Locus 10241

Sequence ID 3R_DroMel_CAF1
Location 27,448,830 – 27,448,948
Length 118
Max. P 0.990754
window16324

overview

Window 4

Location 27,448,830 – 27,448,948
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.02
Mean single sequence MFE -26.80
Consensus MFE -7.62
Energy contribution -8.82
Covariance contribution 1.20
Combinations/Pair 1.22
Mean z-score -2.39
Structure conservation index 0.28
SVM decision value 2.23
SVM RNA-class probability 0.990754
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27448830 118 + 27905053
CAUCCAACGUGUUCCCAAAUAAAUCCCUACGGCUCAAAUGGAAAUGGGGUAUCGGC-UCUUCAAACCCCAAAUCCACAUCCUUUUU-CACAAGGAGAGGCGGUAUUAUUUAUCUUACAUU
........((((......((((((.....((.(((...((((..((((((......-.......))))))..))))..(((((...-...)))))))).)).....))))))...)))). ( -27.72)
>DroSec_CAF1 4786 108 + 1
CAUCG-----------AAAUAAAUCCCUACGACUCAAUUGGAAAUUGGGUAUGGGC-UCUUCAAAGCCCAAAUCCACAUCCUUUUCGCAUACGGUGAGGCUGUAGUAUUUAUCUUACAUU
....(-----------(.((((((..(((((.((((...(((...(((((.(((((-(......)))))).)))))..)))...(((....)))))))..))))).)))))).))..... ( -29.00)
>DroSim_CAF1 4579 108 + 1
CAUCC-----------AAAUAAAUCCCUACGGCUCAAAUGGAAAUUGGGCAUGGGC-UCUUCAAAGCCCAAAUCCACAUCCUUUUCGCAUAAGGAGAGGCUGUAGUAUUUAUCUUACAUU
.....-----------..((((((..((((((((.....(((...((((..(((((-(......))))))..))))..)))(((((......))))))))))))).))))))........ ( -30.60)
>DroEre_CAF1 4666 114 + 1
UUUCCAACGUCUUCC----CAAAUCCCUACAGCUCAAAUGAAAAUUGGCAAUGGGCUCCCAAGAACCCCAAAUCCACAUCCUUUUC--AAAGGGGAGGGCGUUGUUAUUUAUCUUACAUU
....(((((((((((----(...........(((..(((....))))))...(((.((....)).)))..................--....))))))))))))................ ( -28.30)
>DroYak_CAF1 4701 109 + 1
UUUACAAUGUGCUCC----UGAAUCCCUUUAGCUCAAAUGAAAG-----GACAGGCCUCUUCAAACCCCAAAUCCACAUCCUUUUC--AUAGGCGAGGGCGGUUUUAUUUAUCUUACAUU
.....((((((..((----((..(((.((((.......)))).)-----)))))).......(((((((...((.....(((....--..))).)).)).))))).........)))))) ( -18.40)
>consensus
CAUCCAA_GU__UCC_AAAUAAAUCCCUACGGCUCAAAUGGAAAUUGGGUAUGGGC_UCUUCAAACCCCAAAUCCACAUCCUUUUC_CAUAAGGAGAGGCGGUAUUAUUUAUCUUACAUU
....................................((((......(((..((((...........))))..)))....(((((((......))))))).................)))) ( -7.62 =  -8.82 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:52:27 2006