Locus 7663

Sequence ID 3R_DroMel_CAF1
Location 20,538,598 – 20,538,698
Length 100
Max. P 0.730337
window12368

overview

Window 8

Location 20,538,598 – 20,538,698
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.60
Mean single sequence MFE -28.48
Consensus MFE -19.44
Energy contribution -18.97
Covariance contribution -0.47
Combinations/Pair 1.15
Mean z-score -1.63
Structure conservation index 0.68
SVM decision value 0.42
SVM RNA-class probability 0.730337
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20538598 100 + 27905053
AUCGAAGAAAGCGCCGCGGCGCUCGUUGACAUGAAGUUAAUUGACGUGAUUAUAUACCUAAUUGCCAUUUUGAUCUUCAUCUAUUUGCUGCUGGAGUAGC--------------------
.((((....(((((....)))))..)))).((((((((((.....(..((((......))))..)....)))).))))))......(((((....)))))-------------------- ( -25.10)
>DroVir_CAF1 11421 107 + 1
--AAAGAAAAGCGCCGCGGCGCACGUGGACAUGAAGUUAAUUGAUGUGAUUAUAUACUUAAUUGCUAUUUUGAUCUUCAUCUACUUGCUGCUGGAAUAAUAGCCAGCAC-----------
--........((((....))))..(((((..(((((((((.....(..((((......))))..)....)))).))))))))))....((((((........)))))).----------- ( -32.40)
>DroGri_CAF1 15008 107 + 1
--AAAGGAAAGCGCCGCGGCGCACGUGGACAUGAAGUUAAUUGAUGUGAUUAUCUACUUAAUUGCUAUUUUGAUCUUCAUCUACUUGCUGCUGGAAUAAGCAACAGCAC-----------
--........((((....))))..(((((..(((((((((.....(..((((......))))..)....)))).)))))))))).(((((.((.......)).))))).----------- ( -30.00)
>DroWil_CAF1 12224 118 + 1
UUCAAAGAAAGCGCCGCGGCGCACGCUGACAUGAAGUUAAUUGAUGUGAUUAUCUACUUAAUUGCUAUUUUGAUCUUCAUCUAUUUGCUGCUGGAGUAGG--GCAAAAAAGAAGUUAACC
(((.......((((....))))..(((...((((((((((.....(..((((......))))..)....)))).)))))).......((((....)))))--))......)))....... ( -26.80)
>DroMoj_CAF1 11146 103 + 1
-UAAAGGAAAGCGCCACGGCGCACGUGGACAUGAAGUUAAUUGAUGUUAUUAUAUAUUUAAUAGCUAUUUUAAUCUUCAUCUAUUUGCUGUUGGAGUAA-----ACCAC-----------
-.........((((....))))..((((..((((((((((.....(((((((......)))))))....)))).))))))...((((((.....)))))-----)))))----------- ( -27.30)
>DroAna_CAF1 10221 108 + 1
ACUGAAGAAAGCGCCGCGGCGCACGCUGACAUGAAGUUAAUUGAUGUGAUUAUCUACUUAAUUGCCAUUUUGAUCUUCAUCUACCUGCUGCUUGAGUAGU-GGCAGUAU-----------
..((((((..((((....))))..((..((((.((.....)).))))(((((......)))))))........)))))).....((((..((.....)).-.))))...----------- ( -29.30)
>consensus
_UAAAAGAAAGCGCCGCGGCGCACGUGGACAUGAAGUUAAUUGAUGUGAUUAUAUACUUAAUUGCUAUUUUGAUCUUCAUCUACUUGCUGCUGGAGUAAG___CAGCAC___________
..........((((....))))........((((((((((.....(((((((......)))))))....)))).))))))....(((((.....)))))..................... (-19.44 = -18.97 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:30 2006