Locus 5832

Sequence ID X_DroMel_CAF1
Location 15,082,464 – 15,082,583
Length 119
Max. P 0.893851
window9463 window9464

overview

Window 3

Location 15,082,464 – 15,082,583
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.74
Mean single sequence MFE -35.40
Consensus MFE -24.25
Energy contribution -25.26
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -2.60
Structure conservation index 0.69
SVM decision value 0.30
SVM RNA-class probability 0.678605
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15082464 119 + 22224390
UUGGCAGUCAGCGGAGUUUUCAGGCUUGCCUCAAAGGAG-AAAUUUGCAUUUUUUGCAGUAAAUUCAAUAUUUUCCUUUAUGAUUUUCCGCCGCUGCCUGCUGCCUGCUGCUGCUGCUGU
..(((((.((((((.((...(((((..((...(((((((-((...((((.....))))(......)....)))))))))..(......)...)).)))))..)))))))))))))..... ( -38.40)
>DroAna_CAF1 35047 114 + 1
GGGAAAGUCAGAGGAGA-UUCAGGCUCGCCUCAAAGGAG-AAAUUUGCAUUUUUUGCAGUAAAUUCAAUAUUUUCCUUUAUGAUUUUCC---GCUGCCUGCUGU-UGCUGCUGCUGCUGA
.(((((((((((((.((-.......)).))))(((((((-((...((((.....))))(......)....))))))))).)))))))))---((.((..((...-.)).)).))...... ( -35.20)
>DroYak_CAF1 36476 117 + 1
UUGGCAGUCAGUGAAGUUUUCAGGCUUGGCUCAAAGGAAAAAAUUUGCAUUUUUUGCAGUAAAUUCAAUAUUUUCCUUUAUGAUUUUCCACCGCUGCCUGCUGCC---UGCUGCUGCUGU
..(((((.((((...((...(((((..(((..(((((((((.(((((((.....))))........))).))))))))).((......))..))))))))..)).---.))))))))).. ( -32.60)
>consensus
UUGGCAGUCAGAGGAGUUUUCAGGCUUGCCUCAAAGGAG_AAAUUUGCAUUUUUUGCAGUAAAUUCAAUAUUUUCCUUUAUGAUUUUCC_CCGCUGCCUGCUGCCUGCUGCUGCUGCUGU
..(((((.((((((......(((((.......(((((((.....(((((.....))))).............)))))))..(.....).......))))).......))))))))))).. (-24.25 = -25.26 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 15,082,464 – 15,082,583
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.74
Mean single sequence MFE -31.73
Consensus MFE -25.29
Energy contribution -26.63
Covariance contribution 1.34
Combinations/Pair 1.09
Mean z-score -2.73
Structure conservation index 0.80
SVM decision value 0.98
SVM RNA-class probability 0.893851
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15082464 119 - 22224390
ACAGCAGCAGCAGCAGGCAGCAGGCAGCGGCGGAAAAUCAUAAAGGAAAAUAUUGAAUUUACUGCAAAAAAUGCAAAUUU-CUCCUUUGAGGCAAGCCUGAAAACUCCGCUGACUGCCAA
......((.((.....)).)).((((((((((((......(((((((((((.(((.((((........)))).)))))))-.)))))))(((....)))......))))))).))))).. ( -37.40)
>DroAna_CAF1 35047 114 - 1
UCAGCAGCAGCAGCA-ACAGCAGGCAGC---GGAAAAUCAUAAAGGAAAAUAUUGAAUUUACUGCAAAAAAUGCAAAUUU-CUCCUUUGAGGCGAGCCUGAA-UCUCCUCUGACUUUCCC
......((.((.((.-...))..)).))---(((((.(((.((((((((((.(((.((((........)))).)))))))-.))))))((((.((.......-)).))))))).))))). ( -25.70)
>DroYak_CAF1 36476 117 - 1
ACAGCAGCAGCA---GGCAGCAGGCAGCGGUGGAAAAUCAUAAAGGAAAAUAUUGAAUUUACUGCAAAAAAUGCAAAUUUUUUCCUUUGAGCCAAGCCUGAAAACUUCACUGACUGCCAA
...((.((....---.)).)).((((((((((((...(((((((((((((.(((........((((.....))))))).)))))))))).((...)).)))....))))))).))))).. ( -32.10)
>consensus
ACAGCAGCAGCAGCAGGCAGCAGGCAGCGG_GGAAAAUCAUAAAGGAAAAUAUUGAAUUUACUGCAAAAAAUGCAAAUUU_CUCCUUUGAGGCAAGCCUGAAAACUCCACUGACUGCCAA
......((.((.....)).)).((((((((((((......(((((((((((.....))))..((((.....)))).......)))))))(((....)))......))))))).))))).. (-25.29 = -26.63 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:26 2006