Locus 1718

Sequence ID 2L_DroMel_CAF1
Location 4,723,008 – 4,723,104
Length 96
Max. P 0.729036
window2754

overview

Window 4

Location 4,723,008 – 4,723,104
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 80.43
Mean single sequence MFE -29.97
Consensus MFE -20.41
Energy contribution -20.25
Covariance contribution -0.16
Combinations/Pair 1.17
Mean z-score -1.60
Structure conservation index 0.68
SVM decision value 0.42
SVM RNA-class probability 0.729036
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4723008 96 + 22407834
GCCAAGUGGCAAAAUGGCAGCAUCACGAGCACCCUGUCAUCGUGUUUAUUUUAAACGCACUGUUUGACAGGG---GAAAACCCCGG-CUUAUCGUUGGGU----
((((..(....)..)))).((.......)).((((((((..(((((((...)))))))......))))))))---......(((((-(.....)))))).---- ( -31.40)
>DroSec_CAF1 151355 96 + 1
GCCAAGUGGCAAAAUGGCAGCAUCACGAGCACCCUGUCAUCGUGUUUAUUUUAAACGCACUGUUUGACAGGG---GAAAACCCCGG-CUUAUCGUUGGGU----
((((..(....)..)))).((.......)).((((((((..(((((((...)))))))......))))))))---......(((((-(.....)))))).---- ( -31.40)
>DroSim_CAF1 147407 96 + 1
GCCAAGUGGCAAAAUGGCAGCAUCACGAGCACCCUGUCAUCGUGUUUAUUUUAAACGCACUGUUUGACAGGG---GAAAACCCCGG-CUUAUCGUUGGGU----
((((..(....)..)))).((.......)).((((((((..(((((((...)))))))......))))))))---......(((((-(.....)))))).---- ( -31.40)
>DroEre_CAF1 159138 95 + 1
GCCAAGUGGCAGAAUGGCAGCAUCACGAGGACCCUGUCAUCGUGUUUAUUUUAAACGCACUGUUUGGCAGGG--AGAA--CCCCGG-CUUAUCUUUGGGU----
((((((..(..((.((((((..((.....))..))))))))(((((((...))))))).)..)))))).(((--....--.))).(-((((....)))))---- ( -30.80)
>DroYak_CAF1 157717 97 + 1
GCCAAGUGGCAGAAUGGCAGCAUCACGAGGACCCUGUCAUCGUGUUUAUUUUAAACGCACUGUUUGGCAGGG--AGAAAGACCCGG-CUUAUCUUUGGGU----
((((((..(..((.((((((..((.....))..))))))))(((((((...))))))).)..)))))).(((--.......))).(-((((....)))))---- ( -30.10)
>DroPer_CAF1 174503 88 + 1
GU---------------CAGCUUCCUAAGAAGCCU-UCUUCGUGUUUAUUUUAAACGCACUUUCAGGCAGCUUCAGAUAAGCUCAGUACUCGCGGAGAGUACAC
((---------------(.(((((....)))))..-.....(((((((...))))))).......)))(((((.....)))))..((((((.....)))))).. ( -24.70)
>consensus
GCCAAGUGGCAAAAUGGCAGCAUCACGAGCACCCUGUCAUCGUGUUUAUUUUAAACGCACUGUUUGACAGGG___GAAAACCCCGG_CUUAUCGUUGGGU____
((((..........)))).............((((((((..(((((((...)))))))......)))))))).........(((((........)))))..... (-20.41 = -20.25 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:19 2006