Locus 301

Sequence ID 2R_DroMel_CAF1
Location 2,023,182 – 2,023,272
Length 90
Max. P 0.864980
window622

overview

Window 2

Location 2,023,182 – 2,023,272
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 84.60
Mean single sequence MFE -27.55
Consensus MFE -20.22
Energy contribution -20.58
Covariance contribution 0.36
Combinations/Pair 1.26
Mean z-score -3.33
Structure conservation index 0.73
SVM decision value 0.84
SVM RNA-class probability 0.864980
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2023182 90 - 20766785
GCUUCGCUUCGAUGGCGACAUCUUCUUAAAAUGAAAAUAAAACGAAA---AGUGCCAAAAAUCGCGUGUUGAUAACAGCGCGCGAAAUGCAGG
((..(((((.((((....))))(((.......)))...........)---)))).......((((((((((....))))))))))...))... ( -25.40)
>DroPse_CAF1 13087 79 - 1
GCUUCGCUUCGCUGGCGACAUCUUCAUGAAA-------------AAAA-AAGUGCCAAAAAUCGCGUGUUGAUAACAGCGCGUGAAGCAGGGG
.((..(((((((((((.((............-------------....-..))))))........((((((....)))))))))))))..)). ( -24.27)
>DroSim_CAF1 8543 93 - 1
GCUUCGCUUCGAUGGCGACAUCUUCAUAAAAUGAAAAUAAAACGAAAAGAAGUGCCAAAAAUCGCGUGUUGAUAACAGCGCGCGAAAUGGAGG
(((((..(((((((....))))(((((...)))))........)))..))))).(((....((((((((((....))))))))))..)))... ( -31.50)
>DroEre_CAF1 8330 92 - 1
GCUCCGCUUCGAUGGCGACGUCUUCAUAAAAUGAAAAUGAAAUGAAAA-AAGUGACAAAAAUCGCGUGUUGAUAACAGCGCGCGAAUUGGGGG
.((((((((.((((....))))(((((...((....))...)))))..-))))........((((((((((....))))))))))...)))). ( -30.60)
>DroYak_CAF1 11474 92 - 1
GCUCCGCUUCGAUGGCGACAUCUUCAUAAAAUGAAAAUAAAAUGAAAA-AAGUGGCAAAAUUCGCGUGUUAAUAACAGCGCGCGAAAUGGAGG
.(((((((.(((((....))))(((((...((....))...)))))..-..).)))....((((((((((......))))))))))..)))). ( -31.40)
>DroAna_CAF1 8756 89 - 1
GAUUCGCUUCGAUGGCGACAUCUUCAUAAAAUAAAAAUGCAA---AAA-AAGUGCCAAAAAUCGCGUGUUGAUAACAGCGCGGGUAAUGGGGC
((((((((.....))))).)))....................---...-..((.(((...(((.(((((((....))))))))))..))).)) ( -22.10)
>consensus
GCUUCGCUUCGAUGGCGACAUCUUCAUAAAAUGAAAAUAAAA_GAAAA_AAGUGCCAAAAAUCGCGUGUUGAUAACAGCGCGCGAAAUGGAGG
.(((((....((((....)))).......................................((((((((((....))))))))))..))))). (-20.22 = -20.58 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:57 2006