Locus 321

Sequence ID 3R_DroMel_CAF1
Location 1,242,958 – 1,243,069
Length 111
Max. P 0.895338
window542

overview

Window 2

Location 1,242,958 – 1,243,069
Length 111
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 74.20
Mean single sequence MFE -31.12
Consensus MFE -11.88
Energy contribution -15.00
Covariance contribution 3.12
Combinations/Pair 1.24
Mean z-score -2.33
Structure conservation index 0.38
SVM decision value 0.99
SVM RNA-class probability 0.895338
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1242958 111 + 27905053
AGUUGGUGAGCUGGUAAGGCUGCUUGCAACUCGCAGAAUCCCUGGUCGGAAAUUUUCAUGAGAAAUCAUGGCAGAAAUAGAAAUUCUA-AUUGCUGCGAGGAAUUUCAAUU---C
((((((..(((.((.....)))))..)..(((((((..(((......))).....((((((....))))))......(((.....)))-....)))))))......)))))---. ( -30.60)
>DroSec_CAF1 16756 111 + 1
AGAUGGUGAGCUGGUAAGGCUGCUUGCCACUCGCAGAAUCCCUGGUCUGAAAUUUUCAUGAGAAAUCAUGGCAGAAAUAGAAAUUCUA-AUUGCUGCGAGGAAUUUCAAUU---C
.(((.(((((.(((((((....))))))))))))...))).......((((((((((((((....)))))((((((.(((.....)))-.)).))))..)))))))))...---. ( -37.20)
>DroSim_CAF1 17062 111 + 1
AGUUGGUGAGCUGGUAAGGCUGCUUGCCACUCGCAGAAUCCCUGGUCGGAAAUUUUCAUGAGAAAUCAUGGCAGAAAUAGAAAUUCUA-AUUGCUGCGAGGAAUUUCAAUU---C
.....(((((.(((((((....))))))))))))..............(((((((((((((....)))))((((((.(((.....)))-.)).))))..))))))))....---. ( -34.80)
>DroEre_CAF1 17153 85 + 1
AGUUGGUGAGCUGGCAAGGCUGCUUGCCACUCGCAGAAUCUCUUGUCGAA--------------------------AUAGAAAUUCUA-AUUGACAUGAGGAAUGCGAAUU---C
...(((..(((.(((...))))))..))).(((((...((((.((((((.--------------------------.(((.....)))-.)))))).))))..)))))...---. ( -30.80)
>DroYak_CAF1 23251 115 + 1
AGUUGGUGAGCUGAUAAGGCUGCUUGCCACUCGCAGAAUCCCUUGUCGGAAAUUUAUAGGGGAAAUCACGGCAGAAAUAGAAAUUCCUGCGAGGAAUUACAAAUGGAAAUUGGUU
...(((..(((..........)))..)))(((((((..((((((((.........))))))))..((......))...........))))))).....((.(((....))).)). ( -31.20)
>DroAna_CAF1 17738 100 + 1
ACUUGGU---CUGGAUAAGCUUCUUGCUAAAUGCAAAAUUCCCUGUUGGAAAUU-UCAUGAGAAAUCAUGACAG------AAAUUCUA-AUUGCUGC-AGGAAUUUCAAUU---C
.......---.((((.....(((((((.....((((..((((.....))))...-((((((....))))))...------........-.)))).))-))))).))))...---. ( -22.10)
>consensus
AGUUGGUGAGCUGGUAAGGCUGCUUGCCACUCGCAGAAUCCCUGGUCGGAAAUUUUCAUGAGAAAUCAUGGCAGAAAUAGAAAUUCUA_AUUGCUGCGAGGAAUUUCAAUU___C
.....(((((.(((((((....))))))))))))(((((.((.....))......((((((....))))))...........)))))............................ (-11.88 = -15.00 +   3.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:23 2006