Locus 7441

Sequence ID 3L_DroMel_CAF1
Location 19,993,950 – 19,994,067
Length 117
Max. P 0.592884
window12088

overview

Window 8

Location 19,993,950 – 19,994,067
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.75
Mean single sequence MFE -32.13
Consensus MFE -19.89
Energy contribution -19.87
Covariance contribution -0.02
Combinations/Pair 1.19
Mean z-score -2.17
Structure conservation index 0.62
SVM decision value 0.12
SVM RNA-class probability 0.592884
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19993950 117 + 23771897
UAGCUGACAUAUUUCCACACAAUUGGGGAUAAAAAGAGCUCGCCCGAAAUUUAAUUCCGUGCGACUGGCGAAAGCCAAAAA--CC-AAAACGACAAGUGUCGUCUGGCAGUUGUUGCGAG
..(((....(((..(((......)))..))).....)))(((((.(((......))).).)))).((((....))))....--..-....((((((.((((....)))).)))))).... ( -33.90)
>DroSec_CAF1 83822 119 + 1
UAGCUGACAUAUUUCCGCACAAUUGGGGAUGAAAAGAGCUCGCCUGAAAUUUAAUUCCGUGCGACUGGCGAAAGCCAAAAACGCC-AAAACGACAAGUGUCGUCUGGCAGUUGUUGCGAG
..(((....(((..(((......)))..))).....)))((((..(((......)))...(((((((((....)))......(((-(..(((((....))))).)))))))))).)))). ( -37.10)
>DroSim_CAF1 42561 110 + 1
UAGCUGACAUAUUUCCGCACAAUUGGGGAUGAAAAGAGCUCGCCUGAAAUUUAAUUCCGUGCGACUGGCGAAAGCC----------AAAACGACAAGUGUCGUCUGGCAGUUGUUGCGAG
..(((....(((..(((......)))..))).....)))(((((.(((......))).).)))).((((....)))----------)...((((((.((((....)))).)))))).... ( -32.90)
>DroEre_CAF1 34856 105 + 1
UAGCUGACAUAUUUCCACACAAUUGGGGAUA-AAAGACCGCGCUCGAAAUUUAAUUCCGUGCGACUGGCGAAAGCCAAA----CC-AAAACGACAAGUC---CCUGACAGUUGU------
((((((...(((..(((......)))..)))-...((((((((..(((......))).)))))..((((....))))..----..-..........)))---.....)))))).------ ( -30.30)
>DroYak_CAF1 35666 105 + 1
CAGCUGACAUAUUUCCACACAAUUGGGGAUA-AAAGAGCUCGCUCGAAAUUUAAUUCCGUGUGACUGGCGAAAGCCAAA----CC-AAAACGACAAGUG---UCUGACAGUUGG------
((((((.........(((((....((((.((-((.(((....)))....)))).)))))))))..((((....))))..----..-.....(((....)---))...)))))).------ ( -29.90)
>DroAna_CAF1 37008 104 + 1
C-GUCGACAUAUUUCCACACAAUUGGGCCAA--AAACUGGCGCACGAAAUUUAAUUCCAUGUGACUGGCGAAAGCCAAA----CCAAAAACGACAAAUG---UCUGACAGUUGU------
.-((((((((.......((((..((.((((.--....)))).)).(((......)))..))))..((((....))))..----.............)))---)).)))......------ ( -28.70)
>consensus
UAGCUGACAUAUUUCCACACAAUUGGGGAUA_AAAGAGCUCGCCCGAAAUUUAAUUCCGUGCGACUGGCGAAAGCCAAA____CC_AAAACGACAAGUG___UCUGACAGUUGU______
((((((.((((((((((......)))))))).........(((..(((......)))...)))..((((....))))...........................)).))))))....... (-19.89 = -19.87 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:07 2006