Locus 5469

Sequence ID 2R_DroMel_CAF1
Location 17,606,982 – 17,607,073
Length 91
Max. P 0.939061
window8726

overview

Window 6

Location 17,606,982 – 17,607,073
Length 91
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 83.86
Mean single sequence MFE -35.85
Consensus MFE -22.20
Energy contribution -22.32
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -2.83
Structure conservation index 0.62
SVM decision value 1.30
SVM RNA-class probability 0.939061
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17606982 91 + 20766785
AGAGGGUGCUAUGCGCGGAGGGCGGCGGUG------------CGAGCGAGCAAGAGCGAUGGAGAUCGUAGGUCGUAUCU--GGGAGAUGCGCGAUGCGCUCGAG
...((((((..(((((.....(((((..((------------(......)))...(((((....)))))..)))))(((.--....))))))))..))))))... ( -31.70)
>DroSec_CAF1 21684 85 + 1
AGAGGGUGCUAUGCGCGGAGGGCGG--GUG------------CGAGCGAGCGAG----GUGGAGAUCGUAGGUCGUAUCU--GGGAGAUGCGCGAUGCGCUCGAG
...((((((..((((((.....(((--(((------------(((.(..((((.----.......)))).).))))))))--).....))))))..))))))... ( -37.20)
>DroSim_CAF1 22443 85 + 1
AGAGGGUGCUAUGCGCGGAGGGCGG--GUG------------CGAGCGAGCGAG----GUGGAGAUCGUAGGUCGUAUCU--GGGAGAUGCGCGAUGCGCUCGAG
...((((((..((((((.....(((--(((------------(((.(..((((.----.......)))).).))))))))--).....))))))..))))))... ( -37.20)
>DroYak_CAF1 23359 99 + 1
AGAGGGUGCUAUGCGCGGACGGCGG--GUGCAAGCGAUCGAGCGAGCGAACGAG----CUGAAGAUCGUAGUUCGAAGUUUGGGGAGAUGCGCGUUGCGCUCGAG
...((((((.(((((((.....(..--.(.(((((..((((((..((((.(...----.....).)))).)))))).))))).)..).))))))).))))))... ( -37.30)
>consensus
AGAGGGUGCUAUGCGCGGAGGGCGG__GUG____________CGAGCGAGCGAG____GUGGAGAUCGUAGGUCGUAUCU__GGGAGAUGCGCGAUGCGCUCGAG
...((((((..(((((..........................(((.(..((((............)))).).))).((((.....)))))))))..))))))... (-22.20 = -22.32 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:39 2006