Locus 5577

Sequence ID X_DroMel_CAF1
Location 14,412,149 – 14,412,241
Length 92
Max. P 0.810597
window9049

overview

Window 9

Location 14,412,149 – 14,412,241
Length 92
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 78.60
Mean single sequence MFE -16.66
Consensus MFE -11.32
Energy contribution -11.72
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.68
SVM decision value 0.65
SVM RNA-class probability 0.810597
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14412149 92 + 22224390
CCCCACUCGUGCCACGCCCCCC---CCCCCCCCUCAGCCAUAUCUUGGCAUAGCUAAACUAUGAGCACGGCUAGAAAUAUAAAUAAACACCAUAU
......(((((((.........---...........((((.....))))((((.....))))).))))))......................... ( -15.00)
>DroSec_CAF1 121954 83 + 1
CCCCCCUCGUGCCACGCCCC------------CUCCGCCAUAUCUUGGCAUAGCUAAACUAUGAGCACGGCUAGAAAUAUUAAUAAACACCAUAU
......(((((((.......------------....((((.....))))((((.....))))).))))))......................... ( -15.10)
>DroSim_CAF1 115159 83 + 1
CCUCCCCCGUGCCACGCCCC------------CUCCGCCAUAUCUUGGCAUAGCUAAACUAUGAGCACGGCUAGAAAUAUUAAUAAACACCAUAU
......(((((((.......------------....((((.....))))((((.....))))).))))))......................... ( -17.50)
>DroEre_CAF1 106702 93 + 1
CC--CGCCGCGCCACGCCCCCUUUGCCACCGCCUUCGCCAUAUCUUGGCAUAUCUAAACUAUGAGCACGGCUAGAAAUCGCUGUAAGCACCAUAU
..--.((((.((((..........((....))....((((.....))))............)).)).))))........((.....))....... ( -19.00)
>DroYak_CAF1 123186 85 + 1
----------GCCACGCCCCCUCCGCCGCCGCCCUCGCCAUAUCUUGGCAUAUCUAAACUAUGAGCACGGCUAGAAAUCGUUAUGAGCACCAUAU
----------((((.((.......)).((((..(((((((.....))))(((.......))))))..))))............)).))....... ( -16.70)
>consensus
CC_CCCCCGUGCCACGCCCCC____CC_CC_CCUCCGCCAUAUCUUGGCAUAGCUAAACUAUGAGCACGGCUAGAAAUAUUAAUAAACACCAUAU
..........(((.......................((((.....))))...(((........)))..)))........................ (-11.32 = -11.72 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:18 2006