Locus 420

Sequence ID X_DroMel_CAF1
Location 1,213,096 – 1,213,216
Length 120
Max. P 0.779924
window646

overview

Window 6

Location 1,213,096 – 1,213,216
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 76.94
Mean single sequence MFE -37.92
Consensus MFE -24.83
Energy contribution -27.82
Covariance contribution 3.00
Combinations/Pair 1.10
Mean z-score -1.77
Structure conservation index 0.65
SVM decision value 0.55
SVM RNA-class probability 0.779924
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1213096 120 - 22224390
CUGCUGCUGCAGCUGGAUCUUACGCUUCAGACUCUUUACCAGGGCGUUCUGCUCCAGCUGCUGCUUACUCCUCUUGGGGGCUACCUGCUCAUCCCCAUCCGCAUCGCCGUUUGCAGCGCC
..(((((.(((((((((.(..((((((..(........)..))))))...).)))))))))(((.....((....))((((.....))))..........))).........)))))... ( -42.10)
>DroVir_CAF1 3823 96 - 1
UUGC----GCUGCUGAAUCUUCAUCUUGAGACUCUUAACCAGCGCGUUCUGCUCCAGCUGCUGCUUGGAUCGCUUCUUUGCCGGCUGCUCAACCUCAACC--------------------
..((----((((..((.((((......)))).)).....)))))).........((((((..((..(((.....)))..)))))))).............-------------------- ( -25.30)
>DroSim_CAF1 288 120 - 1
CUGCUGCUGCAUCUGGAUCUUACGCUUCAGACUCUUGACCAGGGCGUUCUGCUCCAGCUGCUGCUUACUCCGCUUGGGGGCUACCUGUUCAUCCCCAUCCGCAUCGCCGUUGGCAGCGCC
..(((((((((.(((((.(..(((((((((....))))....)))))...).))))).)))..........((.((((((...........))))))...)).........))))))... ( -38.60)
>DroYak_CAF1 287 120 - 1
CUGCUGUUGCAGCUGGAUCUUGCGCUUCAGGCUCUUGACCAGGGCGUUCUGCUCCAGCUGCUGUUUACUCCGCUUGGGGGCUACCUGCUCAUCCCCAUCCGCAUCUCCGUUGGCAGCGCC
..(((((((((((((((.(..((((((..(((....).)).))))))...).)))))))))..........((.(((((((.....))....)))))...)).........))))))... ( -45.70)
>consensus
CUGCUGCUGCAGCUGGAUCUUACGCUUCAGACUCUUGACCAGGGCGUUCUGCUCCAGCUGCUGCUUACUCCGCUUGGGGGCUACCUGCUCAUCCCCAUCCGCAUCGCCGUUGGCAGCGCC
..(((((.(((((((((.(..((((((..(........)..))))))...).))))))))).............(((((((.....))....)))))...............)))))... (-24.83 = -27.82 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:10 2006