Locus 8212

Sequence ID 3L_DroMel_CAF1
Location 21,577,627 – 21,577,787
Length 160
Max. P 0.680902
window13433 window13434

overview

Window 3

Location 21,577,627 – 21,577,747
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -38.10
Consensus MFE -38.10
Energy contribution -38.10
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 1.00
SVM decision value 0.31
SVM RNA-class probability 0.680902
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21577627 120 + 23771897
GCGAUUUUUUGUUGAUGUUUUUCUUGCACACUCUGGGCAUUGUAGACAUUCCGAAAAUCGCUGGCGAAAUUCUUUGGCGCAUGCUUGGCAGCAAAGUUGCCAGUUGCAACCAGUUGGCCG
(((((((((.(..(((((((....(((.(.....).)))....)))))))).))))))))).(((.((.....((((.(((.(((.((((((...))))))))))))..)))))).))). ( -38.10)
>DroSec_CAF1 24977 120 + 1
GCGAUUUUUUGUUGAUGUUUUUCUUGCACACUCUGGGCAUUGUAGACAUUCCGAAAAUCGCUGGCGAAAUUCUUUGGCGCAUGCUUGGCAGCAAAGUUGCCAGUUGCAACCAGUUGGCCG
(((((((((.(..(((((((....(((.(.....).)))....)))))))).))))))))).(((.((.....((((.(((.(((.((((((...))))))))))))..)))))).))). ( -38.10)
>DroSim_CAF1 25214 120 + 1
GCGAUUUUUUGUUGAUGUUUUUCUUGCACACUCUGGGCAUUGUAGACAUUCCGAAAAUCGCUGGCGAAAUUCUUUGGCGCAUGCUUGGCAGCAAAGUUGCCAGUUGCAACCAGUUGGCCG
(((((((((.(..(((((((....(((.(.....).)))....)))))))).))))))))).(((.((.....((((.(((.(((.((((((...))))))))))))..)))))).))). ( -38.10)
>consensus
GCGAUUUUUUGUUGAUGUUUUUCUUGCACACUCUGGGCAUUGUAGACAUUCCGAAAAUCGCUGGCGAAAUUCUUUGGCGCAUGCUUGGCAGCAAAGUUGCCAGUUGCAACCAGUUGGCCG
(((((((((.(..(((((((....(((.(.....).)))....)))))))).))))))))).(((.((.....((((.(((.(((.((((((...))))))))))))..)))))).))). (-38.10 = -38.10 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 21,577,667 – 21,577,787
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 99.44
Mean single sequence MFE -38.77
Consensus MFE -37.07
Energy contribution -37.40
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.96
SVM decision value 0.05
SVM RNA-class probability 0.557257
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21577667 120 - 23771897
CCAGCCGAGGUCCCAGCCACUUGACCAGGCGAAAAACGAGCGGCCAACUGGUUGCAACUGGCAACUUUGCUGCCAAGCAUGCGCCAAAGAAUUUCGCCAGCGAUUUUCGGAAUGUCUACA
....((((((((..........)))).(((((((.....((((((....))))))...((((.....((((....))))...)))).....)))))))........)))).......... ( -39.10)
>DroSec_CAF1 25017 120 - 1
CCAGCCGACGUCCCAGCCACUUGACCAGGCGAAAAACGAGCGGCCAACUGGUUGCAACUGGCAACUUUGCUGCCAAGCAUGCGCCAAAGAAUUUCGCCAGCGAUUUUCGGAAUGUCUACA
......(((((.((.(((.........)))(((((.((.((((((....))))))..(((((..(((((.(((.......))).)))))......))))))).))))))).))))).... ( -38.60)
>DroSim_CAF1 25254 120 - 1
CCAGCCGACGUCCCAGCCACUUGACCAGGCGAAAAACGAGCGGCCAACUGGUUGCAACUGGCAACUUUGCUGCCAAGCAUGCGCCAAAGAAUUUCGCCAGCGAUUUUCGGAAUGUCUACA
......(((((.((.(((.........)))(((((.((.((((((....))))))..(((((..(((((.(((.......))).)))))......))))))).))))))).))))).... ( -38.60)
>consensus
CCAGCCGACGUCCCAGCCACUUGACCAGGCGAAAAACGAGCGGCCAACUGGUUGCAACUGGCAACUUUGCUGCCAAGCAUGCGCCAAAGAAUUUCGCCAGCGAUUUUCGGAAUGUCUACA
......(((((.((.(((.........)))(((((.((.((((((....))))))..(((((..(((((.(((.......))).)))))......))))))).))))))).))))).... (-37.07 = -37.40 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:32 2006