Locus 5230

Sequence ID 2L_DroMel_CAF1
Location 14,778,943 – 14,779,063
Length 120
Max. P 0.832249
window8328

overview

Window 8

Location 14,778,943 – 14,779,063
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.25
Mean single sequence MFE -34.67
Consensus MFE -23.52
Energy contribution -23.44
Covariance contribution -0.08
Combinations/Pair 1.21
Mean z-score -2.40
Structure conservation index 0.68
SVM decision value 0.72
SVM RNA-class probability 0.832249
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14778943 120 + 22407834
AGUUAUAAUUCCACAAUUCGGGUCGAGAAACUGACAAUAUCCUGGAAGUGGUAGAAUAAAUAGCAUAGCCACAACGGCUAAUGCUAUGUACUUCAUAACUGCGGUCUUAAUUGCUCGAAU
((((((....((((..((((((..................)))))).))))..(((...(((((((((((.....)))).)))))))....)))))))))(((((....)))))...... ( -30.77)
>DroSec_CAF1 25441 120 + 1
AGUUAUAGUUCCACAAUUCGGGUCAAGAAACUGACAAUAUCCUGGAAGUGGCAGAAUAAAUAGCAUAGCCACAAUGGCUAAUGCUAGGAACUUCAUAACUGCGGUCUUAAUUGCGCGAAU
((((((((((((...((((..(((.....(((..((......))..)))))).))))...((((((((((.....)))).))))))))))))..))))))(((((....)))))...... ( -34.70)
>DroSim_CAF1 23430 120 + 1
AGUUAUAGUUCCACAAUUCGGGUCAAGAAACUGACAAUAUCCUGGAAGUGGUAGAAUAAAUAGCAUAGCCACAAUGGCUAAUGCUAGGAACUUCAUAACUGCGGUCUUAAUUGCUCGAAU
((((((((((((...((((..((((......))))..(((((.....).))))))))...((((((((((.....)))).))))))))))))..))))))(((((....)))))...... ( -33.90)
>DroEre_CAF1 19611 120 + 1
ACUUCGUAUCCCACAAUUUGGCUCCAGAAACUGGCUAGAUCCGGGAAGUGGAAGUACGAAUAGCAUUGCCACGAUGGCAAAUGCUAGGUAUUCCAUAGCUGCGCUCUUUAUUGCUCGAAU
..((((((((((...((((((((.........))))))))..)))).((((((.(((...((((((((((.....))).))))))).)))))))))...)))((........))..))). ( -36.30)
>DroYak_CAF1 22513 120 + 1
ACUUCGAAUUCCGCAAUUUGGGUCGAGAAACUGGCCAGAUCCGGGAAGUGGAAGAACAAAUAGCAUUGCCACAAUGGCUAAUGCUAGGUAUUCCAUAACUGCGCUCUUUCUUGCUCGAAU
...............(((((((.(((((((..((((((.((...)).((((((..((...((((((((((.....))).))))))).)).))))))..))).))).)))))))))))))) ( -37.70)
>consensus
AGUUAUAAUUCCACAAUUCGGGUCAAGAAACUGACAAUAUCCUGGAAGUGGAAGAAUAAAUAGCAUAGCCACAAUGGCUAAUGCUAGGUACUUCAUAACUGCGGUCUUAAUUGCUCGAAU
...............((((((((.((((.(((..((......))..))).((((......((((((((((.....)))).))))))((....))....))))..))))....)))))))) (-23.52 = -23.44 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:16 2006