Locus 4102

Sequence ID 2L_DroMel_CAF1
Location 11,793,627 – 11,793,747
Length 120
Max. P 0.883484
window6468

overview

Window 8

Location 11,793,627 – 11,793,747
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.00
Mean single sequence MFE -47.43
Consensus MFE -28.67
Energy contribution -28.37
Covariance contribution -0.30
Combinations/Pair 1.25
Mean z-score -2.09
Structure conservation index 0.60
SVM decision value 0.93
SVM RNA-class probability 0.883484
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11793627 120 + 22407834
AAAGAGUGAAUCCUCUCCAGCGUGUGGUUACUGAGCAGUCGCAGUCUUCGGACAUCCAACUGCUUGCAACUCAGGUGCUGCAUGUGCGGAGCCAGGGCCAAGAUGAAAGCCACAAACUGU
..((((......)))).(((..(((((((...(((((((.(..(((....)))...).)))))))....(((.(((.((((....)))).))).)))..........)))))))..))). ( -40.50)
>DroPse_CAF1 4089 120 + 1
AGGCUGGUCACCCCGGACAGGGUAUGGCUGCUCAACAGGCGAAGCCGCCUCACAUCCAGCCGCUGGCAGCUCAAACGCUGCAUGUGCGGUGCCAGGGUAAGCACAAAGGCCAGAAACUGA
((.((((((((((......))))..(((((......(((((....)))))......)))))....(((((......))))).(((((..(((....))).)))))..))))))...)).. ( -49.70)
>DroSim_CAF1 992 120 + 1
AAGGAGUGAAUCCUCUCCAGGGUGUGGUUACUGAGCAGUCGCAGUCUUCGGAGAUCCAACUGCUUGCAGCUCAGGCGCUGCAUAUGCGGAGCCAGGGCCAGAAUGAAAGCCACAAACUGU
..((((.(....).))))((..(((((((...(((((((.(.(.((....))..).).)))))))...((((.(((.((((....)))).))).)))).........)))))))..)).. ( -45.80)
>DroEre_CAF1 966 120 + 1
AAGGAGUGAAUCCUCUCCAGGGUGUGGCUACUAAGCACCCGCAGCCGGCGGACAUCCAACUGCUGGCAGCUCAGGCGCUGCAUGUGCGGAGCCAGGGCCAAAAUGAAAGCCUCAAAUUGU
..((((.(....).)))).((((((.........))))))((.((((((((........)))))))).((((.(((.((((....)))).))).))))..........)).......... ( -48.70)
>DroYak_CAF1 980 120 + 1
AAGGAGUGAAUGCUCUCCAGGGUGUGGCUACUAAGCAGCCGCAGUCUUCGGACAUCCAACUGCUGGCAGCUCAGGCGCUGCAUGUGCGGAGCCAGGGCCUGGAUGAAAGCAACAAACUGU
....(((...((((.((((((.(.(((((.((.(((.((((((((....((....)).))))).))).))).))((((.....))))..))))).).))))))....))))....))).. ( -49.20)
>DroPer_CAF1 4085 120 + 1
AGGCUGGUCACCCCGGACAGGGUAUGGCUGCUCAACAGGCGAAGCCGCCUCACAUCCAGCCGCUGGCAGCUCAAACGCUGCAUGUGCGGUGCCAGGGUCAGCACAAAGGCCAGAAACUGA
((.((((((((((......)))).(((((((((...(((((....)))))........(((((..(((((......)))))....)))))....))).)))).))..))))))...)).. ( -50.70)
>consensus
AAGGAGUGAAUCCUCUCCAGGGUGUGGCUACUAAGCAGCCGCAGCCGUCGGACAUCCAACUGCUGGCAGCUCAGGCGCUGCAUGUGCGGAGCCAGGGCCAGAAUGAAAGCCACAAACUGU
...(((......)))..(((..(((((((..............................((((..(((((......)))))....)))).((....)).........)))))))..))). (-28.67 = -28.37 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:28 2006