Locus 5192

Sequence ID 2R_DroMel_CAF1
Location 16,868,366 – 16,868,456
Length 90
Max. P 0.791495
window8301

overview

Window 1

Location 16,868,366 – 16,868,456
Length 90
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 71.27
Mean single sequence MFE -35.45
Consensus MFE -12.27
Energy contribution -12.88
Covariance contribution 0.62
Combinations/Pair 1.42
Mean z-score -2.08
Structure conservation index 0.35
SVM decision value 0.59
SVM RNA-class probability 0.791495
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16868366 90 + 20766785
CAAGCU---GCUAAGUAGCAGUGGAUGAUGGUGAGUGGUGGGCAUGGAUGU------------------UGUUGUUUUCGAUCUUGCCCAGCGGCAAUCGA---CGGCAGCAAC-
((.((.---.(((..((.((........)).))..)))..).).))...((------------------((((((..(((((..((((....)))))))))---..))))))))- ( -29.50)
>DroSec_CAF1 18822 93 + 1
CGAGCUGCUGCUAAGUAGCAGUGGAUGAUGGUGAGUGGUGGGCAUGGGUGU------------------UGUUGUUUUCGAUCUUGCCCAGCGGCAGUCGA---CGGCAGCAAC-
...((((((((...))))))))...(.(((.(.(....).).))).)..((------------------((((((..(((((..((((....)))))))))---..))))))))- ( -31.80)
>DroSim_CAF1 18946 93 + 1
CGAGCUGCUGCUAAGUAGCAGUGGAUGAUGGUGAGUGGUGGGCAUGGAUGU------------------UGUUGUUUUCGAUCUUGCCCAGCGGCAGUCGA---CGGCAGCAAC-
...((((((((...))))))))...(.(((.(.(....).).))).)..((------------------((((((..(((((..((((....)))))))))---..))))))))- ( -31.80)
>DroEre_CAF1 19086 105 + 1
CGAGCU---GCUAAGUAGCAGUGGAUGAUGGAGAGU---GGGCAUGGAUGUGCUUGUUGUUGCUGUUGCUGUUGUUUUCGAUCUUGCCCAGCGGCAGUCAA---CGGCAGCAAC-
...(((---(((....))))))..............---((((((....))))))(((((((((((((((((((((.............)))))))).)))---))))))))))- ( -39.72)
>DroWil_CAF1 24302 89 + 1
GAAGCU---GUUAAGUAAAGUUGUAUAGUU-UCUGUUG------UUGGUGU------UGU---------UGCUGCUGCUGCUGUAUUCCAGCGGCAGCUAAAGACAUCAGCAAC-
((((((---(((((......))).))))))-)).((((------(((((((------(..---------.((((((((((........))))))))))....))))))))))))- ( -40.80)
>DroYak_CAF1 19232 106 + 1
CGAGCU---GCUAAGUAGCAGUGGAUGAUGGAGAGU---GGGCAUGGAUGCUGUUGUUGCUGCUCUUGUUGUUGCUGCCAAUCUUGCCCAGCGGCAGUCUA---CGGCAGCAACA
...(((---(((....))))))........(((((.---.(.((..(((...)))..)))..)))))..((((((((((....(((((....)))))....---.)))))))))) ( -39.10)
>consensus
CGAGCU___GCUAAGUAGCAGUGGAUGAUGGUGAGUGG_GGGCAUGGAUGU__________________UGUUGUUUUCGAUCUUGCCCAGCGGCAGUCGA___CGGCAGCAAC_
((.(((...(((......((.....))......)))....))).)).......................(((((((.(((((..((((....)))))))))....)))))))... (-12.27 = -12.88 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:51 2006