Locus 6219

Sequence ID 3R_DroMel_CAF1
Location 16,249,497 – 16,249,594
Length 97
Max. P 0.754040
window10142

overview

Window 2

Location 16,249,497 – 16,249,594
Length 97
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 76.35
Mean single sequence MFE -17.29
Consensus MFE -12.32
Energy contribution -12.35
Covariance contribution 0.03
Combinations/Pair 1.05
Mean z-score -1.15
Structure conservation index 0.71
SVM decision value 0.48
SVM RNA-class probability 0.754040
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16249497 97 - 27905053
GACUUUCUGGCUCAACCCAAAAACACA----AAACAAAAAAAA----AAAAACGGAAGGCAAAUUAAGUU-UUUGCUCUAAUUUAGUCUGACGCGCGUU-GGCCAAA
.......((((.((((.(.........----............----.....((..(((((((((((((.-...))).)))))).))))..)).).)))-))))).. ( -16.53)
>DroPse_CAF1 61609 75 - 1
GACUUUCUGGCUCAAUCCGAAA-A------------------------------AAAGGCAAAUUAAGUUUUUUGCUCUAAUUUAGUCUGACGCGCGUU-GGCCAAA
.......((((.((((.((...-.------------------------------..(((((((((((((.....))).)))))).))))....)).)))-))))).. ( -18.80)
>DroSim_CAF1 73972 101 - 1
GACUUUCUGGCUCAACCCAAAAACACA----AAACAAAAAAAAAAAAAAAAAGGGAAGGCAAAUUAAGUU-UUUGCUCUAAUUUAGUCUGACGCGCGUU-GGCCAAA
.......((((.((((((.........----.....................))).(((((((((((((.-...))).)))))).))))........))-))))).. ( -16.21)
>DroEre_CAF1 51295 90 - 1
GACUUUCUGGCUCAACCCAAAAACACA----AGCCAAAAAAA-----------GGGAGGCAAAUUAAGUU-UUUGCUCUAAUUUAGUCUGACGCGCGUU-GGCAAAA
.......(((......)))........----.(((((.....-----------(..(((((((((((((.-...))).)))))).))))..).....))-))).... ( -18.60)
>DroAna_CAF1 62760 99 - 1
GACUUUUUGGCCCAA-----AUAUCCUCCUCCGACAAAAAAAA---AAACAGGCAAAGGCAAAUUAAGUUUUUUGCUCUAAUUUAGUCUGACGCGCGUUUGGCCAAA
.....(((((((.((-----((....((....)).........---...((((((((((((((........))))))....))).)))))......))))))))))) ( -19.00)
>DroPer_CAF1 66929 76 - 1
GACUUUCUGGCUCAAUCCAAAAAA------------------------------AAAGGCAAAUUAAGUUUUUUGCUCUAAUUUAGUCUGACGCGCGUU-GGCCAAA
.......((((.((((........------------------------------..(((((((((((((.....))).)))))).)))).......)))-))))).. ( -14.63)
>consensus
GACUUUCUGGCUCAACCCAAAAACACA____A_ACAAAAAAA___________GAAAGGCAAAUUAAGUU_UUUGCUCUAAUUUAGUCUGACGCGCGUU_GGCCAAA
.......(((((............................................(((((((((((((.....))).)))))).))))(((....))).))))).. (-12.32 = -12.35 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:52 2006