Locus 1729

Sequence ID 2R_DroMel_CAF1
Location 6,505,293 – 6,505,402
Length 109
Max. P 0.736369
window2892

overview

Window 2

Location 6,505,293 – 6,505,402
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 78.09
Mean single sequence MFE -42.53
Consensus MFE -26.48
Energy contribution -29.10
Covariance contribution 2.62
Combinations/Pair 1.19
Mean z-score -1.85
Structure conservation index 0.62
SVM decision value 0.44
SVM RNA-class probability 0.736369
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6505293 109 + 20766785
UUGUCGCAGGCCUCUGAUUUAUUGGGCAGGAGCACCGGUGGAAGAGGAGGAGGAGCGGCAUGGGCAGGGGCAGGUGGUGAUGCAGGUGCGUUGGGGAUUCGUCGGCCCC
.((((((...(((((..((((((((((....)).))))))))...)))))....))))))......(((((.(..((((((((....)))))).....))..).))))) ( -41.50)
>DroSec_CAF1 72512 103 + 1
UUGUCGCAGGCCUCUGAUUUAUUGGGCAGGAGCACCGGUGGAUGAGGAGGAGG------AUGGGCAGGGGCUGGCGGUGAUGCAGGUGCGUUGGGGAUUCGCUGGCCCC
.((((.((..(((((.(((((((((((....)).)))))))))..)))))...------.))))))(((((..((((((((((....)))))).....))))..))))) ( -47.00)
>DroSim_CAF1 58891 109 + 1
UUGUCGCAGGCCUCUGAUUUAUUGGGCAGGAGCACCGGUGGAUGAGUAGGAGGAGGGGCAUGGGCAGGGGCUGGCGGUGAUGCAGGUGCGUUGGGGAUUCGCCGGCCCC
.((((.((.((((((.(((((((((((....)).))))))))).)).........)))).))))))(((((((((((((((((....)))))).....))))))))))) ( -48.40)
>DroYak_CAF1 76178 82 + 1
UUGUCGCAGGUCUCUGAUUUAUUGGGCAGGAGCACCGGUGCACCUGGGGG---------------------------AGGGGCAGGUGCGCUGGGGAUUUUCCGGCCUC
......(((....))).......((((.((((..((((((((((((....---------------------------.....)))))))))))).....)))).)))). ( -33.20)
>consensus
UUGUCGCAGGCCUCUGAUUUAUUGGGCAGGAGCACCGGUGGAUGAGGAGGAGG______AUGGGCAGGGGCUGGCGGUGAUGCAGGUGCGUUGGGGAUUCGCCGGCCCC
..........(((((..((((((((((....)).))))))))...)))))................(((((((((((.(((((....)))))......))))))))))) (-26.48 = -29.10 +   2.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:54 2006