Locus 4684

Sequence ID X_DroMel_CAF1
Location 12,209,179 – 12,209,287
Length 108
Max. P 0.683664
window7689

overview

Window 9

Location 12,209,179 – 12,209,287
Length 108
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 83.70
Mean single sequence MFE -24.99
Consensus MFE -18.65
Energy contribution -18.98
Covariance contribution 0.34
Combinations/Pair 1.17
Mean z-score -2.04
Structure conservation index 0.75
SVM decision value 0.31
SVM RNA-class probability 0.683664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12209179 108 + 22224390
AGAAGUAAGC-----CCCAACCCAUCCGGCAGCUGCAUUACAAGUCUUAAAUAAAUUUUUUAAGGCCAGCCGGC--CACCGCACAAAAAUCCAUCUAAGUGCAGCAUGUCUGGCU
..........-----..........((((((((((((((....((((((((.......))))))))..((.(..--..).))...............)))))))).)).)))).. ( -26.30)
>DroSec_CAF1 36013 107 + 1
AGAAGUAAGC-----CCCAACCCAUCCAGUAGCUGCAUUACAAGUCUUAAAUCAAUU-UUUAAGGCCAGCCGGC--CACCGCACAAAAAUCCAUCUAAGUGCAGCAUGUCUGGCU
..........-----..........((((((((((((((....((((((((......-))))))))..((.(..--..).))...............)))))))).)).)))).. ( -25.50)
>DroSim_CAF1 37411 107 + 1
AGAAGUAAGC-----CCCAACCCAUCCAGUAGCUGCAUUACAAGUCUUAAAUCAAUU-UUUAAGGCCAGCCGGC--CACCGCACAAAAAUCCAUCUAAGUGCAGCAUGUCUGGCU
..........-----..........((((((((((((((....((((((((......-))))))))..((.(..--..).))...............)))))))).)).)))).. ( -25.50)
>DroEre_CAF1 33676 112 + 1
AGCUGUAAGCUCAACCUCAACCCAUCCAGCGGCUGCGUUACAAGUCUUAAAUCAAUU-UUUAAGGCCAGCCGGC--CACCGCACAAAAAUCCAUCUAAGUGCAGCAUGUCUGGCU
(((.....)))..........(((..(((((((((.(((....((((((((......-)))))))).)))))))--)...((((..............)))).)).))..))).. ( -28.74)
>DroYak_CAF1 20361 94 + 1
------------------AAACCAUCCAGCGGCUGCAUUACAAGUCUUAAAUCAAUU-UUUAAGCCCAGCCGGC--CAACGCACAAAAAUCCAUCUAAGUGCAGCAUGUCUGGCU
------------------.......((((((((((((((.......(((((......-)))))(((.....)))--.....................)))))))).)).)))).. ( -21.40)
>DroPer_CAF1 1072 93 + 1
---------------------GCCUGCUGUCCAUGCAUUACAAGUCUUAAAUCAAUU-UUUAAGGCCAUCUUGCGGCACCGCACAAAAAUCCAUCUAAGUGCACCAUGUCUGGCU
---------------------(((.((......((((((....((((((((......-)))))))).....((((....))))..............))))))....))..))). ( -22.50)
>consensus
AGAAGUAAGC_____CCCAACCCAUCCAGCAGCUGCAUUACAAGUCUUAAAUCAAUU_UUUAAGGCCAGCCGGC__CACCGCACAAAAAUCCAUCUAAGUGCAGCAUGUCUGGCU
.........................((((((((((((((....((((((((.......))))))))......((......))...............)))))))).)).)))).. (-18.65 = -18.98 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:59 2006