Locus 1888

Sequence ID 2R_DroMel_CAF1
Location 7,116,860 – 7,116,955
Length 95
Max. P 0.587480
window3125

overview

Window 5

Location 7,116,860 – 7,116,955
Length 95
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 68.02
Mean single sequence MFE -21.35
Consensus MFE -8.69
Energy contribution -8.25
Covariance contribution -0.44
Combinations/Pair 1.36
Mean z-score -2.10
Structure conservation index 0.41
SVM decision value 0.11
SVM RNA-class probability 0.587480
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7116860 95 - 20766785
AAAAUUACACUU-U-----AUG------------CA----AACUUAGCCUAACUGAAUAGGCUUCGUAUUUCUCACCGUAUAAAGUGGUCAGUUAAAAAGCCAUGGCAUUUAAUCAC
.......(((((-(-----(((------------(.----.....((((((......))))))..((.......)).))))))))))....((((((..((....)).))))))... ( -20.70)
>DroSim_CAF1 145282 92 - 1
AAAUUUGCUAUUAU-----UAA------------CA----AAUCUAGCC----UGAAUAGGCUUCUUAUUUCUAACCGUAUAAAGUGGUCAGUUAAAAAGCCAUGGCAUUUAAUCAC
.....((((((...-----...------------..----..((.....----.))...(((((.(((...((.((((.......)))).)).))).)))))))))))......... ( -16.80)
>DroEre_CAF1 150056 113 - 1
AAGAUUAUUAUAACAUAUCUACAUAGUAUUAGUAUA----AGUCUAGCCCAACUGAAUGGGUUUCUCAUUUCUCACUGUACAAAGUGGUCGGCUAAAUAGCCACCCCAUUUAAUAAC
.((((..(((((..((((.......))))...))))----)))))........((((((((...........(((((......)))))..((((....))))..))))))))..... ( -22.20)
>DroYak_CAF1 154153 112 - 1
AAAGUCUUUAUAAA-----UAAGAAAUACUCGUAUAUGCGAGCCUAGUCUAACUGAAUAGGUUUCUUAUUUCUCACUGUACAAAGUGGUCAGCUAAAAAGCCACGCCAUUUGAUCAC
...(((.....(((-----(((((((..(((((....)))))((((.((.....)).))))))))))))))...........(((((((..(((....)))...))))))))))... ( -25.70)
>consensus
AAAAUUACUAUAAU_____UAA____________CA____AACCUAGCCUAACUGAAUAGGCUUCUUAUUUCUCACCGUACAAAGUGGUCAGCUAAAAAGCCACGCCAUUUAAUCAC
.............................................((((((......)))))).....................(((((..........)))))............. ( -8.69 =  -8.25 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:34 2006