Locus 3221

Sequence ID 2R_DroMel_CAF1
Location 10,996,587 – 10,996,693
Length 106
Max. P 0.686955
window5294

overview

Window 4

Location 10,996,587 – 10,996,693
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.77
Mean single sequence MFE -18.69
Consensus MFE -1.89
Energy contribution -3.27
Covariance contribution 1.38
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.10
SVM decision value 0.32
SVM RNA-class probability 0.686955
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10996587 106 + 20766785
GCUAAUAUUACCUUAAUAAAAUUAAGGUAAUAAUGUCCC-AGUCCAUGCUAUAAUCCAUAAUUUCUAGGAAAUCCGAUUAUGUCCAUUUACUUCUUAU----AGAA---------UACCA
.(((.((((((((((((...)))))))))))).......-(((..(((.(((((((....(((((...)))))..)))))))..)))..))).....)----))..---------..... ( -17.40)
>DroSec_CAF1 108881 113 + 1
GGUAAUA---AGUUAGUAUAAUUAAGGAAAUAAUGUCCC-AUUUCAUGCUAUAAUCAAUCAUUACUAGGAAAUCCGAUUAUGUCCAUGUAAUUCUUAUGAAUAGUA-ACCUAU--UACCC
(((((((---.((((.(((...((((((...((((...)-))).((((.(((((((.(....)....((....)))))))))..))))...))))))...))).))-)).)))--)))). ( -21.80)
>DroSim_CAF1 111280 116 + 1
GGUAAUA---AGUUAAUAGAAUUAAGGAAAUAAUGUCCC-AUUUCAUGCUAUAAUCAAUCAUUACUAGGAAAUCCGAUAAUGUCCAUGUAAUUCUUAUGAAUAGAAUACCUAUUUUACCC
((((...---.......(((((((.(((.....((((..-(((((...(((((((.....)))).))))))))..))))...)))...)))))))...((((((.....)))))))))). ( -17.40)
>DroEre_CAF1 112105 104 + 1
GGU--------------AGAAUUAAGGUAAUAAUCUUCCAAUUUCAUGCUAUGAUUAUUCAUUGCUAAGAAAUUCGAUAACUUCCAUGUACUUCCUAUGAAUAGAAUACCUAU--UACCU
(((--------------((.....(((((.......((.((((((..((.((((....)))).))...)))))).)).......((((.......)))).......))))).)--)))). ( -17.70)
>DroYak_CAF1 113952 113 + 1
GGUAAUA-----UGAACAGAAUUAAAGUAAAAAUGUUCCAAUUUCAUGUCAUGAUCAAUAGUUUCUAAGAAAUUCGAUCAUAGCCAUGUACUUCCUAUGAAUAGAAUACCUAU--UACCC
(((((((-----.(((((...............)))))......((((.(((((((...((((((...)))))).)))))).).))))......................)))--)))). ( -19.16)
>consensus
GGUAAUA_____UUAAUAGAAUUAAGGUAAUAAUGUCCC_AUUUCAUGCUAUAAUCAAUCAUUACUAGGAAAUCCGAUAAUGUCCAUGUACUUCUUAUGAAUAGAAUACCUAU__UACCC
((((........................................((((..((((((...................))))))...))))............((((.....))))..)))). ( -1.89 =  -3.27 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:22 2006