Locus 4868

Sequence ID 2R_DroMel_CAF1
Location 15,936,294 – 15,936,398
Length 104
Max. P 0.847943
window7814

overview

Window 4

Location 15,936,294 – 15,936,398
Length 104
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 84.87
Mean single sequence MFE -28.88
Consensus MFE -14.32
Energy contribution -14.16
Covariance contribution -0.16
Combinations/Pair 1.15
Mean z-score -3.49
Structure conservation index 0.50
SVM decision value 0.78
SVM RNA-class probability 0.847943
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15936294 104 + 20766785
--GAGGCAGGGUAUACGCAAUAUAAAUAUGCGUGUACAUACAGUGCUUCCGAAUAAGAUUUUUUGGGUUUAUACCCCCAC--AUACAGAACUAGUGUAUGUGUGUUAG
--(((((((.(((((((((.........)))))))))...)..))))))...............((((....)))).(((--(((((.......))))))))...... ( -30.60)
>DroSec_CAF1 63710 96 + 1
--GAGGCAGGGUAUACGCAAUAUAAAUAUGUGUGUA----CAGUGCUUCCGAAUAAGAAUUUUUGGGUUUAUACC--CAA--AUACAGAACAAGUGUAUGU--GGAAG
--((((((..(((((((((.........))))))))----)..))))))............(((((((....)))--)))--)((((..((....)).)))--).... ( -29.10)
>DroSim_CAF1 62601 96 + 1
--GAGGCAGGGUAUACGCAAUAUAAAUAUGUGUGUA----CAGUGCUUCCGAAUAAGAAUUUUUCGGUUUAUACC--CAA--AUACAGAACAAGUGUAUGU--GGAAG
--((((((..(((((((((.........))))))))----)..))))))((((.........))))........(--((.--(((((.......))))).)--))... ( -27.20)
>DroEre_CAF1 63485 90 + 1
--GAGGCAGGGUAUACGCAAUAUAAAUAUGUGUGUA----CAGUGCUUCGGAAUAAGAAUUCUUGUGUUUAUA----------CACAGUACAAGUGUAUGU--GGAAG
--((((((..(((((((((.........))))))))----)..))))))...(((((....)))))...((((----------(((.......))))))).--..... ( -28.20)
>DroYak_CAF1 66055 101 + 1
GGGGGGCAGGGUAUACGCAAUAUAAAUAUGUGUGUA----CAGUGCUUCCGAAUAAGAAUUUUUGUGUUUAUACAA-UAAAUACACAGGGCAAGUGUGUGU--GAGAG
.(((((((..(((((((((.........))))))))----)..)))))))............(((((....)))))-...(((((((.......)))))))--..... ( -29.30)
>consensus
__GAGGCAGGGUAUACGCAAUAUAAAUAUGUGUGUA____CAGUGCUUCCGAAUAAGAAUUUUUGGGUUUAUACC__CAA__AUACAGAACAAGUGUAUGU__GGAAG
..((((((..(((((((((.........))))))))....)..)))))).................................(((((.......)))))......... (-14.32 = -14.16 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:09 2006