Locus 8196

Sequence ID X_DroMel_CAF1
Location 20,369,016 – 20,369,111
Length 95
Max. P 0.867831
window13471 window13472

overview

Window 1

Location 20,369,016 – 20,369,111
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -35.85
Consensus MFE -26.54
Energy contribution -26.85
Covariance contribution 0.31
Combinations/Pair 1.19
Mean z-score -1.81
Structure conservation index 0.74
SVM decision value 0.58
SVM RNA-class probability 0.790275
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20369016 95 + 22224390
UUAUUUUCUCUGCAUGCACGUGUGGUGGUGUUGGCGGUGCGGCCUUGUGUGUGUGAGCUUGGCAUGCCGGGCAGCACACCCACACUACCAUUUGC
...............(((...((((((((((.((..((((.((((.((((((.........)))))).)))).))))..)))))))))))).))) ( -40.00)
>DroSim_CAF1 16900 95 + 1
AUAUUUUCUUUGCGUGCACGUGUGUUGGUGUUGGCGGUGCGGCCUUGUGUGUGUGAGCUUGGCAUGCCGGGCAGCACACCCACACCACCAUUGGC
...............((....(((.((((((.((..((((.((((.((((((.........)))))).)))).))))..)))))))).)))..)) ( -35.10)
>DroEre_CAF1 15884 78 + 1
UUGUUAUCUCUGCGUGUGCGUGUGGUGG---------------CCUGUGUGUGUGCGCUUGACAUGCCGGGCAGCACACCCACACCAC--UUUGC
..........((.(((((.(((((.((.---------------((((.((((((.......)))))))))))).))))).))))))).--..... ( -30.10)
>DroYak_CAF1 6255 93 + 1
AUAUUUUCUCUGCGUGCACGUGUGGUGGUGUUGGUGGUGCGGCCUUGUGUGUGUGAGCCUGGCAUGCCGGGCAGCACACCCACACCAC--AUUGC
...............(((.((((((((.....(((......))).((.((((((..((((((....)))))).)))))).))))))))--))))) ( -38.20)
>consensus
AUAUUUUCUCUGCGUGCACGUGUGGUGGUGUUGGCGGUGCGGCCUUGUGUGUGUGAGCUUGGCAUGCCGGGCAGCACACCCACACCAC__UUUGC
...............(((...((((((.....(((......))).((.((((((..((((((....)))))).)))))).))))))))....))) (-26.54 = -26.85 +   0.31)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 20,369,016 – 20,369,111
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 82.22
Mean single sequence MFE -29.88
Consensus MFE -21.42
Energy contribution -21.55
Covariance contribution 0.13
Combinations/Pair 1.17
Mean z-score -1.98
Structure conservation index 0.72
SVM decision value 0.86
SVM RNA-class probability 0.867831
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20369016 95 - 22224390
GCAAAUGGUAGUGUGGGUGUGCUGCCCGGCAUGCCAAGCUCACACACACAAGGCCGCACCGCCAACACCACCACACGUGCAUGCAGAGAAAAUAA
(((....((((((((((((((..((..((....))..)).)))))......(((......))).......)))))).))).)))........... ( -30.10)
>DroSim_CAF1 16900 95 - 1
GCCAAUGGUGGUGUGGGUGUGCUGCCCGGCAUGCCAAGCUCACACACACAAGGCCGCACCGCCAACACCAACACACGUGCACGCAAAGAAAAUAU
((...((((((((((((((((((....))))))))..(((...........))))))))))))).(((........)))...))........... ( -32.40)
>DroEre_CAF1 15884 78 - 1
GCAAA--GUGGUGUGGGUGUGCUGCCCGGCAUGUCAAGCGCACACACACAGG---------------CCACCACACGCACACGCAGAGAUAACAA
.....--(((((.((.((((((.((..((....))..))))))))...)).)---------------)))).....((....))........... ( -24.30)
>DroYak_CAF1 6255 93 - 1
GCAAU--GUGGUGUGGGUGUGCUGCCCGGCAUGCCAGGCUCACACACACAAGGCCGCACCACCAACACCACCACACGUGCACGCAGAGAAAAUAU
((...--((((((((((((((..(((.((....)).))).))))).(....).)))))))))...(((........)))...))........... ( -32.70)
>consensus
GCAAA__GUGGUGUGGGUGUGCUGCCCGGCAUGCCAAGCUCACACACACAAGGCCGCACCGCCAACACCACCACACGUGCACGCAGAGAAAAUAA
((.....((((((((((((((..((..((....))..))...)))))....(((......))).......)))))).)))..))........... (-21.42 = -21.55 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:13 2006