Locus 4077

Sequence ID 2R_DroMel_CAF1
Location 13,454,190 – 13,454,302
Length 112
Max. P 0.642473
window6565

overview

Window 5

Location 13,454,190 – 13,454,302
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.02
Mean single sequence MFE -33.53
Consensus MFE -27.85
Energy contribution -28.18
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.83
SVM decision value 0.23
SVM RNA-class probability 0.642473
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13454190 112 + 20766785
--------CGAACGAGAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGGCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAGCCGCGUUGGGU
--------(.((((...((((((.(....)))))))...........((((.((....((((((....)))))).........(((((....)))))........)).)))))))).).. ( -33.80)
>DroSec_CAF1 3074 112 + 1
--------CGCACGAGAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGGCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAGCCGCGUUGGGU
--------.((((....((((((.(....)))))))...((((((((.(..........).))))))))...)))).......(((((....)))))...(((((((.....))))))). ( -34.30)
>DroSim_CAF1 3236 112 + 1
--------CGAACGAGAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGGCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAGCCGCGUUGGGU
--------(.((((...((((((.(....)))))))...........((((.((....((((((....)))))).........(((((....)))))........)).)))))))).).. ( -33.80)
>DroEre_CAF1 3547 112 + 1
--------CGAACGAGAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGGCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAGCCGCGCUGGGU
--------....(.((.((((((.(....)))))))...........((((.((....((((((....)))))).........(((((....)))))........)).))))..)).).. ( -30.90)
>DroYak_CAF1 3680 105 + 1
---------------GAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGGCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAGCCGCGCUGGCU
---------------..(((((...(((.((((((.......))))))(((.((....((((((....)))))).........(((((....)))))........)).)))))).))))) ( -33.40)
>DroPer_CAF1 2758 120 + 1
AGUAGAGUUGAACGAAAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGCCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAACCGAGCUGGCU
......(((((.(((..((((((.(....)))))))....))))))))((((......((((((....))))))((.......(((((....)))))(((....)))......)))))). ( -35.00)
>consensus
________CGAACGAGAGGCCAAACUGCAGUUGGCCAAAGUUGUCAACGGCACACAAAACUUUGGCGACAAAGUGCAAUCAAUGGUGAAUUAUCACCCAUUUCAAUGAGCCGCGCUGGGU
.................((((((.(....)))))))...........((((.((....((((((....)))))).........(((((....)))))........)).))))........ (-27.85 = -28.18 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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