Locus 4298

Sequence ID 2R_DroMel_CAF1
Location 14,131,625 – 14,131,720
Length 95
Max. P 0.856666
window6896

overview

Window 6

Location 14,131,625 – 14,131,720
Length 95
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 75.33
Mean single sequence MFE -31.02
Consensus MFE -15.62
Energy contribution -15.59
Covariance contribution -0.02
Combinations/Pair 1.23
Mean z-score -2.00
Structure conservation index 0.50
SVM decision value 0.81
SVM RNA-class probability 0.856666
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14131625 95 - 20766785
CUAAGAAGAUCCGGGAGCUGAGCUAUCA-AACAUGGCGAGCA-----AGGGCCACGU------------UGGCGCUGAUAAGUUCCCAUUCCAAUCCAUUGGCUAUCCCGGAU
........((((((((....(((((...-...((((.((((.-----((.(((....------------.))).)).....))))))))..........))))).)))))))) ( -33.09)
>DroSec_CAF1 1558 95 - 1
CUAAGAAGAUCCGGGAGCUGAGCUAUCA-AAUAUGGCGAGCA-----AGGGCCACGU------------UGGCGCUGAUAAGUUCUCAUUCCAUUCCAUUGGCUAUCCCGGAU
........((((((((....(((((...-...((((.((((.-----((.(((....------------.))).)).....)))).....)))).....))))).)))))))) ( -32.20)
>DroSim_CAF1 1588 95 - 1
CUAAGAAGAUCCGGGAGCUGAGCUAUCA-AAUAUGGCGAGCA-----AGGGCCACGU------------UGGCGCUGAUAACUUCUCAUUCCAUUCCAUUGGCUAUCCCGGAU
........((((((((....(((((...-...((((.(((..-----((.(((....------------.))).))........)))...)))).....))))).)))))))) ( -31.00)
>DroEre_CAF1 1667 90 - 1
CCAAGAAGAUCCGGGAGUUAAGCAAUCA-AAAAUGGAGAGCA-----AGGGCCACGU------------UGCCGUUGAUAAGUAAUCAUUC-----CAUGAGCUAUCCCGGAU
........((((((((....(((..(((-....(((((.(((-----(.(....).)------------)))...((((.....)))))))-----)))))))).)))))))) ( -27.00)
>DroYak_CAF1 1623 90 - 1
CCAAGAAGAUCCGGGAGUUAAGCAAUCA-AGCAUGGAGAGCA-----AGGGCCACGU------------UGGCGCUGAUAAGUACUCAUUC-----CAUAAGCUAUCCCGGAU
........((((((((.....((.....-.))((((((((..-----...(((....------------.)))(((....))).)))..))-----)))......)))))))) ( -27.90)
>DroAna_CAF1 1627 106 - 1
CUAAGCGGUACCGGGAGAUGGAAAAUCGGAACACGGCGAUCGAUAGGAGCGCCACGUAACCACUAAAGGUUGCGUUGAUAAGC--CCCU-----UCGAUAAGCAGUCCCAGCU
...((((....)(((((((.....)))........((.(((((.(((.((.(.((((((((......)))))))).)....))--.)))-----)))))..))..)))).))) ( -34.90)
>consensus
CUAAGAAGAUCCGGGAGCUGAGCAAUCA_AACAUGGCGAGCA_____AGGGCCACGU____________UGGCGCUGAUAAGUUCUCAUUC___UCCAUUAGCUAUCCCGGAU
........(((((((((((..((..(((.....)))...))......((.((((...............)))).))........................)))..)))))))) (-15.62 = -15.59 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:28 2006