Locus 7239

Sequence ID X_DroMel_CAF1
Location 18,083,505 – 18,083,615
Length 110
Max. P 0.500000
window11846

overview

Window 6

Location 18,083,505 – 18,083,615
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.86
Mean single sequence MFE -28.14
Consensus MFE -21.63
Energy contribution -22.70
Covariance contribution 1.06
Combinations/Pair 1.04
Mean z-score -1.42
Structure conservation index 0.77
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18083505 110 + 22224390
UCAAACAAAUA---AGAGCGCGAAAGGAAAGGAGGAAACCAAGGAGGGAACUCUGUGUGAUGAUGCGGUUGCCAAAAAUAAAUUCGCA-------AUUUGCAUAGGCGCAAUGGCCUUGC
...........---.....(((((.........((.((((..((((....))))((((....)))))))).)).........))))).-------....(((.((((......))))))) ( -26.67)
>DroSec_CAF1 5932 110 + 1
UCAAACAAAUA---AGAGCGCGAAAGGAAUGGAGGAAACCAAGGAGGGAACUCUGUGUGGUGAUGCGGUUGCCAAAAAUAAAUUCGCA-------AUUUGCAUAGGCGCAAUGGCCUUGC
...........---.....(((((.(((((.(.....((((.((((....))))...))))....).))).)).........))))).-------....(((.((((......))))))) ( -26.90)
>DroSim_CAF1 5711 110 + 1
UCAAACAAAUA---AGAGCGCGAAAGGAAUGGAGGAAACCAAGGAGGGAACUCUGUGUGGUGAUGCGGUUGCCAAAAAUAAAUUCGCA-------AUUUGCAUAGGCGCAAUGGCCUUGC
...........---.....(((((.(((((.(.....((((.((((....))))...))))....).))).)).........))))).-------....(((.((((......))))))) ( -26.90)
>DroYak_CAF1 4596 118 + 1
CCAAACAAAAAAAAAGAACACGCGAGUGAAGGAGGAAACCAAGGAGGGAACUCUG--UGGUGAUGCGGAUGCCAAAAAUAAAUUCGCAAUUCACAAUUUGCAUAGGCGCAAUGGCCUUGC
..................(((....)))......(((((((.((((....)))).--))))..(((((((...........))))))).))).......(((.((((......))))))) ( -32.10)
>consensus
UCAAACAAAUA___AGAGCGCGAAAGGAAAGGAGGAAACCAAGGAGGGAACUCUGUGUGGUGAUGCGGUUGCCAAAAAUAAAUUCGCA_______AUUUGCAUAGGCGCAAUGGCCUUGC
...................(((((.........((.((((..((((....))))((((....)))))))).)).........)))))............(((.((((......))))))) (-21.63 = -22.70 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:50 2006