Locus 2279

Sequence ID X_DroMel_CAF1
Location 6,164,787 – 6,164,892
Length 105
Max. P 0.690374
window3693

overview

Window 3

Location 6,164,787 – 6,164,892
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 85.02
Mean single sequence MFE -19.23
Consensus MFE -14.70
Energy contribution -15.20
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.76
SVM decision value 0.33
SVM RNA-class probability 0.690374
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6164787 105 + 22224390
CAGGACACUUCAGUGCAAGGAUAAAACCCAAAAAAAAAAAAAAAUCCCCCUUUAAUUAUGAGGGGCAACCUCUGGCAAACAAUUGCGGCCACAUGAAGACAAAGC
.......(((((((((..((.......)).................((((((.......)))))).........((((....)))).).))).)))))....... ( -20.50)
>DroSec_CAF1 3387 99 + 1
CAGGACACUUCAGUGCAAGGAUAAAACCCAAA-AAAGCAAAA-----CCCUUUAAUUAUGAGGGGCAACCUCUGGCAAACAAUUGCGGCCACACGAAGACAAAGC
.......((((.(((...((.......))...-...((((..-----(((((.......)))))((........))......)))).....)))))))....... ( -18.90)
>DroSim_CAF1 5733 100 + 1
CAGGACACUUCAGUGCAAGGAUAAAACCCAAAAAAAGCAAAA-----CCCUUUAAUUAUGAGGGCCAACCUCUGGCAAACAAUUGCGGCCACAUGAAGACAAAGC
.......(((((((((..((.......)).......((((..-----.((((.......))))((((.....))))......)))).).))).)))))....... ( -22.10)
>DroYak_CAF1 9081 86 + 1
------ACUUCAGUGCAAGGAUAAACCAAAAA--------AA-----AAAUUUAAUUAUGAGGGGUAACCUCUGGCAAACAAUGGCGGCCACAUGAAGACAAAGC
------.(((((((((..((.....)).....--------..-----............((((.....))))..((........)).).))).)))))....... ( -15.40)
>consensus
CAGGACACUUCAGUGCAAGGAUAAAACCCAAA_AAAGCAAAA_____CCCUUUAAUUAUGAGGGGCAACCUCUGGCAAACAAUUGCGGCCACAUGAAGACAAAGC
.......(((((((((...........................................((((.....))))..((((....)))).).))).)))))....... (-14.70 = -15.20 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:29 2006