Locus 1950

Sequence ID 3R_DroMel_CAF1
Location 5,502,859 – 5,502,979
Length 120
Max. P 0.695229
window3204

overview

Window 4

Location 5,502,859 – 5,502,979
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.39
Mean single sequence MFE -38.60
Consensus MFE -24.50
Energy contribution -25.45
Covariance contribution 0.95
Combinations/Pair 1.43
Mean z-score -1.59
Structure conservation index 0.63
SVM decision value 0.34
SVM RNA-class probability 0.695229
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5502859 120 - 27905053
CAUGUGACCAUUGCCAUCGAAAUAGGAGCUGGUCGUAUCGAAGCCGUGGAUGAGUUCAUGACCAACGAUAAAACCCAAUGUGCCGAAUUUCAGGGAAAUCGGCAGGUGGCGUUGGUAUAU
.(((((.(((.(((((((............(((..(((((..(.((((((....))))))..)..)))))..))).....((((((.(((....))).))))))))))))).)))))))) ( -40.20)
>DroSec_CAF1 2536 120 - 1
CAAUUGACCAUUGCCAUUGAAAUGGGCGCUGGUGGUAUCGAAGGCGUGGAUGAGUUCAUGACCAACGAUAAAACCCAAGGUGCCGAAUUUCAGGGAAAGCGGCAGGUGGCGGUGGUAUAU
......(((((((((((((((((.(((((((((..(((((..((((((((....)))))).))..)))))..)))...))))))..)))))).......(....)))))))))))).... ( -47.80)
>DroAna_CAF1 2393 120 - 1
AGGUUCACCGUUUCCAUCGAAUAAGAAUCCAAAGGUAUCGAAGCCAUGGGUGAGUUCAUGGCCCAGAACAAAGCCGAGCGUUCCGAACUUCAAAGCGUCUGGCCAAAAAGGAUGAUAAAC
....(((((((((((((.((((....(((((..(((......))).)))))..))))))))....))))...((((..((((..(.....)..))))..))))......)).)))..... ( -28.70)
>DroSim_CAF1 2557 120 - 1
CAAUUGACCAUUGCCAUUGAAAUAGGCGCUGGUGGUAUCGAAGCCGUGGAUGAGUUCAUGACCAACGAUAAAACCCAAGGUGCCGAAUUUCAGGGAAAGUGGCAGGUGGCGGUGGUAUAU
......(((((((((((((((((.(((((((((..(((((..(.((((((....))))))..)..)))))..)))...))))))..)))))).............))))))))))).... ( -42.31)
>DroEre_CAF1 2492 120 - 1
CAACUGACCGUUGUCGUUGAAAUUGGAGCUGGAGGUAUCGAAGCCGUGAACGAGUUCGUGACCCACGAUAAAGCCCAAGGUGCCGAAUUUCAGGGAGAGCGGCAGGUUUCGGUGGUAUAU
...(((.(((((.((.((((((((.(.((((..(((..((((..((....))..))))..)))..)).....(((...)))))).)))))))).)).))))))))............... ( -39.10)
>DroYak_CAF1 2624 120 - 1
CAAUUGACCGUUGCUAUUGUAAUUGAAGCUGGUCGGAUCGAAGCCGUGGAUGAGCUCGUGACCCACGAUAAAGCCCAAGGUGCCGAAUUUCAGGGAGAGCGGCAGGUGGCGGUGGUAUAU
......((((..((((((....(((..(((.(((.(..((....))).))).)))(((((...))))).......)))..(((((..(((....)))..)))))))))))..)))).... ( -33.50)
>consensus
CAAUUGACCAUUGCCAUUGAAAUAGGAGCUGGUGGUAUCGAAGCCGUGGAUGAGUUCAUGACCAACGAUAAAACCCAAGGUGCCGAAUUUCAGGGAAAGCGGCAGGUGGCGGUGGUAUAU
......((((((((((((............(((..(((((..(.((((((....)))))).)...)))))..))).....(((((..(((....)))..))))))))))))))))).... (-24.50 = -25.45 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:39 2006