Locus 3595

Sequence ID 2R_DroMel_CAF1
Location 11,972,663 – 11,972,753
Length 90
Max. P 0.899957
window5859

overview

Window 9

Location 11,972,663 – 11,972,753
Length 90
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.32
Mean single sequence MFE -27.82
Consensus MFE -20.68
Energy contribution -20.35
Covariance contribution -0.33
Combinations/Pair 1.23
Mean z-score -1.62
Structure conservation index 0.74
SVM decision value 1.01
SVM RNA-class probability 0.899957
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11972663 90 - 20766785
GACCC----------AGCUCACGG--------------CCCCAACUUCCAACUCGCAGCUGCCUUUGUUGCGGCAUAAAGGCGUUAUUAAUAUGCUUAUGUGCUGCGGAUC-GUU
.....----------.....(((.--------------.((((..........((((((.......))))))(((((.((((((.......)))))).))))))).))..)-)). ( -26.50)
>DroSec_CAF1 23831 90 - 1
GACCC----------AGCUCCCAG--------------CCCCAACUUCCAACUCGCAGCUGCCUUUGUUGCGGCAUAAAGGCGUUAUUAAUAUGCUUAUAUGCUGCGGAUC-GUU
(((((----------((((.(.((--------------.............)).).)))))........((((((((.((((((.......)))))).)))))))))).))-... ( -25.52)
>DroSim_CAF1 27430 97 - 1
GACCC----------AGCUCCCAGCU-------CCCAUCCCCAACUUCCAACUCGCAGCUGCCUUUGUUGCGGCAUAAAGGCGUUAUUAAUAUGCUUAUGUGCUGCGGAUC-GUU
.....----------.(.(((((((.-------....................((((((.......))))))(((((..(((((.......)))))))))))))).))).)-... ( -25.70)
>DroEre_CAF1 24023 114 - 1
GACCCAGCAGCUCCCGGCUCCCAGCUCCCAGCUCCCAGCCCCAACUUCCAACUCGCAGCUGCCUUUGUUGCGGCAUAAAGGCGUUAUUAAUAUGCUUAUGUGCUGCGGAUC-GUU
((.((.((((((...((((...(((.....)))...))))................)))))).......((((((((.((((((.......)))))).)))))))))).))-... ( -36.51)
>DroYak_CAF1 24365 96 - 1
GACCC----------CGCUCCCAACUC-CAACUUCCAGC-------UCCAACUCGCAGCUGCCUUUGUUGCGGCAUAAAGGCGUUAUUAAUAUGCUUAUGUGCUGCGGAUC-GUU
.....----------((.(((......-.(((...((((-------(.(.....).))))).....)))((((((((.((((((.......)))))).))))))))))).)-).. ( -28.50)
>DroAna_CAF1 24777 86 - 1
GACCC----------AACUCUCCG--------------CUCCG---UACCGCUCGC--UCGGCUUUGUUGUGGCAUGAAGGCGUUAUUAAUAUGCUUAUGUGCCACGGAUCUGCU
((.((----------(((...(((--------------...((---.......)).--.)))....)))((((((((.((((((.......)))))).)))))))))).)).... ( -24.20)
>consensus
GACCC__________AGCUCCCAG______________CCCCAACUUCCAACUCGCAGCUGCCUUUGUUGCGGCAUAAAGGCGUUAUUAAUAUGCUUAUGUGCUGCGGAUC_GUU
..............................................((((((..((....))....)))((((((((.((((((.......)))))).)))))))))))...... (-20.68 = -20.35 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:30 2006