Locus 5470

Sequence ID 3L_DroMel_CAF1
Location 14,950,482 – 14,950,576
Length 94
Max. P 0.703229
window8657

overview

Window 7

Location 14,950,482 – 14,950,576
Length 94
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 73.38
Mean single sequence MFE -15.06
Consensus MFE -2.00
Energy contribution -4.32
Covariance contribution 2.32
Combinations/Pair 1.12
Mean z-score -1.59
Structure conservation index 0.13
SVM decision value 0.36
SVM RNA-class probability 0.703229
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14950482 94 + 23771897
AAGCAAAUA--UUUAAAGCGCAGCGAGUGAAU--------AUUUGAAUUACAUUAAAUUUAAUAAAGCAAUAGCACAAAGUUCUGCAGCUAU--AAAUAAAACUUA
.......((--((((.(((((((....((...--------..(((((((......)))))))....((....)).)).....)))).))).)--)))))....... ( -15.40)
>DroSec_CAF1 2244 102 + 1
AAGAAAAUA--UUUAAAGCGCAGCGAGUGAAUAUUUGAAUAUUUGAAUUACACCAGAUUUAAUAAAGCAGAGGCACAAAGUUCUGCAGCUAU--AAAUUAAACUUA
(((.....(--((((.(((((((...(((....((((.....(((((((......))))))).....))))..)))......)))).))).)--))))....))). ( -17.60)
>DroSim_CAF1 2287 102 + 1
AAGCAAAUA--UUUGGAGCGUAGCGAGUGAAUACUUGAAUAUUUGAAUUACACCAAAUUUAAUAAAGCAGAGGCACAAAGUUCUGCAGCUAU--AAAUAAAACUUA
.......((--((((.(((....(((((....))))).....(((((((......)))))))....((((((........)))))).))).)--)))))....... ( -18.10)
>DroEre_CAF1 2212 79 + 1
GGGCAAAUAUAU-------------------U--------AUUAGAAUUACAUCAAAUGUAAUUAAGCAAAUGCACAAAGUUCCGCAGCUCUAAAAAUAAAACUUA
((((........-------------------.--------.....((((((((...))))))))..((....)).............))))............... ( -11.00)
>DroYak_CAF1 2314 96 + 1
AAAUAAAAGUAUAUAAAGCGCUGCGAGUGAAU--------ACUAUAACUACAUCAAAUUUAAUAAGGCAAAUGCACUAAGAUCCGCAGCUAU--AAAUAAAACUUA
...................(((((((((....--------......)))...............((((....)).))......))))))...--............ ( -13.20)
>consensus
AAGCAAAUA__UUUAAAGCGCAGCGAGUGAAU________AUUUGAAUUACAUCAAAUUUAAUAAAGCAAAGGCACAAAGUUCUGCAGCUAU__AAAUAAAACUUA
................(((((((...................(((((((......)))))))....((....))........)))).)))................ ( -2.00 =  -4.32 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:12 2006