Locus 3358

Sequence ID 3L_DroMel_CAF1
Location 9,825,579 – 9,825,673
Length 94
Max. P 0.999661
window5243 window5244

overview

Window 3

Location 9,825,579 – 9,825,673
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 95.85
Mean single sequence MFE -25.10
Consensus MFE -23.78
Energy contribution -24.38
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.95
SVM decision value 3.85
SVM RNA-class probability 0.999661
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9825579 94 + 23771897
AAGUUGUCGGGACAAACAAACCUCGGCGAAUGAGCCACCGGCCUUUGGGCUAAUUAACAUUGUUCCCCCGGCCAUAUUUUCAAAUGAAAAUAUU
.....((((((...(((((.....(((......)))...((((....))))........)))))..)))))).((((((((....)))))))). ( -28.60)
>DroSec_CAF1 119615 94 + 1
AAGUUGUCGGGACAAACAAACCUCGGCGAAUGAGCCUCCGGCCUUUGGGCUAAUUAACAUUGUUCCCCCGGCCAUAUUUUCAAAUGAAAAUAUU
.....((((((...(((((.....(((......)))...((((....))))........)))))..)))))).((((((((....)))))))). ( -28.10)
>DroSim_CAF1 122858 94 + 1
AAGUUGUCGGUACAAACAAACCUCGGCGAAUGAGCCUCCGGCCUUUGGGCUAAUUAACAUUGUUCCCCCGGCCAUAUUUUCAAAUGAAAAUAUU
.....(((((....(((((.....(((......)))...((((....))))........)))))...))))).((((((((....)))))))). ( -24.40)
>DroEre_CAF1 122459 93 + 1
AAGUUGUUGGUACAAACAAACCUCGGCCAAUGAGCCUCCGGCCUUUGGGCUAAUUAACAUUGUUCC-CCGGCCAUAUUUUCAAAUGAAAAUAUU
...(((((......))))).....(((......)))...((((...(((.((((....))))..))-).))))((((((((....)))))))). ( -21.50)
>DroYak_CAF1 132672 93 + 1
AAGUUGCUGGGACAAACAAACCUCGGCCAAUGAGCCCCCGGCCUUUGGGCUAAUUAACAUUGUUCC-CCGGCCAUAAUUUCAAAUGAAAAUAUU
.....((((((...(((((.....(((......)))...((((....))))........))))).)-))))).....((((....))))..... ( -22.90)
>consensus
AAGUUGUCGGGACAAACAAACCUCGGCGAAUGAGCCUCCGGCCUUUGGGCUAAUUAACAUUGUUCCCCCGGCCAUAUUUUCAAAUGAAAAUAUU
..((((..(((((((.........(((......)))...((((....))))........)))))))..)))).((((((((....)))))))). (-23.78 = -24.38 +   0.60)

alignment

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secondary structure

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dotplot

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Window 4

Location 9,825,579 – 9,825,673
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 95.85
Mean single sequence MFE -26.80
Consensus MFE -23.40
Energy contribution -23.60
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.60
Structure conservation index 0.87
SVM decision value 1.10
SVM RNA-class probability 0.915206
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9825579 94 - 23771897
AAUAUUUUCAUUUGAAAAUAUGGCCGGGGGAACAAUGUUAAUUAGCCCAAAGGCCGGUGGCUCAUUCGCCGAGGUUUGUUUGUCCCGACAACUU
.((((((((....))))))))...(((((((((((.........(((....)))((((((.....))))))....)))))).)))))....... ( -27.20)
>DroSec_CAF1 119615 94 - 1
AAUAUUUUCAUUUGAAAAUAUGGCCGGGGGAACAAUGUUAAUUAGCCCAAAGGCCGGAGGCUCAUUCGCCGAGGUUUGUUUGUCCCGACAACUU
.((((((((....))))))))((((..(((...(((....)))..)))...))))((.(((..((..((....))..))..)))))........ ( -26.30)
>DroSim_CAF1 122858 94 - 1
AAUAUUUUCAUUUGAAAAUAUGGCCGGGGGAACAAUGUUAAUUAGCCCAAAGGCCGGAGGCUCAUUCGCCGAGGUUUGUUUGUACCGACAACUU
.((((((((....))))))))((((..(((...(((....)))..)))...))))...(((......)))..(((........)))........ ( -26.60)
>DroEre_CAF1 122459 93 - 1
AAUAUUUUCAUUUGAAAAUAUGGCCGG-GGAACAAUGUUAAUUAGCCCAAAGGCCGGAGGCUCAUUGGCCGAGGUUUGUUUGUACCAACAACUU
.((((((((....))))))))((((.(-((...(((....)))..)))...))))...((((....))))..(((........)))........ ( -26.70)
>DroYak_CAF1 132672 93 - 1
AAUAUUUUCAUUUGAAAUUAUGGCCGG-GGAACAAUGUUAAUUAGCCCAAAGGCCGGGGGCUCAUUGGCCGAGGUUUGUUUGUCCCAGCAACUU
.(((.((((....)))).)))((((.(-((...(((....)))..)))...)))).(((((..((..((....))..))..)))))........ ( -27.20)
>consensus
AAUAUUUUCAUUUGAAAAUAUGGCCGGGGGAACAAUGUUAAUUAGCCCAAAGGCCGGAGGCUCAUUCGCCGAGGUUUGUUUGUCCCGACAACUU
.((((((((....))))))))((((..(((...(((....)))..)))...))))...(((......))).(((((.(((......)))))))) (-23.40 = -23.60 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:04 2006