Locus 1208

Sequence ID 3R_DroMel_CAF1
Location 3,634,956 – 3,635,054
Length 98
Max. P 0.617157
window1975

overview

Window 5

Location 3,634,956 – 3,635,054
Length 98
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 87.21
Mean single sequence MFE -19.36
Consensus MFE -16.96
Energy contribution -16.72
Covariance contribution -0.24
Combinations/Pair 1.19
Mean z-score -1.42
Structure conservation index 0.88
SVM decision value 0.17
SVM RNA-class probability 0.617157
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3634956 98 - 27905053
GGGAAAAGUGAUAUUUAUACAUCUGUGGUCUGAUUUUUGCACAGGCCACAGUAACAAACUCACACACAU----ACACAAAGACACCACUAACACAGACGGAC
.......((((...........((((((((((.........))))))))))........))))......----............................. ( -18.61)
>DroSec_CAF1 2642 86 - 1
GGGAAAAGUGAUAUUUAUACAUCUGUGGUCUGAUUUUUGCACAGGCCACAGUAACAAACCCACACA----------------CACCACUAACAAAGACGGAC
(((....(((.......)))..((((((((((.........)))))))))).......))).....----------------.................... ( -19.70)
>DroSim_CAF1 2644 98 - 1
GGGAAAAGUGAUAUUUAUACAUCUGUGGUCUGAUUUUUGCACAGGCCACAGUAACAAGCCCACACACAC----ACACAAACACACCACUAACAAAGACGGAC
(((....(((.......)))..((((((((((.........)))))))))).......)))........----............................. ( -19.40)
>DroEre_CAF1 2448 94 - 1
GGGAACAGUGAUAUUUUUACAUCUGUGGUCUGAUUUUUGCACAGGCCGCAGUAACAAACACACAC--------ACACAGACACACCUCUAACACAGACGGAC
.......(((............((((((((((.........))))))))))...........)))--------...........(((((.....))).)).. ( -19.70)
>DroYak_CAF1 2523 102 - 1
GGGAAAAGUGAUAUUUUUACAUCUGUGGUCUGAUUUUUGCACAGGUCACAGUAACAAACCCACACAUACAAGCACACAAACACACCACUAACACAGACGGAU
(((....((((.....))))..(((((..(((.........)))..))))).......)))......................................... ( -19.40)
>consensus
GGGAAAAGUGAUAUUUAUACAUCUGUGGUCUGAUUUUUGCACAGGCCACAGUAACAAACCCACACA_A_____ACACAAACACACCACUAACACAGACGGAC
(((....(((.......)))..((((((((((.........)))))))))).......)))......................................... (-16.96 = -16.72 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:38 2006