Locus 9442

Sequence ID 3R_DroMel_CAF1
Location 25,008,728 – 25,008,818
Length 90
Max. P 0.577779
window15122

overview

Window 2

Location 25,008,728 – 25,008,818
Length 90
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 78.15
Mean single sequence MFE -19.62
Consensus MFE -13.74
Energy contribution -13.92
Covariance contribution 0.19
Combinations/Pair 1.13
Mean z-score -1.55
Structure conservation index 0.70
SVM decision value 0.09
SVM RNA-class probability 0.577779
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25008728 90 + 27905053
-----------------------CAGCUUAAAUGGAAAAACCUGAACCUGCGAAAGGCAUGAAAGUGUCCGCAGCUCUAUUUAUAAAGAUAUGCCAAAAAUA------AAGAGCUCAUC
-----------------------.((((((((((((...........(((((...(((((....)))))))))).))))))).......(((.......)))------..))))).... ( -17.10)
>DroSec_CAF1 31155 90 + 1
-----------------------CAGCUUAAAUGGAAAAACAUGAACCUGCGAAACGCAUGAAAGUGUCCGCAGUUCUAUUUAUGAAGAUUUGCCAAAAAUA------AAGAGCUAAUC
-----------------------.(((((..(((......)))((((.((((....((((....)))).)))))))).........................------..))))).... ( -18.10)
>DroSim_CAF1 25269 90 + 1
-----------------------CAGCUUAAAUGGAAAAAACUGAACCUGCGAAACGCAAGAAAGUGUCCGCAGUUUUAUUUAUAAAGAUUUGCCAAAAAUA------AAGAGCUAAUC
-----------------------.(((((....(((....(((...(.((((...)))).)..))).)))((((.(((........))).))))........------..))))).... ( -16.00)
>DroYak_CAF1 24828 119 + 1
GGCAACGUUUUUAGCAUCAAACCCAGCUUAAAUGGAAAAACCUGACGUUGCGAAACGCACGAAAGUGUCCGCAUUUCUAUUUAUAAAGAUUGGCCAAAAAUACCCGUAAAAGGCUAAUC
.((((((((...(((..........))).....((.....)).))))))))((((.((((....)))).....))))..........((((((((................)))))))) ( -27.29)
>consensus
_______________________CAGCUUAAAUGGAAAAACCUGAACCUGCGAAACGCAUGAAAGUGUCCGCAGUUCUAUUUAUAAAGAUUUGCCAAAAAUA______AAGAGCUAAUC
........................(((((((((((((..........(((((..((((......)))).))))))))))))).....(......)...............))))).... (-13.74 = -13.92 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:45 2006