Locus 3400

Sequence ID 3R_DroMel_CAF1
Location 9,204,602 – 9,204,706
Length 104
Max. P 0.978595
window5460

overview

Window 0

Location 9,204,602 – 9,204,706
Length 104
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 87.78
Mean single sequence MFE -31.06
Consensus MFE -27.59
Energy contribution -27.39
Covariance contribution -0.20
Combinations/Pair 1.24
Mean z-score -1.97
Structure conservation index 0.89
SVM decision value 1.82
SVM RNA-class probability 0.978595
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9204602 104 + 27905053
----UCCGCAAGGGUAUAGAAUUUUCGGCAUUCUGCUUCUAAAUCUUAGUUGCUUCAAAUGCAAAUUAGCUUUGGAGAGCGGAAUAAAUAAGGGUCAAGAGAUGUGGG
----(((....)))...........(.((((((((((((((((.((...((((.......))))...)).)))))).))))))))........(((....))))).). ( -27.00)
>DroSec_CAF1 40149 108 + 1
UGUAGCUGCACGGGUAUAAAAUCCUCGGCAUUCCGCUUCCAAAUCUCAGUUGGUCUAAAUGCAAAUUAGCUUUGGAGAGCGGAAUGUAUAAGGGUCAAGAGAUGUGGG
........((((........(((((..((((((((((((((((.((.((((.((......)).)))))).)))))).))))))))))...))))).......)))).. ( -33.46)
>DroSim_CAF1 39053 108 + 1
UGUAGCUGCACUGGCAUAGAAUCCUCGGCAUUCCGCUUCCAAAUCUCAGUUGGUAUAAAUGCAAAUUAGCUUUGGAGAGCGGAAUGUAUAAGGGUCAAGAGAUGUGGG
..........((.((((...(((((..((((((((((((((((.((.((((.(((....))).)))))).)))))).))))))))))...)))))......)))).)) ( -35.60)
>DroEre_CAF1 45816 107 + 1
UUUAGCUGCAAGGGUAUAUAAUCCACGGCAUUCUGCUUCCAAAUCUAAGUUGGCAUAAAUGCAAAUUAGCUUUGGAGAGCGGAAAGUAUAAGGGUCAAGAAAUGUGG-
....((((...((((.....)))).)))).(((((((((((((.((((....(((....)))...)))).)))))).))))))).......................- ( -29.00)
>DroYak_CAF1 39239 108 + 1
UUUAGCUACAAGGGUAUAUAAUCCUCGGCAUUCUGCUUCCAAAUCUCAGUUGGCAUAAAUGCAAAUUAGCUUUGGAGAGCGGAAAGUAUAGGGGUCAAGAAAUGUGGG
.....(((((............((((.((.(((((((((((((.((.((((.(((....))).)))))).)))))).))))))).))...))))........))))). ( -30.25)
>consensus
UGUAGCUGCAAGGGUAUAGAAUCCUCGGCAUUCUGCUUCCAAAUCUCAGUUGGUAUAAAUGCAAAUUAGCUUUGGAGAGCGGAAUGUAUAAGGGUCAAGAGAUGUGGG
.....(((((..........(((((..((((((((((((((((.((.((((.((......)).)))))).)))))).))))))))))...))))).......))))). (-27.59 = -27.39 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:05 2006