Locus 8552

Sequence ID X_DroMel_CAF1
Location 21,178,336 – 21,178,439
Length 103
Max. P 0.963159
window14071 window14072

overview

Window 1

Location 21,178,336 – 21,178,439
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 90.29
Mean single sequence MFE -42.40
Consensus MFE -35.90
Energy contribution -35.13
Covariance contribution -0.77
Combinations/Pair 1.14
Mean z-score -3.79
Structure conservation index 0.85
SVM decision value 1.55
SVM RNA-class probability 0.963159
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21178336 103 + 22224390
AUUUCGCCCCAAUGUUGUUGUUGCUGCUGAGCGCAAUUAAACGUCAGCAGCGACGCCACGUACAGUGGAGCCAAUUGUUGGCUCGAUUCAAUUUCGAUGUCAA
.....((.(((.((((((((((((((((((.((........))))))))))))))..))).))).))).))......(((((((((.......)))).))))) ( -37.10)
>DroSec_CAF1 4535 103 + 1
AUUUCGCCUCAGUGUUGUUGUUGCUGCUGAGCGCAAUUAAACGUCAGCAGCGACGACACGCACAGUGGGGCCAAUUGGUGGCUCGAUUCGAUUUCGCUGUCAA
.....((((((.((((((((((((((((((.((........)))))))))))))))))...))).))))))...((((..(((((...)))....))..)))) ( -45.60)
>DroEre_CAF1 4651 103 + 1
AUUUCGCUCUUGUGUUGUUGUUGCUGCUGAGCGCAAUUAAACGUCAGCAGCGACGCCACGCACAGUGGGGCCAAUUGGGGGCUCCACUCAAUUUCGCAGUCAA
.....((...(((((((.((((((((((((.((........)))))))))))))).)).)))))((((((((.......))))))))........))...... ( -44.50)
>consensus
AUUUCGCCCCAGUGUUGUUGUUGCUGCUGAGCGCAAUUAAACGUCAGCAGCGACGCCACGCACAGUGGGGCCAAUUGGUGGCUCGAUUCAAUUUCGCUGUCAA
.........(((((..((((((((((((((.((........)))))))))))))..(((.....)))(((((.......))))).....)))..))))).... (-35.90 = -35.13 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,178,336 – 21,178,439
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 90.29
Mean single sequence MFE -35.53
Consensus MFE -29.03
Energy contribution -29.70
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.82
SVM decision value 0.59
SVM RNA-class probability 0.791714
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21178336 103 - 22224390
UUGACAUCGAAAUUGAAUCGAGCCAACAAUUGGCUCCACUGUACGUGGCGUCGCUGCUGACGUUUAAUUGCGCUCAGCAGCAACAACAACAUUGGGGCGAAAU
......((((.......))))(((..((((.(((.((((.....)))).)))(((((((((((......))).)))))))).........)))).)))..... ( -35.90)
>DroSec_CAF1 4535 103 - 1
UUGACAGCGAAAUCGAAUCGAGCCACCAAUUGGCCCCACUGUGCGUGUCGUCGCUGCUGACGUUUAAUUGCGCUCAGCAGCAACAACAACACUGAGGCGAAAU
............(((..(((.((((.....))))......(((..(((.((.(((((((((((......))).)))))))).)).))).))))))..)))... ( -33.60)
>DroEre_CAF1 4651 103 - 1
UUGACUGCGAAAUUGAGUGGAGCCCCCAAUUGGCCCCACUGUGCGUGGCGUCGCUGCUGACGUUUAAUUGCGCUCAGCAGCAACAACAACACAAGAGCGAAAU
.....(((.......(((((.(((.......))).)))))(((..((..((.(((((((((((......))).)))))))).))..)).)))....))).... ( -37.10)
>consensus
UUGACAGCGAAAUUGAAUCGAGCCACCAAUUGGCCCCACUGUGCGUGGCGUCGCUGCUGACGUUUAAUUGCGCUCAGCAGCAACAACAACACUGGGGCGAAAU
.....................(((.......(((.((((.....)))).)))(((((((((((......))).))))))))..............)))..... (-29.03 = -29.70 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:07 2006