Locus 2141

Sequence ID 2L_DroMel_CAF1
Location 5,781,727 – 5,781,827
Length 100
Max. P 0.786623
window3462 window3463

overview

Window 2

Location 5,781,727 – 5,781,827
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 97.33
Mean single sequence MFE -26.87
Consensus MFE -26.27
Energy contribution -25.83
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.43
Structure conservation index 0.98
SVM decision value 0.01
SVM RNA-class probability 0.539027
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5781727 100 + 22407834
AGGCGGGCUGGUCCCAACAAUUUGCCAUAUUUAUUUUGUUUUUAUUGAAAAUAAUAGCUGAGUGAGUGAACGCUCAAAUGGCUGACUGAAGAAGUGCCUG
(((((((.....)))..((.((.(((((.......((((((((...))))))))....((((((......)))))).))))).)).)).......)))). ( -25.60)
>DroSec_CAF1 18816 100 + 1
AGGCGGGCUGGCCCAAACAAUUUGCCAUAUUUAUUUUGUUUUUAUUGAAAAUAAUAGAUGAGUGAGUGAACGCUCGAAUGGCUGACUGAAGAAGUGCCUG
(((((((....)))...((.((.((((((((((((...((((....))))..)))))))(((((......)))))..))))).)).)).......)))). ( -28.40)
>DroSim_CAF1 19581 100 + 1
AGGCGGGCUGGCCCCAACAAUUUGCCAUAUUUAUUUUGUUUUUAUUGAAAAUAAUAGCUGAGUGAGUGAACGCUCAAAUGGCUGACUGAAGAAGUGCCUG
(((((((....)))...((.((.(((((.......((((((((...))))))))....((((((......)))))).))))).)).)).......)))). ( -26.60)
>consensus
AGGCGGGCUGGCCCCAACAAUUUGCCAUAUUUAUUUUGUUUUUAUUGAAAAUAAUAGCUGAGUGAGUGAACGCUCAAAUGGCUGACUGAAGAAGUGCCUG
(((((((....)))...((.((.(((((.......((((((((...))))))))....((((((......)))))).))))).)).)).......)))). (-26.27 = -25.83 +  -0.44)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 5,781,727 – 5,781,827
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 97.33
Mean single sequence MFE -22.87
Consensus MFE -20.17
Energy contribution -20.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.31
Structure conservation index 0.88
SVM decision value 0.57
SVM RNA-class probability 0.786623
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5781727 100 - 22407834
CAGGCACUUCUUCAGUCAGCCAUUUGAGCGUUCACUCACUCAGCUAUUAUUUUCAAUAAAAACAAAAUAAAUAUGGCAAAUUGUUGGGACCAGCCCGCCU
.((((.......((((..((((((((((.(......).)))))...(((((((..........)))))))..)))))..))))..(((.....))))))) ( -22.40)
>DroSec_CAF1 18816 100 - 1
CAGGCACUUCUUCAGUCAGCCAUUCGAGCGUUCACUCACUCAUCUAUUAUUUUCAAUAAAAACAAAAUAAAUAUGGCAAAUUGUUUGGGCCAGCCCGCCU
.((((.......((((..(((((..(((.(......).))).....(((((((..........)))))))..)))))..))))...(((....))))))) ( -22.60)
>DroSim_CAF1 19581 100 - 1
CAGGCACUUCUUCAGUCAGCCAUUUGAGCGUUCACUCACUCAGCUAUUAUUUUCAAUAAAAACAAAAUAAAUAUGGCAAAUUGUUGGGGCCAGCCCGCCU
.((((....(..((((..((((((((((.(......).)))))...(((((((..........)))))))..)))))..))))..)(((....))))))) ( -23.60)
>consensus
CAGGCACUUCUUCAGUCAGCCAUUUGAGCGUUCACUCACUCAGCUAUUAUUUUCAAUAAAAACAAAAUAAAUAUGGCAAAUUGUUGGGGCCAGCCCGCCU
.((((.......((((..(((((..(((.(......).))).....(((((((..........)))))))..)))))..))))...(((....))))))) (-20.17 = -20.50 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:42 2006