Locus 5968

Sequence ID 2R_DroMel_CAF1
Location 18,800,559 – 18,800,669
Length 110
Max. P 0.547068
window9572

overview

Window 2

Location 18,800,559 – 18,800,669
Length 110
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 88.60
Mean single sequence MFE -35.92
Consensus MFE -26.58
Energy contribution -28.39
Covariance contribution 1.81
Combinations/Pair 1.03
Mean z-score -1.48
Structure conservation index 0.74
SVM decision value 0.03
SVM RNA-class probability 0.547068
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18800559 110 + 20766785
ACUGUUUCCACCUGACCUAUGCCAACAUAAGCCCUGCAAAGUGCACUAUGCGAAGGUCUUUACACCUGCAAACG--------GCGGCCAAAGGAUCCUGGAAGCAGACAGUGGAGUUG
.((((((((((((......((((.......((.((....)).))....(((..((((......)))))))...)--------))).....)))....)))))))))............ ( -29.90)
>DroSec_CAF1 19999 110 + 1
ACUGAUUCCACCUGACCUAUGCCAACAUAAGCCCUGCAAAGUGCACUAUGCGAGGGGCUUUACACCUGCUAACG--------GCGGCCAAAGGAUCCUGGAAGCAGACAGGGGAGUUG
...((((((.((((.(((..(((.....((((((((((.((....)).)))..))))))).......((.....--------)))))...)))...(((....))).)))))))))). ( -39.50)
>DroSim_CAF1 19965 110 + 1
ACUGAUUCCACCUGACCUAUGCCAACAUAAGCCCUGCAAAGUGCACUAUGCGAAGGGCUUUACACCUGCUAACG--------GCGGCCAAAGGAUCCUGGAAGCAGACAGGGGAGUUG
...((((((.((((.(((..(((.....((((((((((.((....)).)))..))))))).......((.....--------)))))...)))...(((....))).)))))))))). ( -39.50)
>DroYak_CAF1 20318 118 + 1
UCCGUUUCCACCUGACCUAUGCCAACAUAAGCCCUGCAAAGUGCACUAUGCGAAGGGCUUUGCACCUGCAAAGGAAGCAAGGAAGGCCCCAGGAUCCUGGCAACAGACAGUGAAGUUU
........(((.((.(((..(((......(((((((((.((....)).)))..))))))((((.(((....)))..))))....)))...)))...(((....))).)))))...... ( -34.80)
>consensus
ACUGAUUCCACCUGACCUAUGCCAACAUAAGCCCUGCAAAGUGCACUAUGCGAAGGGCUUUACACCUGCAAACG________GCGGCCAAAGGAUCCUGGAAGCAGACAGGGGAGUUG
...((((((.((((.(((..(((.....((((((((((.((....)).)))..))))))).......((.............)))))...)))...(((....))).)))))))))). (-26.58 = -28.39 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:15 2006