Locus 8936

Sequence ID 3R_DroMel_CAF1
Location 23,977,987 – 23,978,092
Length 105
Max. P 0.717104
window14326

overview

Window 6

Location 23,977,987 – 23,978,092
Length 105
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 93.61
Mean single sequence MFE -19.18
Consensus MFE -15.15
Energy contribution -15.27
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.73
Structure conservation index 0.79
SVM decision value 0.39
SVM RNA-class probability 0.717104
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23977987 105 - 27905053
AAAACGCAAAAUAAGACAAAAAGCACGAGUA--AGAG--AGAAAUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAAGCUUGUCAAUGUGUGUGUAAGUACACA
...(((((......((((...((((((.(((--....--.....))))))..((..(((((....))))).)).........)))))))..)))))((((....)))). ( -19.30)
>DroSim_CAF1 175546 105 - 1
AAAACGCAAAGUAAGACAAAAAGCACGAGUA--AGAG--AGAAAUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAAGCUUGUCAGUGUGUGUGUAAGUACACA
...(((((......((((...((((((.(((--....--.....))))))..((..(((((....))))).)).........)))))))..)))))((((....)))). ( -20.40)
>DroEre_CAF1 188263 105 - 1
AAAACGCAAAGUAAGACAAAAAGCACGAGUA--AGAG--AGAAAUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAUGCUUGUCAAUGUGUGUGUAAGUACACA
...(((((......((((...((((((.(((--....--.....))))))..((..(((((....))))).)).........)))))))..)))))((((....)))). ( -19.10)
>DroYak_CAF1 188848 107 - 1
AAAACGCAAAGUAAGACAAAAAGCACGGGUA--AGAGAGAGAAAUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAAGCUUGUCAAUGUGUGUGUAAGUACACA
...(((((......((((...(((((((...--.............))))..((..(((((....))))).)).........)))))))..)))))((((....)))). ( -21.09)
>DroAna_CAF1 188178 105 - 1
AAAAAGCAAAGUAAGACAAAAAGCACAAAUA--ACAG--AGAAGUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAAGCUUGUCAAUGUGUGUGUAAGUACAAA
..........(((..(((....(((((....--...(--(.((((..((....)).(((((....)))))............)))).))..))))).)))...)))... ( -18.10)
>DroPer_CAF1 195030 107 - 1
AAAACGCAGAGUAAGACAAAAAGCACAAAUACCAGUG--AGAAAUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAAGCUUGCCAGUGUGUGAGUAAGUACAAA
..........(((..((.....((((...........--........((....)).(((((....))))).((((((.....))))))..))))....))...)))... ( -17.10)
>consensus
AAAACGCAAAGUAAGACAAAAAGCACGAGUA__AGAG__AGAAAUACCGUAAGCGAAAUGAGAAAUCAUUAGUAAGUAAAAAGCUUGUCAAUGUGUGUGUAAGUACACA
..........(((..(((....(((((....................((....)).(((((....))))).((((((.....))))).)..))))).)))...)))... (-15.15 = -15.27 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:03 2006