Locus 4050

Sequence ID X_DroMel_CAF1
Location 10,733,511 – 10,733,608
Length 97
Max. P 0.738739
window6655 window6656

overview

Window 5

Location 10,733,511 – 10,733,608
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 78.23
Mean single sequence MFE -18.43
Consensus MFE -15.52
Energy contribution -15.63
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.15
Structure conservation index 0.84
SVM decision value 0.44
SVM RNA-class probability 0.738739
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10733511 97 + 22224390
CCUCCCUUUUUUGUUUCUUUUUUUUUUGGGCUUGCCCUCUUGGAAUUCUUUUGGAGUGGAAAAUUCUGCCAAAAAGUUUGCGGAAAUAACUGAUAAU
..........((((((((....(((((.(((...((((((.((....))...)))).))........))).))))).....))))))))........ ( -17.10)
>DroEre_CAF1 9582 77 + 1
------------------CUUUUUUUUGGGCUUGCCCC--UGGAAUUCUUUUGGAGUGGAAAAUUCUGCCAAAAAGUUGGCGGAAAUUACUGAUAAU
------------------...((((..(((....))).--.))))((((........))))..(((((((((....)))))))))............ ( -18.20)
>DroYak_CAF1 9563 73 + 1
----------------------UUUUUGGGCUUGCCCC--CGGAAUUCUUUUGGAGUGGAAAAUUCUGCCAAUAAGUUGGCGGAAAUUACUGAUAAU
----------------------.....(((....)))(--((((.....)))))(((((....(((((((((....))))))))).)))))...... ( -20.00)
>consensus
___________________UUUUUUUUGGGCUUGCCCC__UGGAAUUCUUUUGGAGUGGAAAAUUCUGCCAAAAAGUUGGCGGAAAUUACUGAUAAU
...........................(((....)))...(((..((((........))))..(((((((((....)))))))))....)))..... (-15.52 = -15.63 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 10,733,511 – 10,733,608
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 78.23
Mean single sequence MFE -14.33
Consensus MFE -11.20
Energy contribution -11.53
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.78
SVM decision value 0.34
SVM RNA-class probability 0.697106
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10733511 97 - 22224390
AUUAUCAGUUAUUUCCGCAAACUUUUUGGCAGAAUUUUCCACUCCAAAAGAAUUCCAAGAGGGCAAGCCCAAAAAAAAAAGAAACAAAAAAGGGAGG
...........(((((......(((((((.((.........)))))))))..........(((....))).....................))))). ( -14.40)
>DroEre_CAF1 9582 77 - 1
AUUAUCAGUAAUUUCCGCCAACUUUUUGGCAGAAUUUUCCACUCCAAAAGAAUUCCA--GGGGCAAGCCCAAAAAAAAG------------------
................(((((....))))).(((((((..........)))))))..--.(((....))).........------------------ ( -13.30)
>DroYak_CAF1 9563 73 - 1
AUUAUCAGUAAUUUCCGCCAACUUAUUGGCAGAAUUUUCCACUCCAAAAGAAUUCCG--GGGGCAAGCCCAAAAA----------------------
..............(((((((....))))).(((((((..........))))))).)--)(((....))).....---------------------- ( -15.30)
>consensus
AUUAUCAGUAAUUUCCGCCAACUUUUUGGCAGAAUUUUCCACUCCAAAAGAAUUCCA__GGGGCAAGCCCAAAAAAAA___________________
................(((((....))))).(((((((..........))))))).....(((....)))........................... (-11.20 = -11.53 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:07 2006