Locus 3569

Sequence ID 2R_DroMel_CAF1
Location 11,890,387 – 11,890,503
Length 116
Max. P 0.506190
window5814

overview

Window 4

Location 11,890,387 – 11,890,503
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.02
Mean single sequence MFE -27.94
Consensus MFE -23.35
Energy contribution -22.97
Covariance contribution -0.39
Combinations/Pair 1.06
Mean z-score -1.65
Structure conservation index 0.84
SVM decision value -0.05
SVM RNA-class probability 0.506190
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11890387 116 - 20766785
----UUCCGCAAUCCUGACCAAUUCGUUUGGCUUUAUUUAAGUUGCAAUUUGCCAACAACUGAUAGGUAGCCAACCGCCAGUUGGCCAAGCUCCGACAUCUUGACUUUCAUUAAGAUUCU
----.....................(((((((............((.....))...((((((...(((.....)))..)))))))))))))...((.(((((((......))))))))). ( -26.20)
>DroPse_CAF1 28622 120 - 1
CCCCUCCAGCAAGUCUUACCAAUUCGGUUGGCUUUAUUUAAGUUACAAUUUGCCAACAACUGAUAGGUAGCCAACCGCCAGUUGGCCAAGCACUGACGUCUUGACUUUCAUUAAGAUUCU
........(..((((((.(((((((((((((((.......((((.............)))).......)))))))))..))))))..))).)))..)(((((((......)))))))... ( -29.16)
>DroSec_CAF1 30888 116 - 1
----UUCCGCAAUCCUGACCAAUUCGGUUGGCUUUAUUUAAGUUGCAAUUUGCCAACAACUGAUAGGUAGCCAACCGCCAGUUGGCCAAGCUCCGACAUCUUGACUUUCAUUAAGAUUCU
----...........((.(((((((((((((((.......(((((...........))))).......)))))))))..)))))).))......((.(((((((......))))))))). ( -30.64)
>DroEre_CAF1 32821 116 - 1
----UUCCGCAAUCCUGACCAAUUCGUUUGGCUUUAUUUAAGUUGCAAUUUGCCAACAACUGAUAGGUAGCCGACCGCCAGUUGGCCAAGCUCCGACGUCUUGACUUUCAUUAAGAUUCU
----.....................(((((((............((.....))...((((((...(((.....)))..)))))))))))))...((.(((((((......))))))))). ( -26.30)
>DroYak_CAF1 31326 116 - 1
----UUCCGCAAUCCUGACCAAUUCGUUUGGCUUUAUUUAAGUUGCAAUUUGCCAACAACUGAUAGGUAGCCAACCGCCAGUUGGCCAAGCUCCGACAUCUUGACUUUCAUUAAGAUUCU
----.....................(((((((............((.....))...((((((...(((.....)))..)))))))))))))...((.(((((((......))))))))). ( -26.20)
>DroPer_CAF1 29987 120 - 1
CCCCUCUAGCAAGUCUUACCAAUUCGGUUGGCUUUAUUUAAGUUACAAUUUGCCAACAACUGAUAGGUAGCCAACCGCCAGUUGGCCAAGCACUGACGUCUUGACUUUCAUUAAGAUUCU
........(..((((((.(((((((((((((((.......((((.............)))).......)))))))))..))))))..))).)))..)(((((((......)))))))... ( -29.16)
>consensus
____UUCCGCAAUCCUGACCAAUUCGGUUGGCUUUAUUUAAGUUGCAAUUUGCCAACAACUGAUAGGUAGCCAACCGCCAGUUGGCCAAGCUCCGACAUCUUGACUUUCAUUAAGAUUCU
........((.......(((.(((.(.(((((...(((........)))..)))))...).))).))).((((((.....))))))...))...((.(((((((......))))))))). (-23.35 = -22.97 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:47 2006