Locus 5410

Sequence ID 3R_DroMel_CAF1
Location 14,227,718 – 14,227,808
Length 90
Max. P 0.688743
window8806

overview

Window 6

Location 14,227,718 – 14,227,808
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 83.52
Mean single sequence MFE -33.78
Consensus MFE -23.23
Energy contribution -24.17
Covariance contribution 0.95
Combinations/Pair 1.31
Mean z-score -2.39
Structure conservation index 0.69
SVM decision value 0.32
SVM RNA-class probability 0.688743
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14227718 90 - 27905053
UUGGCCACGCCUGCAACCCA---GACGGAUGAGGUGGCGGGCAGCUUCCUGGCUGCAGCAUCCAGUACACACAAGAGCUUGAAGGCCAAACUA
((((((..((((((.(((((---......)).))).))))((((((....)))))).)).((.(((.(......).))).)).)))))).... ( -34.10)
>DroVir_CAF1 367 93 - 1
CCCGCCACACCUUCGGCUCCAUUGAGCGACGAAAUUGGCGCUAGCUUGCUGGCUGCCGCUUCCAGCACACACAAGAGUCUCAAAGCCAAGCUG
.......((.(((.((((...((((((.........((((((((....))))).)))((.....))..........).)))))))))))).)) ( -25.70)
>DroSec_CAF1 7359 90 - 1
UUGGCCACGCCUCCCACCCA---GACGGAUGAGGUAGCGGGCAGCUUCCUGGCUGCCGCAUCCAGCACACACAAGAGCUUGAAGGCCAAACUA
((((((.(((..((((.((.---...)).)).))..)))(((((((....)))))))...((.(((.(......).))).)).)))))).... ( -37.40)
>DroSim_CAF1 8670 90 - 1
UUGGCCACGCCUCCCACCCA---GACGGAUGAAGUGGCAGGCAGCUUCCUGGCUGCCGCAUCCAGUACACACAAGAGCUUGAAGGCCAAACUA
((((((..(((.(.((.((.---...)).))..).))).(((((((....)))))))...((.(((.(......).))).)).)))))).... ( -32.10)
>DroEre_CAF1 3500 90 - 1
UUGGCCACGCCUGUCACCCA---GGCGGAUGAAGUGGCAGGCAGCUUCCUGGCUGCCGCAUCCAGCACACACAAGAGCUUAAAGGCCAAACUA
((((((..(((((.....))---)))((((...(((((((.(((....))).)))))))))))(((.(......).)))....)))))).... ( -40.90)
>DroYak_CAF1 364 90 - 1
UUGGCCACGCCUGCCACACA---GGUAGAUGAAGGGGCAGGCAGCUUCCUGGCUGCCGCAUCCAGCACACACAAGAGCUUGAAGGCAAAACUA
...(((..(((((((.....---))))).....(((((.(((((((....))))))))).))).)).....(((....)))..)))....... ( -32.50)
>consensus
UUGGCCACGCCUGCCACCCA___GACGGAUGAAGUGGCAGGCAGCUUCCUGGCUGCCGCAUCCAGCACACACAAGAGCUUGAAGGCCAAACUA
((((((..(((((((((................)))))))))(((((..((((((.......)))).)).....)))))....)))))).... (-23.23 = -24.17 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:00 2006