Locus 8400

Sequence ID 3R_DroMel_CAF1
Location 22,366,549 – 22,366,649
Length 100
Max. P 0.823827
window13530

overview

Window 0

Location 22,366,549 – 22,366,649
Length 100
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 93.48
Mean single sequence MFE -26.02
Consensus MFE -22.71
Energy contribution -22.75
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.40
Structure conservation index 0.87
SVM decision value 0.69
SVM RNA-class probability 0.823827
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22366549 100 + 27905053
CGGCUUUUAGUGAGUUUGGCUAAGUGAAUGCUACU----CACUACUCGCCGCACAACUUGGCUCAACACCUGCUGGCCAUCCCCAGAAAAUGAAAAAGAUGUAU
((((...((((((((..(((.........))))))----)))))...)))).(((.(((...(((.......((((......))))....)))..))).))).. ( -26.20)
>DroSec_CAF1 7732 104 + 1
CGGCUUUUAGUGAGUUUGGCUAAGUGAAUGCUACUCACUCACUACUUUCCGCACAACUUGGCUCAACACCUGCUGGCCAUCCCCAGAAAAUGAAAAAGAAGUAC
.((((..(((.(.(((.((((((((...(((...................)))..)))))))).))).))))..)))).......................... ( -23.71)
>DroSim_CAF1 3201 104 + 1
CGGCUUUUAGUGAGUUUGGCUAAGUGAAUGCUACUCACUCACUACUUGCCGCACAACUUGGCUCAACACCUGCUGGCCAUCCCCAGAAAAUGAAAAAGAAGUAC
((((...((((((((.((((.........))))...))))))))...)))).((..(((...(((.......((((......))))....)))..)))..)).. ( -26.10)
>DroEre_CAF1 3300 100 + 1
CGGCUUUUAGUGAGUUUGGCUAAGUGAAUGCUACU----CACUACUUGCCGCACAACUUGGCUCAACACCUGCUGGCCAUCCCCAGAAAAUAUACAAGAAGUAC
((((...((((((((..(((.........))))))----)))))...)))).((..((((............((((......))))........))))..)).. ( -26.25)
>DroYak_CAF1 3343 100 + 1
CGGCUUUUAGUGAGUUUGGCUAAGUGAAUGCUACU----CACUACUUGCCGCUCAACUUGGUUCAACACCUGCUGGCCAUCCCCAGAAAAUGGAAAAAAAGUAC
((((...((((((((..(((.........))))))----)))))...))))....((((..(((........((((......))))......)))...)))).. ( -27.84)
>consensus
CGGCUUUUAGUGAGUUUGGCUAAGUGAAUGCUACU____CACUACUUGCCGCACAACUUGGCUCAACACCUGCUGGCCAUCCCCAGAAAAUGAAAAAGAAGUAC
.((((..(((.(.(((.((((((((...(((...................)))..)))))))).))).))))..)))).......................... (-22.71 = -22.75 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:36 2006