Locus 747

Sequence ID X_DroMel_CAF1
Location 2,038,164 – 2,038,270
Length 106
Max. P 0.651372
window1210 window1211

overview

Window 0

Location 2,038,164 – 2,038,270
Length 106
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.07
Mean single sequence MFE -33.08
Consensus MFE -23.13
Energy contribution -23.75
Covariance contribution 0.62
Combinations/Pair 1.28
Mean z-score -1.44
Structure conservation index 0.70
SVM decision value 0.20
SVM RNA-class probability 0.631832
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2038164 106 + 22224390
ACAGAAGUUGGAGAGCGAGCUUAACCGUAAGGACGCUCAAAGAAGUAGCCUUUUUGAUGAGCUAGUGGCUGCAAGGGCGGAUAUUAGUAAGCUAACUCUCACCGAA
..........(((((..((((((.((....))..(((((((((((....))))))..)))))(((((.((((....)))).))))).))))))..)))))...... ( -33.90)
>DroSec_CAF1 4858 106 + 1
ACAGAAGUUGGAGAGCGAGCUUAACCGUAAGGAAGCUCAAAGAAGUGGCCUUUUUGAUGAGCUAGUGGCUGCGAGGGCGGAUAUUAGUAAGCUAACUCUCACCGAA
..........(((((..((((((.((....))..(((((((((((....))))))..)))))(((((.((((....)))).))))).))))))..)))))...... ( -34.00)
>DroSim_CAF1 4843 106 + 1
ACAGAAGUUGGAGAGCGAGCUUAACCGUAAGGACGCUCAAAGAAGUGGCCUUUUUGAUGAGCUAGUGGCUGCGAGGGCGGAUAUUAGUAAGCUAACUCUCACCGAA
..........(((((..((((((.((....))..(((((((((((....))))))..)))))(((((.((((....)))).))))).))))))..)))))...... ( -34.10)
>DroEre_CAF1 4880 106 + 1
ACAGAAGUUGGAAAGCGAACUUAACUAUCGCGUCGCUCAGAGAAGCAGCCUGUUUGAUGAGCUAGUGGCUGCAAGGGCGGAUAUUAGUAAGCUAACUCUCACCGAA
...((((((((...((((.........)))).((((((......((((((.((((...))))....))))))..))))))...........)))))).))...... ( -28.10)
>DroYak_CAF1 4850 106 + 1
ACAGAAGUUGGAAAGCGAGCUCAACUAUGGAGUCGCUCAAAGAAGCAGCCUGUUUGAUGAGCUGGUGGCUGCAAGGGCGGAUAUUAGUAAGCUAACUCUCACCGAA
.......((((..((..((((..((((.....((((((......((((((.((((...))))....))))))..))))))....)))).))))....))..)))). ( -28.60)
>DroAna_CAF1 5215 106 + 1
ACAGAACCUGGAACUGGAGCUGGGCCUGGGCAAGGAUCAGCGUCCCCAGCUGUUCGAUGAACUGGUGGCCGCCAGGGCCGACAUAAGCAAGCUCAAGUUGGCGGAG
......(((((....(((((((..(((.....)))..)))).)))(((.(.((((...)))).).)))...)))))((((((...((....))...)))))).... ( -39.80)
>consensus
ACAGAAGUUGGAAAGCGAGCUUAACCGUAAGGACGCUCAAAGAAGCAGCCUGUUUGAUGAGCUAGUGGCUGCAAGGGCGGAUAUUAGUAAGCUAACUCUCACCGAA
..........(((((..((((((...........(((((..((((......))))..)))))(((((.((((....)))).))))).))))))..)))))...... (-23.13 = -23.75 +   0.62)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,038,164 – 2,038,270
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 81.07
Mean single sequence MFE -28.26
Consensus MFE -20.51
Energy contribution -19.49
Covariance contribution -1.02
Combinations/Pair 1.36
Mean z-score -1.41
Structure conservation index 0.73
SVM decision value 0.25
SVM RNA-class probability 0.651372
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2038164 106 - 22224390
UUCGGUGAGAGUUAGCUUACUAAUAUCCGCCCUUGCAGCCACUAGCUCAUCAAAAAGGCUACUUCUUUGAGCGUCCUUACGGUUAAGCUCGCUCUCCAACUUCUGU
....(.((((((.(((((..........((....))((((....(((((.....(((....)))...)))))((....))))))))))).)))))))......... ( -26.50)
>DroSec_CAF1 4858 106 - 1
UUCGGUGAGAGUUAGCUUACUAAUAUCCGCCCUCGCAGCCACUAGCUCAUCAAAAAGGCCACUUCUUUGAGCUUCCUUACGGUUAAGCUCGCUCUCCAACUUCUGU
....(.((((((.(((((..........((....))((((...((((((.....(((....)))...)))))).......))))))))).)))))))......... ( -26.30)
>DroSim_CAF1 4843 106 - 1
UUCGGUGAGAGUUAGCUUACUAAUAUCCGCCCUCGCAGCCACUAGCUCAUCAAAAAGGCCACUUCUUUGAGCGUCCUUACGGUUAAGCUCGCUCUCCAACUUCUGU
....(.((((((.(((((..........((....))((((....(((((.....(((....)))...)))))((....))))))))))).)))))))......... ( -26.60)
>DroEre_CAF1 4880 106 - 1
UUCGGUGAGAGUUAGCUUACUAAUAUCCGCCCUUGCAGCCACUAGCUCAUCAAACAGGCUGCUUCUCUGAGCGACGCGAUAGUUAAGUUCGCUUUCCAACUUCUGU
....(.((((((.((((((....(((((((.(((((((((................))))))......))).).)).))))..)))))).)))))))......... ( -25.59)
>DroYak_CAF1 4850 106 - 1
UUCGGUGAGAGUUAGCUUACUAAUAUCCGCCCUUGCAGCCACCAGCUCAUCAAACAGGCUGCUUCUUUGAGCGACUCCAUAGUUGAGCUCGCUUUCCAACUUCUGU
....(.((((((.(((((((((.....(((.(..((((((................))))))......).)))......))).)))))).)))))))......... ( -27.69)
>DroAna_CAF1 5215 106 - 1
CUCCGCCAACUUGAGCUUGCUUAUGUCGGCCCUGGCGGCCACCAGUUCAUCGAACAGCUGGGGACGCUGAUCCUUGCCCAGGCCCAGCUCCAGUUCCAGGUUCUGU
....(((.((.((((....)))).)).)))(((((.(((..((((((........))))))(((.((((..(((.....)))..))))))).))))))))...... ( -36.90)
>consensus
UUCGGUGAGAGUUAGCUUACUAAUAUCCGCCCUUGCAGCCACUAGCUCAUCAAAAAGGCUACUUCUUUGAGCGUCCCUACGGUUAAGCUCGCUCUCCAACUUCUGU
....(.((((((.((((((((.......((....))........(((((..................)))))........)).)))))).)))))))......... (-20.51 = -19.49 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:49 2006