Locus 4988

Sequence ID X_DroMel_CAF1
Location 13,040,083 – 13,040,179
Length 96
Max. P 0.556562
window8127

overview

Window 7

Location 13,040,083 – 13,040,179
Length 96
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 87.80
Mean single sequence MFE -18.60
Consensus MFE -13.80
Energy contribution -14.30
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -1.47
Structure conservation index 0.74
SVM decision value 0.05
SVM RNA-class probability 0.556562
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13040083 96 + 22224390
UCAACAUUUCUGCAGCAUU--UCAGUAAGAUUGGUAGGAAUGUCAUAAUAAUUUCAUAAACUAAAAGGAUUAAAUUCUCGCACAGUUGAUUGAAAUGC
..............(((((--(((((..((((((..(((((....((((..(((.........)))..)))).)))))..).))))).)))))))))) ( -19.60)
>DroSec_CAF1 9717 96 + 1
CCAACAUUUCUGCAGCUCU--UCAGUAAGAUUAGUAGGAAUGUCAUAACAAUUUCAUAAACUAAAAGGAUUAAAUUCUCGCACAGUUGAUUGAAAUGC
...((((((((((...(((--(....))))...)))))))))).......((((((..((((....(((......))).....))))...)))))).. ( -18.80)
>DroEre_CAF1 10010 96 + 1
CCAACAUUUCUGCUGCAAA--UCAGCAAGAUUAGCAAGAAUGUCAUAGCAAUUUCAUAAACUAAAAGGAUUAAAUUCUCGCACAGUUGAUUGAAAUGC
...(((((..(((((...(--((.....))))))))..)))))....(((.(((((..((((....(((......))).....))))...)))))))) ( -18.70)
>DroYak_CAF1 10390 98 + 1
CGCACAUUUCUGCAGCAUUUUUUAGCAAGAUUAGCAAGAAUGUCAUAGGAAUUUCAUAAACUAAACGGAUAAAAUACUGGCACAGUUGAUUGAAAUAC
.......(((((..((((((((..((.......))))))))))..)))))((((((..((((...(((........)))....))))...)))))).. ( -17.30)
>consensus
CCAACAUUUCUGCAGCAUU__UCAGCAAGAUUAGCAAGAAUGUCAUAACAAUUUCAUAAACUAAAAGGAUUAAAUUCUCGCACAGUUGAUUGAAAUGC
...((((((((((....................)))))))))).......((((((..((((....(((......))).....))))...)))))).. (-13.80 = -14.30 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:35 2006