Locus 2677

Sequence ID 3R_DroMel_CAF1
Location 7,193,100 – 7,193,193
Length 93
Max. P 0.871290
window4342 window4343

overview

Window 2

Location 7,193,100 – 7,193,193
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 91.43
Mean single sequence MFE -33.67
Consensus MFE -26.89
Energy contribution -27.75
Covariance contribution 0.86
Combinations/Pair 1.03
Mean z-score -2.67
Structure conservation index 0.80
SVM decision value 0.54
SVM RNA-class probability 0.776433
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7193100 93 + 27905053
GGAAAAAUGAGCAAUGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGCCAUUUCCAUUGCGUGCCUGGUCGGAAUACUAGUAUACGUAUC
..........((((((((((((((..((((((....))))))...)).)))...)))))))))(((.(((((......)))))..)))..... ( -31.20)
>DroSec_CAF1 33845 93 + 1
GGAAAAAUGAGCAGCGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGCCAUUUCCAUUGCGUGCCUGGUCGGAAUACUAGUGUACGUAUC
((((..(((.((.((....)).((..((((((....))))))...))..)))))))))..((((((((((((......))))).))))))).. ( -33.20)
>DroSim_CAF1 33846 93 + 1
GGAAAAAUGAGCAGUGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGCCAUUUCCAUUGCGUGCCUGGUCGGAAUACUAGUGUUCGUAUC
......(((((((.(((...((((((.((((.((.(((((((.....)))))))......)).).))).))))))....))).)))))))... ( -39.20)
>DroEre_CAF1 39289 90 + 1
GGAA-AAUGAGCAGUGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGCCAUUUCCAUUGCGUGCCUGGUCGGAACACUAGU--ACGUAUC
....-.(((.((((((....((((((.((((.((.(((((((.....)))))))......)).).))).))))))..)))).))--.)))... ( -33.90)
>DroYak_CAF1 39581 91 + 1
GGAAAAAUGAGCAGUGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGCCAUUUCCAUUGCGUGCCUGGUCGGAAUACUAGU--ACGUAUC
..........((((((((((((((..((((((....))))))...)).)))...)))))))))((((.((((......))))))--))..... ( -33.20)
>DroAna_CAF1 33045 82 + 1
UGAAAAAUGAGCAGUGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGC---UGCCAUUGCGUGCCUGGCCCGUAUCC--------GUAUC
..........(((((((.((((((..((((((....))))))...)).)))---).))))))).................--------..... ( -31.30)
>consensus
GGAAAAAUGAGCAGUGGGAGCCGACUUGGCCACAUAUGGCCAUUUUCUGGCCAUUUCCAUUGCGUGCCUGGUCGGAAUACUAGU__ACGUAUC
..........((((((((((((((..((((((....))))))...)).)))...)))))))))(((((((((......))))).....)))). (-26.89 = -27.75 +   0.86)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,193,100 – 7,193,193
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 91.43
Mean single sequence MFE -28.83
Consensus MFE -24.59
Energy contribution -25.32
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -2.04
Structure conservation index 0.85
SVM decision value 0.87
SVM RNA-class probability 0.871290
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7193100 93 - 27905053
GAUACGUAUACUAGUAUUCCGACCAGGCACGCAAUGGAAAUGGCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCAUUGCUCAUUUUUCC
(((((........)))))((.....))...(((((((..(((((((.....)))))))....((((.....)))).))))))).......... ( -29.50)
>DroSec_CAF1 33845 93 - 1
GAUACGUACACUAGUAUUCCGACCAGGCACGCAAUGGAAAUGGCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCGCUGCUCAUUUUUCC
(((((........)))))(((((..(((.((((......(((((((.....))))))).)))))))..))))).................... ( -28.60)
>DroSim_CAF1 33846 93 - 1
GAUACGAACACUAGUAUUCCGACCAGGCACGCAAUGGAAAUGGCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCACUGCUCAUUUUUCC
(((((........)))))(((((..(((.((((......(((((((.....))))))).)))))))..))))).................... ( -28.60)
>DroEre_CAF1 39289 90 - 1
GAUACGU--ACUAGUGUUCCGACCAGGCACGCAAUGGAAAUGGCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCACUGCUCAUU-UUCC
.......--..(((((..(((((..(((.((((......(((((((.....))))))).)))))))..)))))....)))))......-.... ( -30.50)
>DroYak_CAF1 39581 91 - 1
GAUACGU--ACUAGUAUUCCGACCAGGCACGCAAUGGAAAUGGCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCACUGCUCAUUUUUCC
(((((..--....)))))(((((..(((.((((......(((((((.....))))))).)))))))..))))).................... ( -28.80)
>DroAna_CAF1 33045 82 - 1
GAUAC--------GGAUACGGGCCAGGCACGCAAUGGCA---GCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCACUGCUCAUUUUUCA
....(--------(....))..........(((.(((.(---(((.((...((((((....))))))..)))))).))).))).......... ( -27.00)
>consensus
GAUACGU__ACUAGUAUUCCGACCAGGCACGCAAUGGAAAUGGCCAGAAAAUGGCCAUAUGUGGCCAAGUCGGCUCCCACUGCUCAUUUUUCC
(((((........)))))(((((..(((.((((......(((((((.....))))))).)))))))..))))).................... (-24.59 = -25.32 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:57 2006