Locus 4920

Sequence ID 2R_DroMel_CAF1
Location 16,070,789 – 16,070,895
Length 106
Max. P 0.877842
window7880 window7881

overview

Window 0

Location 16,070,789 – 16,070,895
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.72
Mean single sequence MFE -27.62
Consensus MFE -25.02
Energy contribution -24.86
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.75
Structure conservation index 0.91
SVM decision value 0.90
SVM RNA-class probability 0.877842
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16070789 106 + 20766785
UUUGGCUGCUGGCCAAUUGGAAACUAGUGUCAGCCAGGCCGCCGGCUAAUUUCUCAGAUCCUCCCCUCCAUUCGGAUCCUGAGUGCCCCUUUUC---------CAUUUUCCAUUC-----
...((((((((((.....(....)....))))))..))))...(((......(((((((((............)))).))))).))).......---------............----- ( -29.70)
>DroSec_CAF1 124532 90 + 1
UUUGGCUGCUGGCCAAUUGGAAACUAGUGUCAGCCAGGCCGCCGGCUAAUUUCUCAGAUCCUCCCCUCCAUUCGGAUC-------------------------CAUUUUCCAUUC-----
.(((((((.(((((...(((..((....))...)))))))).))))))).......(((((............)))))-------------------------............----- ( -24.80)
>DroSim_CAF1 131332 106 + 1
UUUGGCUGCUGGCCAAUUGGAAACUAGUGUCAGCCAGGCCGCCGGCUAAUUUCUCAGAUCCUCCCCUCCAUUCGGAUCCUGAGUGCCCCUUUUC---------CAUUUUCCAUUC-----
...((((((((((.....(....)....))))))..))))...(((......(((((((((............)))).))))).))).......---------............----- ( -29.70)
>DroEre_CAF1 131425 120 + 1
GUUGGCUGCUGGCCAAUUGGAAACUAGUGUCAGCCAGGCCGCCGGCUAAUUUCUCAGAUCCUCCCCUCCAUUCGGAUCCGCAGUGCCCCUUUCCACAUUUCCACAUUUCCCAUACCCCGA
((((((((.(((((...(((..((....))...)))))))).))))))))......(((((............)))))....(((........)))........................ ( -26.80)
>DroYak_CAF1 136019 103 + 1
GUUGGCUGCUGGCCAAUUGGAAACUAGUGUCAGCCAGGCCGCCAGCUAAUUUCUCAGAUCCUCCCCUCCAUUGGGAUCCUCAGUGCCCCUUUUC---------CAUUUCCC--------A
((((((((.(((((...(((..((....))...)))))))).))))))))......((((((..........))))))................---------........--------. ( -27.10)
>consensus
UUUGGCUGCUGGCCAAUUGGAAACUAGUGUCAGCCAGGCCGCCGGCUAAUUUCUCAGAUCCUCCCCUCCAUUCGGAUCCUCAGUGCCCCUUUUC_________CAUUUUCCAUUC_____
.(((((((.(((((...(((..((....))...)))))))).))))))).......(((((............))))).......................................... (-25.02 = -24.86 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,070,789 – 16,070,895
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.72
Mean single sequence MFE -34.26
Consensus MFE -26.70
Energy contribution -26.70
Covariance contribution -0.00
Combinations/Pair 1.08
Mean z-score -1.81
Structure conservation index 0.78
SVM decision value 0.55
SVM RNA-class probability 0.778195
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16070789 106 - 20766785
-----GAAUGGAAAAUG---------GAAAAGGGGCACUCAGGAUCCGAAUGGAGGGGAGGAUCUGAGAAAUUAGCCGGCGGCCUGGCUGACACUAGUUUCCAAUUGGCCAGCAGCCAAA
-----..........((---------((((..((...(((((.((((............)))))))))...((((((((....))))))))..))..)))))).(((((.....))))). ( -35.90)
>DroSec_CAF1 124532 90 - 1
-----GAAUGGAAAAUG-------------------------GAUCCGAAUGGAGGGGAGGAUCUGAGAAAUUAGCCGGCGGCCUGGCUGACACUAGUUUCCAAUUGGCCAGCAGCCAAA
-----...((((((..(-------------------------(((((............))))))......((((((((....))))))))......)))))).(((((.....))))). ( -29.00)
>DroSim_CAF1 131332 106 - 1
-----GAAUGGAAAAUG---------GAAAAGGGGCACUCAGGAUCCGAAUGGAGGGGAGGAUCUGAGAAAUUAGCCGGCGGCCUGGCUGACACUAGUUUCCAAUUGGCCAGCAGCCAAA
-----..........((---------((((..((...(((((.((((............)))))))))...((((((((....))))))))..))..)))))).(((((.....))))). ( -35.90)
>DroEre_CAF1 131425 120 - 1
UCGGGGUAUGGGAAAUGUGGAAAUGUGGAAAGGGGCACUGCGGAUCCGAAUGGAGGGGAGGAUCUGAGAAAUUAGCCGGCGGCCUGGCUGACACUAGUUUCCAAUUGGCCAGCAGCCAAC
....(((.(((..(((.((((((((((..........((.(((((((............)))))))))...((((((((....)))))))))))..))))))))))..)))...)))... ( -38.00)
>DroYak_CAF1 136019 103 - 1
U--------GGGAAAUG---------GAAAAGGGGCACUGAGGAUCCCAAUGGAGGGGAGGAUCUGAGAAAUUAGCUGGCGGCCUGGCUGACACUAGUUUCCAAUUGGCCAGCAGCCAAC
.--------........---------.......(((.((.(((.((((.......))))...))).))......((((((.(..(((..(((....))).)))..).)))))).)))... ( -32.50)
>consensus
_____GAAUGGAAAAUG_________GAAAAGGGGCACUCAGGAUCCGAAUGGAGGGGAGGAUCUGAGAAAUUAGCCGGCGGCCUGGCUGACACUAGUUUCCAAUUGGCCAGCAGCCAAA
........((((((...........................((((((............))))))......((((((((....))))))))......)))))).(((((.....))))). (-26.70 = -26.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:14 2006