Locus 1526

Sequence ID 3R_DroMel_CAF1
Location 4,357,706 – 4,357,814
Length 108
Max. P 0.575726
window2535

overview

Window 5

Location 4,357,706 – 4,357,814
Length 108
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.48
Mean single sequence MFE -20.72
Consensus MFE -13.19
Energy contribution -13.03
Covariance contribution -0.16
Combinations/Pair 1.22
Mean z-score -1.35
Structure conservation index 0.64
SVM decision value 0.08
SVM RNA-class probability 0.575726
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4357706 108 + 27905053
CUACCUACCUACGU--------A-CCCGAUCCGUAUCUGAAUCAAUUAAUUUACCCGAUACGGAUGA-CC-CUGCAAUAUUAAAGUACCACCGCAGUGUGCCUUCAAUCUGAGCCAGAU
............((--------(-(...((((((((((((((......)))))...)))))))))..-..-((((.................)))).)))).....(((((...))))) ( -19.93)
>DroSec_CAF1 44976 108 + 1
CAACCUACCUACCU--------A-CCCGAUCCGUAUCUGAAUCAAUUAAUUUACCCGAUACGGAUGA-CC-CUGCAAUAUUAAACUACCACCGCAGUGUGCCUUCAAUCUGAGCCAGAU
..............--------.-....((((((((((((((......)))))...))))))))).(-(.-((((.................)))).)).......(((((...))))) ( -18.33)
>DroSim_CAF1 35309 108 + 1
CAACCUACCUACCU--------A-CCCGAUCCGUAUCUGAAUCAAUUAAUUUACCCGAUACGGAUGA-CC-CUGCAAUAUUAAACUACCACCGCAGUGUGCCUUCAAUCUGAGCCAGAU
..............--------.-....((((((((((((((......)))))...))))))))).(-(.-((((.................)))).)).......(((((...))))) ( -18.33)
>DroEre_CAF1 45035 109 + 1
CAACGCACCUACCC--------A-CCCGAUCCGUAUCUGAAUCAAUUAAUUUGCCCGAUACGGAUGAACC-CUGCAAUAUUAAAGUACCACCGCAGUGGGCCCACAAUCUGAGCCAGAC
...........(((--------(-(...(((((((((.(...(((.....))).).))))))))).....-.(((.................)))))))).......((((...)))). ( -21.93)
>DroYak_CAF1 37033 117 + 1
UAACCAACCUACCUACCUACCUA-UCAGAUCCGUAUCUGAAUCAAUUAAUUUACCCGAUACGGAUGAACC-CUGCAAUAUUUAACUACCACCGCAGUGGGCCUACAAUCUGAGCCAGAC
.......................-((((((((((((((((((......)))))...)))))))).(..((-((((.................)))).))..).....)))))....... ( -23.13)
>DroPer_CAF1 34249 89 + 1
----UUGGCUGCCU--------GCCCUGAUCUGUAUCGGAAUCAAUUAAUUCGUUGGAUACGGAUGAGCCCCGGAAAAAUUAGACUCC------UGUGCGGCUUUAA------------
----..((((((..--------...((.(((((((((.((((......))))....))))))))).))....(((..........)))------...))))))....------------ ( -22.70)
>consensus
CAACCUACCUACCU________A_CCCGAUCCGUAUCUGAAUCAAUUAAUUUACCCGAUACGGAUGA_CC_CUGCAAUAUUAAACUACCACCGCAGUGUGCCUUCAAUCUGAGCCAGAU
............................((((((((((((((......)))))...)))))))))......((((.................))))....................... (-13.19 = -13.03 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:50 2006