Locus 3193

Sequence ID 2R_DroMel_CAF1
Location 10,927,137 – 10,927,249
Length 112
Max. P 0.729485
window5251

overview

Window 1

Location 10,927,137 – 10,927,249
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.49
Mean single sequence MFE -29.11
Consensus MFE -22.38
Energy contribution -22.14
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.77
SVM decision value 0.42
SVM RNA-class probability 0.729485
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10927137 112 + 20766785
UUUAAUUA-GAAAAAUAAAAUGAAAGC-------GAAGAGCGUUUUGCAAGCCCCACGGCUUGAGGUGGAAUUCAAAAGCAGGGUCAAAGGCACCCAAGCAAGUUGCCUUGAUCUUAGCA
........-(((..........(((((-------(.....)))))).((((((....))))))........)))....((((((((((.((((.(.......).)))))))))))).)). ( -28.90)
>DroSec_CAF1 40004 112 + 1
CUUAAUUA-GAAAAAUAAAAUGAAAGC-------GAAGAGCGUUUUGCAAGCCCCACGGCUUGAGGUGGAAUUCAAAGGCAGGGUCAAAGGCACCCAAGCAAGUUGCCUUGAUCUUAGCA
........-(((..........(((((-------(.....)))))).((((((....))))))........)))....((((((((((.((((.(.......).)))))))))))).)). ( -28.70)
>DroSim_CAF1 41924 112 + 1
UUUAAUUA-GAAAAAUAAAAUGAAAGC-------GAAGAGCGUUUUGCCAGCCCCACGGCUUGAGGUGGAAUUCAAAGGCAGGGUCAAAGGCACCCAAGCAAGUUGCCUUGAUCUUAGCA
........-...........((((.((-------.....)).(((..((((((....))))...))..)))))))...((((((((((.((((.(.......).)))))))))))).)). ( -29.50)
>DroEre_CAF1 39852 113 + 1
UUUAAUUAAGAAAAAUAAAAUAAAAGC-------GAAGAGCGUUUUUCAAGCCCCACAACUUGAGGUGGAAUUCAAAAGCAGGGUCAAAGGCACCCAAGCAAGCUGCCUUGAUCUUAGCA
.........(((.........((((((-------(.....)))))))......((((........))))..)))....((((((((((.((((.(.......).)))))))))))).)). ( -25.40)
>DroYak_CAF1 41425 119 + 1
UUUAAUUA-GAAAAAUGAAAUAAAAGCAAGCAGCGCAGAGCGUUUUUCAAGCCCCACAACUUGAGGUGGAAUUCAAAAGCAGGGUCAAAGGCAGCCACGAUAGUUGCCUUGAUCUUAGCA
........-((((((((........((.....))......)))))))).....((((........)))).........((((((((((.((((((.......)))))))))))))).)). ( -33.04)
>consensus
UUUAAUUA_GAAAAAUAAAAUGAAAGC_______GAAGAGCGUUUUGCAAGCCCCACGGCUUGAGGUGGAAUUCAAAAGCAGGGUCAAAGGCACCCAAGCAAGUUGCCUUGAUCUUAGCA
.......................................(((((((.......((((........))))......)))))((((((((.((((.(.......).)))))))))))).)). (-22.38 = -22.14 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:40 2006