Locus 6504

Sequence ID X_DroMel_CAF1
Location 16,308,399 – 16,308,519
Length 120
Max. P 0.896625
window10623 window10624

overview

Window 3

Location 16,308,399 – 16,308,519
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 98.39
Mean single sequence MFE -30.13
Consensus MFE -30.13
Energy contribution -30.13
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.85
Structure conservation index 1.00
SVM decision value 0.88
SVM RNA-class probability 0.873258
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16308399 120 + 22224390
GCAUCGUUCAUGAUUUGUAUCCAGCCUUUGAAGGUGGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUCUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... ( -30.50)
>DroVir_CAF1 11630 120 + 1
GCAUCAUUCAUUAUUUGUAUCCAGCCUUUGAAGGUGGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUCUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... ( -30.50)
>DroPse_CAF1 12501 120 + 1
GCAUCGUUCAUAAUUUGUAUCCAGCCUUUGAAGGUGGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUCUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... ( -30.50)
>DroGri_CAF1 12160 120 + 1
GCAUCGUUCAUUAUUUGUAUCCAGCCUUUGAAGGUGGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUUUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... ( -30.50)
>DroWil_CAF1 13515 120 + 1
GCAUCGUUCAUUAUUUGUAUCCAGCCUUUGAAGGUGGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUCUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... ( -30.50)
>DroMoj_CAF1 12270 120 + 1
GCAUCGUUCAUUAUUUGUAUCCAGCCUUUAAAGGUCGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUCUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... ( -28.30)
>consensus
GCAUCGUUCAUUAUUUGUAUCCAGCCUUUGAAGGUGGCCACUUGGAAAAGGCACAGAUACGCGUUACCUACAUGAUCGAAAUUCAUUGCUGAAUUCACCCACGUGUAGUUCUCGCUCUCG
................(((((..((((((..((((....))))...))))))...)))))(((....(((((((.....((((((....))))))......)))))))....)))..... (-30.13 = -30.13 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,308,399 – 16,308,519
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 98.39
Mean single sequence MFE -32.78
Consensus MFE -32.67
Energy contribution -32.53
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -0.90
Structure conservation index 1.00
SVM decision value 0.99
SVM RNA-class probability 0.896625
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16308399 120 - 22224390
CGAGAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCCACCUUCAAAGGCUGGAUACAAAUCAUGAACGAUGC
((...(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))..........)).... ( -32.50)
>DroVir_CAF1 11630 120 - 1
CGAGAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCCACCUUCAAAGGCUGGAUACAAAUAAUGAAUGAUGC
.....(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))................ ( -32.00)
>DroPse_CAF1 12501 120 - 1
CGAGAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCCACCUUCAAAGGCUGGAUACAAAUUAUGAACGAUGC
((...(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))..........)).... ( -32.50)
>DroGri_CAF1 12160 120 - 1
CGAAAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCCACCUUCAAAGGCUGGAUACAAAUAAUGAACGAUGC
((...(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))..........)).... ( -32.50)
>DroWil_CAF1 13515 120 - 1
CGAGAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCCACCUUCAAAGGCUGGAUACAAAUAAUGAACGAUGC
((...(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))..........)).... ( -32.50)
>DroMoj_CAF1 12270 120 - 1
CGAGAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCGACCUUUAAAGGCUGGAUACAAAUAAUGAACGAUGC
((...(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))..........)).... ( -34.70)
>consensus
CGAGAGCGAGAACUACACGUGGGUGAAUUCAGCAAUGAAUUUCGAUCAUGUAGGUAACGCGUAUCUGUGCCUUUUCCAAGUGGCCACCUUCAAAGGCUGGAUACAAAUAAUGAACGAUGC
((...(((....(((((..(((..(((((((....)))))))...))))))))....)))(((((((.((((((...(((.(....)))).)))))))))))))..........)).... (-32.67 = -32.53 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:30 2006