Locus 5528

Sequence ID 2R_DroMel_CAF1
Location 17,666,213 – 17,666,333
Length 120
Max. P 0.911945
window8869 window8870

overview

Window 9

Location 17,666,213 – 17,666,333
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 99.58
Mean single sequence MFE -49.48
Consensus MFE -48.28
Energy contribution -48.52
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.84
Structure conservation index 0.98
SVM decision value 1.08
SVM RNA-class probability 0.911945
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17666213 120 + 20766785
ACAUGGCUGUUGCUCGUUUUUAUUGCAUCACAUGUUGCUGGUGUCGAGUUGCGAGUGGCGAAGCCCGCAAGGAUGUGGCAUCCUGUCACUGCUUGUCAGCAGCAACACAUGCUGCUGGCG
.......(((..(((((..((...((((((........))))))..))..)))))..)))((((((....))..(((((.....))))).))))((((((((((.....)))))))))). ( -49.90)
>DroSec_CAF1 19648 120 + 1
ACAUGGCUGUUGCUCGUUUUUAUUGCAUCACAUGUUGCUGGUGUCGAGUUGCGAGUGGCGAAACCCGCAAGGAUGUGGCAUCCUGUCACUGCUUGUCAGCAGCAACACAUGCUGCUGGCG
....((((((..(((((..((...((((((........))))))..))..)))))..)))....((....))..(((((.....))))).))).((((((((((.....)))))))))). ( -48.20)
>DroEre_CAF1 20015 120 + 1
ACAUGGCUGUUGCUCGUUUUUAUUGCAUCACAUGUUGCUGGUGUCGAGUUGCGAGUGGCGAAGCCCGCAAGGAUGUGGCAUCCUGUCACUGCUUGUCAGCAGCAACACAUGCUGCUGGCG
.......(((..(((((..((...((((((........))))))..))..)))))..)))((((((....))..(((((.....))))).))))((((((((((.....)))))))))). ( -49.90)
>DroYak_CAF1 31699 120 + 1
ACAUGGCUGUUGCUCGUUUUUAUUGCAUCACAUGUUGCUGGUGUCGAGUUGCGAGUGGCGAAGCCCGCAAGGAUGUGGCAUCCUGUCACUGCUUGUCAGCAGCAACACAUGCUGCUGGCG
.......(((..(((((..((...((((((........))))))..))..)))))..)))((((((....))..(((((.....))))).))))((((((((((.....)))))))))). ( -49.90)
>consensus
ACAUGGCUGUUGCUCGUUUUUAUUGCAUCACAUGUUGCUGGUGUCGAGUUGCGAGUGGCGAAGCCCGCAAGGAUGUGGCAUCCUGUCACUGCUUGUCAGCAGCAACACAUGCUGCUGGCG
.......(((..(((((..((...((((((........))))))..))..)))))..)))((((((....))..(((((.....))))).))))((((((((((.....)))))))))). (-48.28 = -48.52 +   0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,666,213 – 17,666,333
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 99.58
Mean single sequence MFE -38.75
Consensus MFE -38.60
Energy contribution -38.60
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 1.00
SVM decision value 0.16
SVM RNA-class probability 0.614327
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17666213 120 - 20766785
CGCCAGCAGCAUGUGUUGCUGCUGACAAGCAGUGACAGGAUGCCACAUCCUUGCGGGCUUCGCCACUCGCAACUCGACACCAGCAACAUGUGAUGCAAUAAAAACGAGCAACAGCCAUGU
.....(((.((((((((((((((....))).(((..((((((...))))))((((((........))))))......))).))))))))))).))).........(.((....))).... ( -38.40)
>DroSec_CAF1 19648 120 - 1
CGCCAGCAGCAUGUGUUGCUGCUGACAAGCAGUGACAGGAUGCCACAUCCUUGCGGGUUUCGCCACUCGCAACUCGACACCAGCAACAUGUGAUGCAAUAAAAACGAGCAACAGCCAUGU
.....(((.((((((((((((((....))).(((..((((((...))))))(((((((......)))))))......))).))))))))))).))).........(.((....))).... ( -39.80)
>DroEre_CAF1 20015 120 - 1
CGCCAGCAGCAUGUGUUGCUGCUGACAAGCAGUGACAGGAUGCCACAUCCUUGCGGGCUUCGCCACUCGCAACUCGACACCAGCAACAUGUGAUGCAAUAAAAACGAGCAACAGCCAUGU
.....(((.((((((((((((((....))).(((..((((((...))))))((((((........))))))......))).))))))))))).))).........(.((....))).... ( -38.40)
>DroYak_CAF1 31699 120 - 1
CGCCAGCAGCAUGUGUUGCUGCUGACAAGCAGUGACAGGAUGCCACAUCCUUGCGGGCUUCGCCACUCGCAACUCGACACCAGCAACAUGUGAUGCAAUAAAAACGAGCAACAGCCAUGU
.....(((.((((((((((((((....))).(((..((((((...))))))((((((........))))))......))).))))))))))).))).........(.((....))).... ( -38.40)
>consensus
CGCCAGCAGCAUGUGUUGCUGCUGACAAGCAGUGACAGGAUGCCACAUCCUUGCGGGCUUCGCCACUCGCAACUCGACACCAGCAACAUGUGAUGCAAUAAAAACGAGCAACAGCCAUGU
.....(((.((((((((((((((....))).(((..((((((...))))))((((((........))))))......))).))))))))))).))).........(.((....))).... (-38.60 = -38.60 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:58 2006