAUAAACACGAAACAAAAACUGCAACU
...(((.((((((((.(.((((....))))--.).))))(.(((((((......))))))))....--......................)))))))... ( -25.40)
>consensus
AUAUGCCAGUUGGCUUAGUCAAUAAAUUGA__GUUAGCCGUGGCAACUUCAUUAGGUUGCCCAAAA__AUAAAGAUAAACAAGAAACAAAAACUGCAACU
...((.(((((((((...((((....)))).....))))..(((((((......))))))).............................)))))))... (-19.24 = -20.04 +   0.80)

alignment

secondary structure

dotplot

Window 0

Location	4,421,647 – 4,421,743
Length	96
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	91.80
Mean single sequence MFE	-21.58
Consensus MFE	-18.60
Energy contribution	-18.68
Covariance contribution	0.08
Combinations/Pair	1.10
Mean z-score	-1.76
Structure conservation index	0.86
SVM decision value	1.56
SVM RNA-class probability	0.964009
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4421647 96 - 23771897
AGUUGCAGUUUUUGUUUCUUGUUUAUCUUUAU--UUUUGGGCAACCUAAUGAAGUUGCCACGGCUAAC--UCAAUUUAUUGACUAAGCCAACUGGCAUAU
((..((((...))))..)).......((((((--(...((....)).))))))).(((((.((((.(.--((((....)))).).))))...)))))... ( -22.30)
>DroPse_CAF1 4332 95 - 1
UGCUGCAGUUU----UUCUUAUUUAUUUUUAUAUUUUUGGGCAGCCUAAUGAAGUUGCCAUGGCUACCAGACAAUUUAUUGACUAAGC-GACUGACAUAU
...(((((((.----..((((.(((....((.((((((((..((((..(((.......))))))).))))).))).)).))).)))).-))))).))... ( -16.90)
>DroSec_CAF1 3672 96 - 1
AGUUGCAGUUUUUGUUUCUUGUUUAUCUUUAU--UUUUGGGCAACCUAAUGAAGUUGCCACGGCUAAC--UCAAUUUAUUGACUAAGCCAACUGGCAUAU
((..((((...))))..)).......((((((--(...((....)).))))))).(((((.((((.(.--((((....)))).).))))...)))))... ( -22.30)
>DroSim_CAF1 1026 96 - 1
AGUUGCAGUUUUUGUUUCUUGUUUAUCUUUAU--UUUUGGGCAACCUAAUGAAGUUGCCACGGCUAAC--UCAAUUUAUUGACUAAGCCAACUGGCAUAU
((..((((...))))..)).......((((((--(...((....)).))))))).(((((.((((.(.--((((....)))).).))))...)))))... ( -22.30)
>DroYak_CAF1 4692 96 - 1
AGUUGCAGUUUUUGUUUCGUGUUUAUCUUUAU--UUUUGGGCAACCUAAUGAAGUUGCCACGGCUAAC--UCAAUUUAUUGACUAAGCCAACUGGCAUAU
...(((((((........(((.....((((((--(...((....)).)))))))....)))((((.(.--((((....)))).).)))))))).)))... ( -24.10)
>consensus
AGUUGCAGUUUUUGUUUCUUGUUUAUCUUUAU__UUUUGGGCAACCUAAUGAAGUUGCCACGGCUAAC__UCAAUUUAUUGACUAAGCCAACUGGCAUAU
...(((((((.............................((((((........))))))..((((.....((((....))))...))))))))).))... (-18.60 = -18.68 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:58 2006