Locus 1818

Sequence ID X_DroMel_CAF1
Location 5,040,195 – 5,040,289
Length 94
Max. P 0.993222
window2961

overview

Window 1

Location 5,040,195 – 5,040,289
Length 94
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 71.79
Mean single sequence MFE -21.08
Consensus MFE -11.73
Energy contribution -11.97
Covariance contribution 0.25
Combinations/Pair 1.15
Mean z-score -2.35
Structure conservation index 0.56
SVM decision value 2.38
SVM RNA-class probability 0.993222
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5040195 94 + 22224390
---UUUUUUCCUGCCAAGGAUAUUCU---CUUUUGGCUUUUCAUUAAA-AAGUCUACGCCUAUCGGAGCGUGUAGAUCUUUUAACUACGACUAGUCGCUCG
---.........(((((((.......---.)))))))......(((((-(..(((((((((.....)).)))))))..))))))...(((....))).... ( -22.00)
>DroPse_CAF1 136205 83 + 1
---------------UAGGAUAUUCUCCUCCUUUGGCUUUUCAUUAAA-AAGUCUACGCCUAUCAGACCGUGUAGAUCUUUUAACUACGAAUAGUCCU--A
---------------((((((((((.((......)).......(((((-(..(((((((..........)))))))..))))))....)))).)))))--) ( -20.20)
>DroSec_CAF1 105721 97 + 1
UUUUUUUUUCCUGCCAAGGAUAUUCU---CCUUUGGCUUUUCAUUAAA-AAGUCUACGCCUAUCGGAGCGUGUAGAUCUUUUAACUACGACUAGUCGCUCG
............((((((((.....)---)).)))))......(((((-(..(((((((((.....)).)))))))..))))))...(((....))).... ( -24.70)
>DroAna_CAF1 106577 81 + 1
UUUUUUUUU--------------------CGGGUGGCUUUUCAUUAAAGAAACCUGUGCCUAUCGGACCGUGCAGAUCUCUUAACUAAGAAUAGUCACUGU
.........--------------------..(((((((.(((.(((((((...(((..(..........)..)))...))))...)))))).))))))).. ( -17.40)
>consensus
___UUUUUU______AAGGAUAUUCU___CCUUUGGCUUUUCAUUAAA_AAGUCUACGCCUAUCGGACCGUGUAGAUCUUUUAACUACGAAUAGUCGCUCG
..................................((((.(((.(((((...((((((((..........))))))))..)))))....))).))))..... (-11.73 = -11.97 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:30 2006