Locus 742

Sequence ID 3L_DroMel_CAF1
Location 2,230,648 – 2,230,808
Length 160
Max. P 0.920311
window1135 window1136

overview

Window 5

Location 2,230,648 – 2,230,768
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.75
Mean single sequence MFE -41.46
Consensus MFE -35.32
Energy contribution -33.72
Covariance contribution -1.60
Combinations/Pair 1.36
Mean z-score -1.49
Structure conservation index 0.85
SVM decision value 0.54
SVM RNA-class probability 0.776251
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2230648 120 + 23771897
GCCGUAGUCAUCGUGCUCAGCCUUAUGUUGGUCAUCAUUGGCAUUCCGCUGAUCAUAAAGUUAGGAGUGGGCCUGGCCAUCCUUGGCUCCCACGUGAUCACUGUACACGCCUACUACGGA
.((((((.....(((.(((((...((((..((....))..))))...))))).))).....((((.(((((...(((((....))))))))))(((.........))).)))))))))). ( -44.60)
>DroSec_CAF1 11584 120 + 1
GCAGUAAUCAUCGUGCUCAGCCUUAUGUUGGUCAUCAUUGGCAUUCCGCUGAUCAUAAAGCUGGGAGUGGGUCUGGCCAUCCUCGGCUGCCACGUGAUCACGGUCCAUGCCUACUACGGA
(.((((......(((..((((.....))))..)))....(((((.(((.(((((((..(((((((..(((......)))..))))))).....))))))))))...))))))))).)... ( -40.90)
>DroSim_CAF1 11665 120 + 1
GCAGUAAUCAUCGUGCUCAGCCUCAUGUUGGUCAUCAUUGGCAUUCCGCUGAUCAUAAAGCUGGGAGUGGGUCUGGCCAUCCUCGGCUGCCACGUGAUCACGGUCCACGCCUACUACGGA
...((.((((.((((((((((...((((..((....))..))))...)))))......(((((((..(((......)))..)))))))).)))))))).))(((....)))..(....). ( -38.50)
>DroEre_CAF1 24593 120 + 1
GCAGUAGUCAUUGUGCUCAGCCUUUUGCUGAGCAUCAUUGGCAUUCCGCUGAUCGCAAAGCUAGGAGUGGGUCUGGCCAUCCUAGGCUGCCAUGUGACCACGGUCCAUGCCUACUACGGA
...(((((....(((((((((.....)))))))))....(((((.(((.((.(((((.((((((((.(((......)))))))).)))....))))).)))))...))))).)))))... ( -48.80)
>DroYak_CAF1 12076 120 + 1
GCAGUAAUCAUUGUGCUUAGCCUUAUGCUGGUCAUCAUUGGCAUUCCGCUGAUCAUAAAGCUAACAGUGGGUCUGGCCAUCGUAGGCUGCCAUAUGAUCACGGUUUACGCCUACUACGGA
(.((((......(((.(((((.....))))).)))....(((...(((.((((((((.((((.((.((((......)))).)).))))....))))))))))).....))))))).)... ( -34.50)
>consensus
GCAGUAAUCAUCGUGCUCAGCCUUAUGUUGGUCAUCAUUGGCAUUCCGCUGAUCAUAAAGCUAGGAGUGGGUCUGGCCAUCCUAGGCUGCCACGUGAUCACGGUCCACGCCUACUACGGA
...((.((((.((((.(((((...((((..((....))..))))...)))))......(((((((..(((......)))..)))))))..)))))))).))........((......)). (-35.32 = -33.72 +  -1.60)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,230,688 – 2,230,808
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.58
Mean single sequence MFE -44.30
Consensus MFE -38.00
Energy contribution -36.80
Covariance contribution -1.20
Combinations/Pair 1.35
Mean z-score -1.75
Structure conservation index 0.86
SVM decision value 1.13
SVM RNA-class probability 0.920311
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2230688 120 + 23771897
GCAUUCCGCUGAUCAUAAAGUUAGGAGUGGGCCUGGCCAUCCUUGGCUCCCACGUGAUCACUGUACACGCCUACUACGGAUUCGCCUUUGAGCGAUCGCAAACCACCAAUAUAGGCGUGA
((.....))(((((((..........(((((...(((((....))))))))))))))))).....(((((((((....)..((((......))))................)))))))). ( -38.80)
>DroSec_CAF1 11624 120 + 1
GCAUUCCGCUGAUCAUAAAGCUGGGAGUGGGUCUGGCCAUCCUCGGCUGCCACGUGAUCACGGUCCAUGCCUACUACGGAUUCGCCUUUGAGCGGUCCCAAACCACCGAUAUAGGCGUGU
.....(((.(((((((..(((((((..(((......)))..))))))).....))))))))))..((((((((...(((....((......))(((.....))).)))...)))))))). ( -45.90)
>DroSim_CAF1 11705 120 + 1
GCAUUCCGCUGAUCAUAAAGCUGGGAGUGGGUCUGGCCAUCCUCGGCUGCCACGUGAUCACGGUCCACGCCUACUACGGAUUCGCCUUUGAGCGGUCCCAAACCACCGAUAUAGGCGUGU
.....(((.(((((((..(((((((..(((......)))..))))))).....))))))))))..((((((((...(((....((......))(((.....))).)))...)))))))). ( -47.70)
>DroEre_CAF1 24633 120 + 1
GCAUUCCGCUGAUCGCAAAGCUAGGAGUGGGUCUGGCCAUCCUAGGCUGCCAUGUGACCACGGUCCAUGCCUACUACGGAUUCGCCUUCGAGCGGUCGGCAACCACCAAUGUGGGCAUGA
((.....(((((((((....(.(((.((((((((((((......))).(.((((.(((....))))))).).....)))))))))))).).)))))))))..((((....)))))).... ( -47.60)
>DroYak_CAF1 12116 120 + 1
GCAUUCCGCUGAUCAUAAAGCUAACAGUGGGUCUGGCCAUCGUAGGCUGCCAUAUGAUCACGGUUUACGCCUACUACGGAUUCGCCUUUGAGCGAUCGGAAACCACCAAUGUGGGCAUGA
.....(((.((((((((.((((.((.((((......)))).)).))))....))))))))))).....((((((...((..((((......))))..(....)..))...)))))).... ( -41.50)
>consensus
GCAUUCCGCUGAUCAUAAAGCUAGGAGUGGGUCUGGCCAUCCUAGGCUGCCACGUGAUCACGGUCCACGCCUACUACGGAUUCGCCUUUGAGCGGUCGCAAACCACCAAUAUAGGCGUGA
.....(((.(((((((..(((((((..(((......)))..))))))).....))))))))))..((((((((....((..((((......))))..........))....)))))))). (-38.00 = -36.80 +  -1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:57 2006