Locus 931

Sequence ID 2R_DroMel_CAF1
Location 4,067,915 – 4,068,068
Length 153
Max. P 0.839798
window1644 window1645

overview

Window 4

Location 4,067,915 – 4,068,028
Length 113
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 91.74
Mean single sequence MFE -47.80
Consensus MFE -39.86
Energy contribution -40.80
Covariance contribution 0.94
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.83
SVM decision value 0.25
SVM RNA-class probability 0.653704
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4067915 113 - 20766785
AUUAUGCCCCCUACGCCAGGGGGGCGUGGUCCGGGCCAGAAGUGACUGUUGGCCUUGCAAACAACGGCUUCGUCUUCGCCUUGUUUCGCUCUGCUCGGCUCGGCGGCUCCCCU
((((((((((((......))))))))))))..(((((.(((((((((((((..........))))))..))).))))(((..(((..((...))..)))..)))))))).... ( -45.80)
>DroSec_CAF1 50547 113 - 1
AUUAUGCCCCCUACGCCGGGUGGGCGCGGUCCGGGCCAGAAGUGGAUGUUGGCCUUGCCAACAACGGCUCCGUCUUCGCCUUGUUUCGCUCUGAUCGGCUCGGCGGCUUCCCU
.....(((((((.....))).))))((.(.(((((((.(((((((((((((((...))))))).....)))).))))((........)).......)))))))).))...... ( -47.20)
>DroSim_CAF1 58754 112 - 1
AUUAUGCCCCCUACGCCGGG-GGGCGUGGUCCGGGCCAGAAGUGGCUGUUGGCCUUGCCAACAACGGCUUCGUCUUCGCAUUGUUUCGCUCUGCUCGGCUCGGCGGCUUCCCU
.....(((((((.....)))-))))((.(.(((((((.(((((.(.(((((((...))))))).).)))))......(((..(.....)..)))..)))))))).))...... ( -53.80)
>DroYak_CAF1 54569 113 - 1
AUUAUGCCCACUACGCCAAGGGGGCGUGGUCCGGGCCAGAAGUGGCUUUUGGCCUUGCCAAGGACGGCUUCGUCUUCGCAUUGUUUCGCUCUGCUCGGCUCAGCCGCUCCCCU
.....((((((((((((.....))))))))..))))....(((((((...((((..((..((((((....)))))).((........))...))..)))).)))))))..... ( -44.40)
>consensus
AUUAUGCCCCCUACGCCAGGGGGGCGUGGUCCGGGCCAGAAGUGGCUGUUGGCCUUGCCAACAACGGCUUCGUCUUCGCAUUGUUUCGCUCUGCUCGGCUCGGCGGCUCCCCU
.....(((..(((((((.....))))))).(((((((.(((((.(.(((((((...))))))).).)))))......((........)).......))))))).)))...... (-39.86 = -40.80 +   0.94)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,067,955 – 4,068,068
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.59
Mean single sequence MFE -51.02
Consensus MFE -39.20
Energy contribution -39.52
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -1.94
Structure conservation index 0.77
SVM decision value 0.75
SVM RNA-class probability 0.839798
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4067955 113 - 20766785
CGGCGCCAACGACCAUGACAACGACGUGCACACGUCACCAAUUAUGCCCCCUACGCCAG-------GGGGGCGUGGUCCGGGCCAGAAGUGACUGUUGGCCUUGCAAACAACGGCUUCGU
(((.(((...((((((......(((((....))))).........(((((((......)-------)))))))))))).(((((((.((...)).)))))))..........))).))). ( -47.60)
>DroSec_CAF1 50587 113 - 1
CGGCGCCAACGACCGUGACAACGACGUGCACACGUCACCAAUUAUGCCCCCUACGCCGG-------GUGGGCGCGGUCCGGGCCAGAAGUGGAUGUUGGCCUUGCCAACAACGGCUCCGU
.(((.((...((((((......(((((....))))).........(((((((.....))-------).)))))))))).))))).(.(((.(.(((((((...))))))).).))).).. ( -49.20)
>DroSim_CAF1 58794 112 - 1
CGGCGCCAACGACCGUGACAACGACGUGCACACGUCACCAAUUAUGCCCCCUACGCCGG-------G-GGGCGUGGUCCGGGCCAGAAGUGGCUGUUGGCCUUGCCAACAACGGCUUCGU
.(((.((...((((........(((((....))))).......(((((((((.....))-------)-)))))))))).))))).(((((.(.(((((((...))))))).).))))).. ( -55.20)
>DroEre_CAF1 52037 119 - 1
CGGCGCCAACGACCGUGACAACGACGUGCACACGUCACCAAUUAUGCGCCCUACGCCGAGGGGCGAGGGGGCGUGGUCCGGGCCAGAAGUGGCUUUUGGCCUUGCCG-GGACGCCUUCGU
.((((((...((((........(((((....))))).......((((.((((.((((....)))))))).)))))))).((((((((((...)))))))))).....-)).))))..... ( -57.50)
>DroYak_CAF1 54609 113 - 1
CGGCGCCAACGACCGUGACAACGACGUGCACACGUCACCAAUUAUGCCCACUACGCCAA-------GGGGGCGUGGUCCGGGCCAGAAGUGGCUUUUGGCCUUGCCAAGGACGGCUUCGU
.(((.((...((((........(((((....))))).......((((((.((......)-------).)))))))))).))))).(((((.(..((((((...))))))..).))))).. ( -45.60)
>consensus
CGGCGCCAACGACCGUGACAACGACGUGCACACGUCACCAAUUAUGCCCCCUACGCCGG_______GGGGGCGUGGUCCGGGCCAGAAGUGGCUGUUGGCCUUGCCAACAACGGCUUCGU
.(((.((...((((........(((((....)))))................(((((............))))))))).))))).(((((.(.(((((((...))))))).).))))).. (-39.20 = -39.52 +   0.32)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:44 2006