Locus 7226

Sequence ID 2L_DroMel_CAF1
Location 20,257,521 – 20,257,641
Length 120
Max. P 0.913685
window11562 window11563

overview

Window 2

Location 20,257,521 – 20,257,641
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.16
Mean single sequence MFE -33.73
Consensus MFE -33.31
Energy contribution -32.87
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.99
SVM decision value 1.09
SVM RNA-class probability 0.913685
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20257521 120 + 22407834
GACUCAGUAGUCGCCAACUUUUCGGAUACCCUACGAAGAGAGUAGGGUAUGAAGGGAGUUGAGGUCCCUGAUGGUUUCGUCUUAUAGUUGUACUUAUAGUUCGUACUAUUUUUUAGAUUC
((((....))))..((((((((...(((((((((.......)))))))))...)))))))).((..((....))..))((((...(((.((((.........)))).)))....)))).. ( -31.50)
>DroSec_CAF1 19136 117 + 1
GACUCACUAGUCGCCAACUUUUCGGAUACCCUACGAACGGAGUAGGGUAUGAAGGGAGUUCAGAUCCCUGAUGGUUUCAUCUUUUAGUUGUACUGA-AAUUCGUACUACUUUUUAGAU--
((((....))))((((.((((((..(((((((((.......)))))))))))))))...((((....))))))))...((((...(((.((((...-.....)))).)))....))))-- ( -34.70)
>DroSim_CAF1 17575 117 + 1
GACUCACUAGUCGCCAACUUUUCGGAUACCCUACGAACGAAGUAGGGUAUGAAGGGAGUUCAGAUCCCUGAUGGUUUCGUCUUUUAGUUGUACUGA-AAUUCGUACUACUUUUUAGAU--
((((....))))((((.((((((..(((((((((.......)))))))))))))))...((((....))))))))...((((...(((.((((...-.....)))).)))....))))-- ( -35.00)
>consensus
GACUCACUAGUCGCCAACUUUUCGGAUACCCUACGAACGGAGUAGGGUAUGAAGGGAGUUCAGAUCCCUGAUGGUUUCGUCUUUUAGUUGUACUGA_AAUUCGUACUACUUUUUAGAU__
((((....))))((((.........(((((((((.......)))))))))..(((((.......)))))..))))...((((...(((.((((.........)))).)))....)))).. (-33.31 = -32.87 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 20,257,521 – 20,257,641
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.16
Mean single sequence MFE -28.50
Consensus MFE -25.83
Energy contribution -26.17
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.91
SVM decision value 0.53
SVM RNA-class probability 0.770513
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20257521 120 - 22407834
GAAUCUAAAAAAUAGUACGAACUAUAAGUACAACUAUAAGACGAAACCAUCAGGGACCUCAACUCCCUUCAUACCCUACUCUCUUCGUAGGGUAUCCGAAAAGUUGGCGACUACUGAGUC
...........(((((....)))))..((.(((((................(((((.......)))))..(((((((((.......)))))))))......)))))))((((....)))) ( -26.90)
>DroSec_CAF1 19136 117 - 1
--AUCUAAAAAGUAGUACGAAUU-UCAGUACAACUAAAAGAUGAAACCAUCAGGGAUCUGAACUCCCUUCAUACCCUACUCCGUUCGUAGGGUAUCCGAAAAGUUGGCGACUAGUGAGUC
--........(((.((((.....-...)))).)))....((((....))))(((((.......)))))..(((((((((.......)))))))))((((....)))).((((....)))) ( -30.20)
>DroSim_CAF1 17575 117 - 1
--AUCUAAAAAGUAGUACGAAUU-UCAGUACAACUAAAAGACGAAACCAUCAGGGAUCUGAACUCCCUUCAUACCCUACUUCGUUCGUAGGGUAUCCGAAAAGUUGGCGACUAGUGAGUC
--.(((....(((.((((.....-...)))).)))...))).....(((.((((((.......)))))..(((((((((.......))))))))).......).))).((((....)))) ( -28.40)
>consensus
__AUCUAAAAAGUAGUACGAAUU_UCAGUACAACUAAAAGACGAAACCAUCAGGGAUCUGAACUCCCUUCAUACCCUACUCCGUUCGUAGGGUAUCCGAAAAGUUGGCGACUAGUGAGUC
...(((....(((.((((.........)))).)))...))).....(((.((((((.......)))))..(((((((((.......))))))))).......).))).((((....)))) (-25.83 = -26.17 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:53 2006