Locus 5179

Sequence ID 2R_DroMel_CAF1
Location 16,847,082 – 16,847,181
Length 99
Max. P 0.784650
window8282

overview

Window 2

Location 16,847,082 – 16,847,181
Length 99
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 78.47
Mean single sequence MFE -39.41
Consensus MFE -25.56
Energy contribution -26.84
Covariance contribution 1.28
Combinations/Pair 1.44
Mean z-score -1.59
Structure conservation index 0.65
SVM decision value 0.57
SVM RNA-class probability 0.784650
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16847082 99 + 20766785
GCAAUCUGGGGGAGCACAUAUACAGCUCUACCGUCAGCGCAGCUUGAAGGUGCUGCAGACAACGACACAAGCCGUGCCC---AGCGGAUCAGCUGGCGCUAC
((.....((..((((.........))))..))(((((((((((........)))))...............((((....---.))))....))))))))... ( -36.60)
>DroSim_CAF1 15710 99 + 1
GCAAUCUGGAGGAGCACAUAUACAGCUGUGCCGCCAGCGCAGCUUGAAGGUGCUGCAGACAACGACACAAGCCGUGCCC---AGCGGAUCAGCUGGGGCUAC
((........(.(((((......((((((((.....)))))))).....))))).).........(((.....)))(((---(((......))))))))... ( -37.30)
>DroEre_CAF1 16929 99 + 1
GCAAUCUGGAGGAGCACACAUACAGCUCUACCGCCAGCGCAGCUUGAAGGUGCUGCAAACAACAACACAAGCGGUGCCC---AGCGGAUCAGCUGGCGGUAC
..........(((((.........)))))(((((((((.(.(((....((..((((..............))))..)).---))).)....))))))))).. ( -37.94)
>DroYak_CAF1 15333 99 + 1
GCAAUCUGGGGGAGCACACAUACAGCUCUACCGCCAGCGCAGCUUGAAGGUGCUGCAAACAACGACACAAGCGGUGCCC---AGCGGAUCGGCUGGUGGUAC
..........(((((.........)))))((((((((((((((........)))))...............((((.((.---...))))))))))))))).. ( -36.90)
>DroAna_CAF1 15797 99 + 1
GCAGCCCGGCGGAGCUCACAUUCAGCUCUACAGGCAGCGUAGCUUGAAGGUGCUGCAGACCACCACGCAGGCAGCAGCC---GGAGGUGCAGCUGCGGGAAC
(((((((...((((((.......)))))).(((((......)))))..)).)))))......((.(((((.(.(((.(.---...).))).))))))))... ( -40.30)
>DroPer_CAF1 16634 96 + 1
GCAGCCGGGAGGCGCUCACAUCCAGCUGUAUCGCCAACGUAGCCUCAAGGUGCUGCAGAC------GCAGCCGGCUCCCGUUGGUGGGACAGCAGGCGGUGG
((.(((....))))).(((..((.(((((..((((((((.((((.....(.(((((....------))))))))))..))))))))..))))).))..))). ( -47.40)
>consensus
GCAAUCUGGAGGAGCACACAUACAGCUCUACCGCCAGCGCAGCUUGAAGGUGCUGCAGACAACGACACAAGCGGUGCCC___AGCGGAUCAGCUGGCGGUAC
..........(((((.........)))))(((((((((...(((....((((((((..............))))))))....)))......))))))))).. (-25.56 = -26.84 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:32 2006