Locus 8993

Sequence ID 3R_DroMel_CAF1
Location 24,110,507 – 24,110,607
Length 100
Max. P 0.892321
window14416

overview

Window 6

Location 24,110,507 – 24,110,607
Length 100
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 75.49
Mean single sequence MFE -27.09
Consensus MFE -7.69
Energy contribution -9.75
Covariance contribution 2.06
Combinations/Pair 1.10
Mean z-score -2.83
Structure conservation index 0.28
SVM decision value 0.97
SVM RNA-class probability 0.892321
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24110507 100 - 27905053
AUAAGU---AGCAAAAAUAGCAACAAGGCA--GCAGCAGUUUUGGCCUUAAA-----------GGCAAUAAGAUUGCCUGCUGGCCCAAAAGUAUGUGCUCGCUUGUCUCAUAAAA
((((((---((((...(((.......((((--(((((((((((((((.....-----------)))..)))))))).))))).)))......))).)))).))))))......... ( -30.52)
>DroVir_CAF1 319376 105 - 1
AGAAACAACUGCAAAAACAGCAACAGGGGAAGACAUCAGU--UGGCUUUAAAAUCCAGAAAAGGCCAAUAAAAAUUUCAG----C-CCAAAG----UACUCGUUUGCCUAAUAAAA
..........(((((...((......(((..((.((..((--(((((((...........)))))))))....)).))..----)-))....----..))..)))))......... ( -18.20)
>DroSec_CAF1 297587 100 - 1
AUAAAU---AGCAAAAAUAGCAACAAGGCA--GCAGCAUUUUUGGACCAAAA-----------GCCAAUGAGAUUGCCUGCUGGCCCAAAAGUGUGUGCUCGCUAGUCUCAUAAAA
.....(---(((.......((......))(--(((((((((((((.(((..(-----------(.((((...)))).))..))).)))))))))).)))).))))........... ( -28.10)
>DroSim_CAF1 297696 100 - 1
AUAAAU---AGCAAAAAUAGCAUCAAGGCA--GCAGCAUUUUUGGACCAAAA-----------GCCAAUGAGAUUGCCUGCUGGCCCAAAAGUGUGUGCUCGCUUGUCUCAUAAAA
......---.((.......))....(((((--(((((((((((((.(((..(-----------(.((((...)))).))..))).)))))))))).)))).))))........... ( -27.90)
>DroEre_CAF1 311313 90 - 1
AUAAAU------------AGCAACAAGGCA--GCAGCAGUUUUGGCCUUAAA-----------GCCAA-AAGAUUGCCUGCUGGCCCGAAAGUGUUUGCCCGCUUGUCUCAUAAAA
......------------.((((((.((((--((((((((((((((......-----------)))))-..))))).))))).)))(....))).))))................. ( -26.50)
>DroYak_CAF1 311632 91 - 1
AUAAAU------------AGCAACAAGGCA--GCAGCAGUUUUGGCCUUAAA-----------GCCAAUGAGAUUGGCUGCUGGCCCAAAAGUGUGUGCUCGCUUGUCUCAUAAAA
......------------.(..((((((.(--((((((.((((((((....(-----------((((((...)))))))...)).)))))).))).))))).)))))..)...... ( -31.30)
>consensus
AUAAAU___AGCAAAAAUAGCAACAAGGCA__GCAGCAGUUUUGGCCUUAAA___________GCCAAUAAGAUUGCCUGCUGGCCCAAAAGUGUGUGCUCGCUUGUCUCAUAAAA
...................((.....(((...((((((...(((((.................)))))......)).))))..)))...(((((......)))))))......... ( -7.69 =  -9.75 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:24:25 2006