Locus 3065

Sequence ID X_DroMel_CAF1
Location 8,191,228 – 8,191,328
Length 100
Max. P 0.837791
window5014 window5015

overview

Window 4

Location 8,191,228 – 8,191,328
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -30.53
Consensus MFE -27.81
Energy contribution -27.50
Covariance contribution -0.31
Combinations/Pair 1.10
Mean z-score -1.65
Structure conservation index 0.91
SVM decision value 0.48
SVM RNA-class probability 0.751432
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8191228 100 + 22224390
GCCAGUUGACUGGCGAUGAAGUGGAUUGGUUAUGAACUGCCAGCAGAUUGCCGAACUUGAGCUAAAUUUCAACUGGCCUUUCGCACUUGCAGUUCAUCUU
(((((((.(((........))).))))))).(((((((((.((..((..((((...(((((......))))).))))...))...)).)))))))))... ( -32.10)
>DroSec_CAF1 93701 100 + 1
GCCAGUUGACUGGCGAUGAAGUGGAUUGGUUAUGAACUGCCAGCAGAUUGCCGAACUUGAGCUAAAUUUCAACUGGCCUCUCGCACUUGUAGUUCAGCUU
(((((((.(((........))).)))))))..((((((((..(((((..((((...(((((......))))).)))).))).))....)))))))).... ( -30.10)
>DroEre_CAF1 83900 100 + 1
GCCAGUUGACUGGCGAUGAAGUGGAUUGGUUAUGAACUGUCAGCAGAUUGCCGAACUUGAGCUAAAUUUCAACUGGCCGCUCCUACUUGUAGUUCAUCUU
(((((....)))))((((((((((.(..((..(((((((....)))...((((....)).)).....))))))..)))))..(((....))))))))).. ( -28.20)
>DroYak_CAF1 82377 100 + 1
GCCAGUUGACUGGCGAUGAAGUGGAUUGGUUAUGAACUGCCAGCAGAUUGCCGAACUUGAUCUAAAUUUCAACUGGCCGUUUCUACUUGUAGUUCAUCUU
(((((((.(((........))).))))))).(((((((((.((.(((..((((...((((........)))).))))....))).)).)))))))))... ( -31.70)
>consensus
GCCAGUUGACUGGCGAUGAAGUGGAUUGGUUAUGAACUGCCAGCAGAUUGCCGAACUUGAGCUAAAUUUCAACUGGCCGCUCCCACUUGUAGUUCAUCUU
(((((((.(((........))).)))))))..((((((((.((..((..((((...(((((......))))).))))...))...)).)))))))).... (-27.81 = -27.50 +  -0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 8,191,228 – 8,191,328
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 94.83
Mean single sequence MFE -27.65
Consensus MFE -24.16
Energy contribution -24.48
Covariance contribution 0.31
Combinations/Pair 1.08
Mean z-score -1.95
Structure conservation index 0.87
SVM decision value 0.74
SVM RNA-class probability 0.837791
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8191228 100 - 22224390
AAGAUGAACUGCAAGUGCGAAAGGCCAGUUGAAAUUUAGCUCAAGUUCGGCAAUCUGCUGGCAGUUCAUAACCAAUCCACUUCAUCGCCAGUCAACUGGC
...(((((((((.(((.(....)((((.((((........)))).)..))).....))).))))))))).................(((((....))))) ( -30.60)
>DroSec_CAF1 93701 100 - 1
AAGCUGAACUACAAGUGCGAGAGGCCAGUUGAAAUUUAGCUCAAGUUCGGCAAUCUGCUGGCAGUUCAUAACCAAUCCACUUCAUCGCCAGUCAACUGGC
....((((((.......(....)((((((.((..(..(((....)))..)...)).))))))))))))..................(((((....))))) ( -24.60)
>DroEre_CAF1 83900 100 - 1
AAGAUGAACUACAAGUAGGAGCGGCCAGUUGAAAUUUAGCUCAAGUUCGGCAAUCUGCUGACAGUUCAUAACCAAUCCACUUCAUCGCCAGUCAACUGGC
...(((((((...((((((....((((.((((........)))).)..)))..))))))...))))))).................(((((....))))) ( -27.30)
>DroYak_CAF1 82377 100 - 1
AAGAUGAACUACAAGUAGAAACGGCCAGUUGAAAUUUAGAUCAAGUUCGGCAAUCUGCUGGCAGUUCAUAACCAAUCCACUUCAUCGCCAGUCAACUGGC
...(((((((.(.((((((....((((.((((........)))).)..)))..)))))).).))))))).................(((((....))))) ( -28.10)
>consensus
AAGAUGAACUACAAGUACGAAAGGCCAGUUGAAAUUUAGCUCAAGUUCGGCAAUCUGCUGGCAGUUCAUAACCAAUCCACUUCAUCGCCAGUCAACUGGC
...(((((((...((((((....((((.((((........)))).)..)))..))))))...))))))).................(((((....))))) (-24.16 = -24.48 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:08 2006