Locus 6408

Sequence ID 2R_DroMel_CAF1
Location 20,044,941 – 20,045,040
Length 99
Max. P 0.805043
window10225

overview

Window 5

Location 20,044,941 – 20,045,040
Length 99
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 84.46
Mean single sequence MFE -31.73
Consensus MFE -26.95
Energy contribution -27.56
Covariance contribution 0.61
Combinations/Pair 1.08
Mean z-score -1.91
Structure conservation index 0.85
SVM decision value 0.63
SVM RNA-class probability 0.805043
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20044941 99 + 20766785
GACACCCCGAGCCCUUGCAUCUGGA---UGCUGGAUGCUGGAUGCGAGCGGCGUAUAAAAGCGACUUGGCCAGAAGUUUCGCAAACAUUUUGGCAUCGCCUG
..........(((((((((((..(.---.........)..)))))))).)))........((((....((((((((((.....))).))))))).))))... ( -34.90)
>DroSec_CAF1 4861 92 + 1
GCCACCCCAAGCCCUUGCAUAUGGA---UG-------CUGGAUGCGAGCGGCGUAUAAAAGCGACUUGGCCAGAAGUUUCGCAAACAUUUUGGCAUCGCCUG
..........((((((((((..(..---..-------)...))))))).)))........((((....((((((((((.....))).))))))).))))... ( -28.10)
>DroSim_CAF1 4844 92 + 1
GCCACCCCAAGCCCUUGCAUCUGGA---UG-------CUGGAUGCGAGCGGCGUAUAAAAGCGACUUGGCCAGAAGUUUCGCAAACAUUUUGGCAUCGCCUG
..........(((((((((((..(.---..-------)..)))))))).)))........((((....((((((((((.....))).))))))).))))... ( -34.40)
>DroEre_CAF1 4965 86 + 1
--CACCCCAAGCCCUUGCAUCC-------G-------CUGGAUGCGAGCGGCGUAUAAAAGCGACUUGGCCAGAAGUUUCGCAAACAUUUUGGCAUCGCCUG
--........((((((((((((-------.-------..))))))))).)))........((((....((((((((((.....))).))))))).))))... ( -33.50)
>DroYak_CAF1 5003 86 + 1
--CACCCCAAGCCCUUGCAUCC-------G-------CUGGAUGCGAGCGGCGUAUAAAAGCGACUUGGCCAAAAGUUUCGCAAACAUUUUGGCAUCGCCUG
--........((((((((((((-------.-------..))))))))).)))........((((....((((((((((.....))).))))))).))))... ( -33.40)
>DroAna_CAF1 7520 99 + 1
--CAUUAUACACCCCUUCAUCCAGUAUCUGAUGGAUUC-GGAUGCGAGUGUGGUAUAAAAGCGACUUGGCCAGAAGUUUUGCAAACAUUUUGGCAUCGACUG
--..((((((.......(((...((((((((.....))-))))))..)))..)))))).(((((....((((((((((.....))).))))))).))).)). ( -26.10)
>consensus
__CACCCCAAGCCCUUGCAUCCGGA___UG_______CUGGAUGCGAGCGGCGUAUAAAAGCGACUUGGCCAGAAGUUUCGCAAACAUUUUGGCAUCGCCUG
..........((((((((((((.................))))))))).)))........((((....((((((((((.....))).))))))).))))... (-26.95 = -27.56 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:15 2006