Locus 4521

Sequence ID 2L_DroMel_CAF1
Location 12,961,998 – 12,962,089
Length 91
Max. P 0.700695
window7110 window7111

overview

Window 0

Location 12,961,998 – 12,962,089
Length 91
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -17.23
Consensus MFE -13.82
Energy contribution -14.70
Covariance contribution 0.88
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.80
SVM decision value 0.35
SVM RNA-class probability 0.700695
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12961998 91 + 22407834
UUCUUUCGCCAAUG----UUAAUUAGCUUUAUUCCGCAAGUUUAGCUGCUUUCAACUUUACUUAUCGAUUGGCGAGGACACCCAUUUCCAUUUCC
.....((((((((.----.......((........))((((..((.((....)).))..))))....))))))))(((........)))...... ( -18.00)
>DroSec_CAF1 6828 95 + 1
UUCUCUCGCCAAUGUGAGUUAAUUAGCUUUAUUCCGCAAGUUUAGCUGCUUUCAACUUUACUUAUCGAUUUGCGAGGACACCCAUUUCCUUUUCC
.((.(((((.(((((((((.((.(((((......(....)...))))).))........))))))..))).)))))))................. ( -15.60)
>DroSim_CAF1 7603 95 + 1
UUCUCUCGCCAAUGUGAGUUAAUUAGCUUUAUUCCGCAAGUUUAGCUGCUUUCAACUUUACUUAUCGAUUUGCGAGGACACCCAUUUCCGUUUCC
.((.(((((.(((((((((.((.(((((......(....)...))))).))........))))))..))).)))))))................. ( -15.60)
>DroYak_CAF1 8375 90 + 1
-----UCGCCAAUCUGAGUUAAUUAGCUUUAUUCCGCAAGUUUAGCUGCUUUCAACUUUACUUAUCGAUUGGCGAGCACACCCAUUUCCCUUUCC
-----((((((((((((((.((.(((((......(....)...))))).))........)))))..))))))))).................... ( -19.70)
>consensus
UUCUCUCGCCAAUGUGAGUUAAUUAGCUUUAUUCCGCAAGUUUAGCUGCUUUCAACUUUACUUAUCGAUUGGCGAGGACACCCAUUUCCAUUUCC
...((((((((((............((........))((((..((.((....)).))..))))....)))))))))).................. (-13.82 = -14.70 +   0.88)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 12,961,998 – 12,962,089
Length 91
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 92.11
Mean single sequence MFE -20.35
Consensus MFE -16.15
Energy contribution -16.65
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.79
SVM decision value 0.13
SVM RNA-class probability 0.598472
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12961998 91 - 22407834
GGAAAUGGAAAUGGGUGUCCUCGCCAAUCGAUAAGUAAAGUUGAAAGCAGCUAAACUUGCGGAAUAAAGCUAAUUAA----CAUUGGCGAAAGAA
(((.((....)).....)))((((((((.(..((((..(((((....)))))..))))((........)).......----)))))))))..... ( -20.40)
>DroSec_CAF1 6828 95 - 1
GGAAAAGGAAAUGGGUGUCCUCGCAAAUCGAUAAGUAAAGUUGAAAGCAGCUAAACUUGCGGAAUAAAGCUAAUUAACUCACAUUGGCGAGAGAA
.................(((((.....(((.(((((..(((((....)))))..))))))))......((((((........))))))))).)). ( -18.80)
>DroSim_CAF1 7603 95 - 1
GGAAACGGAAAUGGGUGUCCUCGCAAAUCGAUAAGUAAAGUUGAAAGCAGCUAAACUUGCGGAAUAAAGCUAAUUAACUCACAUUGGCGAGAGAA
(....)...........(((((.....(((.(((((..(((((....)))))..))))))))......((((((........))))))))).)). ( -20.30)
>DroYak_CAF1 8375 90 - 1
GGAAAGGGAAAUGGGUGUGCUCGCCAAUCGAUAAGUAAAGUUGAAAGCAGCUAAACUUGCGGAAUAAAGCUAAUUAACUCAGAUUGGCGA-----
....................(((((((((...((((..(((((....)))))..))))((........))...........)))))))))----- ( -21.90)
>consensus
GGAAAAGGAAAUGGGUGUCCUCGCAAAUCGAUAAGUAAAGUUGAAAGCAGCUAAACUUGCGGAAUAAAGCUAAUUAACUCACAUUGGCGAGAGAA
.............((((....))))..(((.(((((..(((((....)))))..))))))))......((((((........))))))....... (-16.15 = -16.65 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:50 2006