Locus 2393

Sequence ID 2R_DroMel_CAF1
Location 8,633,193 – 8,633,320
Length 127
Max. P 0.807875
window3958 window3959

overview

Window 8

Location 8,633,193 – 8,633,283
Length 90
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 86.40
Mean single sequence MFE -25.98
Consensus MFE -19.30
Energy contribution -20.05
Covariance contribution 0.75
Combinations/Pair 1.14
Mean z-score -3.32
Structure conservation index 0.74
SVM decision value 0.64
SVM RNA-class probability 0.807875
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8633193 90 + 20766785
CUCCCUCUUUAAAA--------GCACUUCUCCCUCUAGGGAGAACAUUAGCAUUUCUUUCGAACCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCAGC
..............--------((..(((((((....)))))))....((.(((((((....((((((.......))))))....)))))))))..)) ( -24.30)
>DroSec_CAF1 13352 90 + 1
CUCCCUCUUUAAAA--------GCACUUCUCCCUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCUGC
..............--------(((.(((((((....)))))))....((.(((((((....((((((.......))))))....))))))))).))) ( -24.90)
>DroSim_CAF1 16969 90 + 1
CUCCCUCUUUAAAA--------GCACAUCUCCCUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCUGC
..............--------(((..((((((....)))))).....((.(((((((....((((((.......))))))....))))))))).))) ( -24.50)
>DroEre_CAF1 13290 90 + 1
UUCCCUCUUUAAAG--------ACGCUUCUCCCUCUAGGGAGAACAUUAGCAUUUCUUUUGAGCCAAGUUAACUUCGUGGCGUCUAGGAAAUCUCUGC
...(((......((--------(((((((((((....)))))).....)))...........((((.(.......).))))))))))).......... ( -22.80)
>DroYak_CAF1 13330 89 + 1
UUCCCUCUUUAAAA--------GCACUUCUCCCUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGCCUC-GAAAUCUCUGC
..............--------....(((((((....))))))).....(((....((((((((((((.......)))))...)))-))))....))) ( -24.50)
>DroAna_CAF1 14207 98 + 1
GGUCGUCUUCAGAGAAUCCCUCGUGCCGCUACCUCCAGAGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUGGCGGGAAUCUCUGC
.........((((((.((((....(((((........(((((((.........)))))))..((((((.......))))))))))))))).)))))). ( -34.90)
>consensus
CUCCCUCUUUAAAA________GCACUUCUCCCUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCUGC
...........................((((((....)))))).....((.(((((((....((((((.......))))))....))))))))).... (-19.30 = -20.05 +   0.75)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,633,217 – 8,633,320
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 94.75
Mean single sequence MFE -22.23
Consensus MFE -20.04
Energy contribution -20.52
Covariance contribution 0.48
Combinations/Pair 1.17
Mean z-score -1.19
Structure conservation index 0.90
SVM decision value 0.28
SVM RNA-class probability 0.665913
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8633217 103 + 20766785
CUCUAGGGAGAACAUUAGCAUUUCUUUCGAACCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCAGCCAAAUUGGAAUAAAUUAUUUAGCAGCCUCUUUCAAUU
.....(..(((.....((.(((((((....((((((.......))))))....)))))))))..((.((((...........)))).))....)))..).... ( -19.80)
>DroSec_CAF1 13376 103 + 1
CUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCUGCCAAAUUGGAAUAAAUUAUUUAGCAGCCUCUUUCAAUU
.....(..(((.....((.(((((((....((((((.......))))))....)))))))))((((.((((...........)))).))))..)))..).... ( -22.90)
>DroSim_CAF1 16993 103 + 1
CUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCUGCCAAAUUGGAAUAAAUUAUUUAGCAGCCUCUUUCAAUU
.....(..(((.....((.(((((((....((((((.......))))))....)))))))))((((.((((...........)))).))))..)))..).... ( -22.90)
>DroEre_CAF1 13314 103 + 1
CUCUAGGGAGAACAUUAGCAUUUCUUUUGAGCCAAGUUAACUUCGUGGCGUCUAGGAAAUCUCUGCCGAAUUGGAAUAAAUUAUUUAGCAGCCUCUUUCAAUU
.....(..(((.....((.(((((((....((((.(.......).))))....)))))))))((((..(((...........)))..))))..)))..).... ( -21.50)
>DroYak_CAF1 13354 101 + 1
CUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGCCUC-GAAAUCUCUGCCAAAUUGGAAUAAAUUAUUUAGCAGCCUCU-UCAAUU
......(((((.............((((((((((((.......)))))...)))-))))...((((.((((...........)))).))))..)))-)).... ( -21.00)
>DroAna_CAF1 14239 102 + 1
CUCCAGAGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUGGCGGGAAUCUCUGCCAAAUUGGAAUAAAUUAUUUAGCAGCCUCU-UCAAUU
.(((((((((((.........)))))))..((((((.......)))))).(((((((....)))))))...)))).....................-...... ( -25.30)
>consensus
CUCUAGGGAGAACAUUAGCAUUUCUUUCGAGCCAAGUUAACUUCUUGGUGUCUAGGAAAUCUCUGCCAAAUUGGAAUAAAUUAUUUAGCAGCCUCUUUCAAUU
.....((((((.....((.(((((((....((((((.......))))))....)))))))))((((.((((...........)))).))))..)))))).... (-20.04 = -20.52 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:57 2006