Locus 5577

Sequence ID 3L_DroMel_CAF1
Location 15,300,365 – 15,300,485
Length 120
Max. P 0.999987
window8820 window8821

overview

Window 0

Location 15,300,365 – 15,300,485
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.17
Mean single sequence MFE -27.34
Consensus MFE -25.12
Energy contribution -25.45
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.35
Structure conservation index 0.92
SVM decision value 1.01
SVM RNA-class probability 0.899870
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15300365 120 + 23771897
UGCUGCUCCUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUACCCCAGCACGAAAAAUGGGUGG
..(..(.((((((((((((...............................(((((((((...)))))))))((((..((....))..)))))))).....))))))........)))..) ( -24.30)
>DroSec_CAF1 32125 120 + 1
UGCUGCUCCUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUAGCCCAGCACGAAAAAUGGGUGG
(((((.....(((((((((...............................(((((((((...)))))))))((((..((....))..))))))))))))).))))).............. ( -27.70)
>DroSim_CAF1 32487 120 + 1
UGCUGCUCCUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUAGCCCAGCACGAAAAAUGGGUGG
(((((.....(((((((((...............................(((((((((...)))))))))((((..((....))..))))))))))))).))))).............. ( -27.70)
>DroEre_CAF1 32199 118 + 1
--CUGCUCCUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUAGCCCAGCACGAAAAAUGGGUGG
--.((((...(((((((((...............................(((((((((...)))))))))((((..((....))..)))))))))))))..)))).............. ( -26.70)
>DroYak_CAF1 29704 120 + 1
GGCUGCUCCUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUAGCCCAGCACGAAAAAUGGGUGG
.((((.....(((((((((...............................(((((((((...)))))))))((((..((....))..))))))))))))).))))............... ( -27.30)
>DroAna_CAF1 30531 119 + 1
GGCUGCCACUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUAGCCCAGCACCAA-AAUGGGAGC
.(((.(((.(..(((((......(((((((((..................(((((((((...))))))))))))))))))......(((.........)))...))))).-).))).))) ( -30.36)
>consensus
UGCUGCUCCUGCUGGUGAUAUAAUUUUAAUAACUUACAUAAUAUAUUCUUUUGUGUGGCCAAGCCACAUAAUUGUUAGAAACAUUAGGCAAAUCAUUAGCCCAGCACGAAAAAUGGGUGG
.((((.....(((((((((...............................(((((((((...)))))))))((((..((....))..))))))))))))).))))............... (-25.12 = -25.45 +   0.33)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 15,300,365 – 15,300,485
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.17
Mean single sequence MFE -33.13
Consensus MFE -32.22
Energy contribution -31.80
Covariance contribution -0.42
Combinations/Pair 1.06
Mean z-score -3.31
Structure conservation index 0.97
SVM decision value 5.46
SVM RNA-class probability 0.999987
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15300365 120 - 23771897
CCACCCAUUUUUCGUGCUGGGGUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGGAGCAGCA
..........(((.(((((((((((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))........)))).)))))).)))..... ( -33.40)
>DroSec_CAF1 32125 120 - 1
CCACCCAUUUUUCGUGCUGGGCUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGGAGCAGCA
..........(((.((((((..(((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))))...........)))))).)))..... ( -32.22)
>DroSim_CAF1 32487 120 - 1
CCACCCAUUUUUCGUGCUGGGCUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGGAGCAGCA
..........(((.((((((..(((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))))...........)))))).)))..... ( -32.22)
>DroEre_CAF1 32199 118 - 1
CCACCCAUUUUUCGUGCUGGGCUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGGAGCAG--
..........(((.((((((..(((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))))...........)))))).)))...-- ( -32.22)
>DroYak_CAF1 29704 120 - 1
CCACCCAUUUUUCGUGCUGGGCUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGGAGCAGCC
..........(((.((((((..(((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))))...........)))))).)))..... ( -32.22)
>DroAna_CAF1 30531 119 - 1
GCUCCCAUU-UUGGUGCUGGGCUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGUGGCAGCC
(((.(((((-((((((.((...(((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))))......)).)))))).))))).))). ( -36.50)
>consensus
CCACCCAUUUUUCGUGCUGGGCUAAUGAUUUGCCUAAUGUUUCUAACAAUUAUGUGGCUUGGCCACACAAAAGAAUAUAUUAUGUAAGUUAUUAAAAUUAUAUCACCAGCAGGAGCAGCA
..........(((.((((((..(((((((((((.((((((((((........((((((...))))))....)))).)))))).)))))))))))...........)))))).)))..... (-32.22 = -31.80 +  -0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:50 2006