Locus 1790

Sequence ID X_DroMel_CAF1
Location 4,940,351 – 4,940,461
Length 110
Max. P 0.938142
window2925

overview

Window 5

Location 4,940,351 – 4,940,461
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 89.60
Mean single sequence MFE -29.43
Consensus MFE -24.76
Energy contribution -25.32
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.14
Structure conservation index 0.84
SVM decision value 1.27
SVM RNA-class probability 0.938142
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4940351 110 + 22224390
AAGAACUCACAAUGUACGCAUAUUUAAGAAAUGAAUAUGCAAGCUGUUUCUAUGUGGAGAUUUAUAAGCGCAAAUCCUCGCUUAUUUCCCACUGCGGCCGACGCACUUAG
............(((..(((((((((.....)))))))))..(((((......((((.((...(((((((........))))))).)))))).)))))....)))..... ( -29.00)
>DroSec_CAF1 12505 108 + 1
AAGAACUCACAAUCUACGCAUAUUUAAGAAAUGAAUAUGCAAGCUGUG--UGUGUGGAGAUUUCUGAGCGCAAAUCCCCGCUUAUUUCCCACUGCGGCAGACGCAUUUAG
............(((..(((((((((.....)))))))))..((((((--.(((.((((((....(((((........)))))))))))))))))))))))......... ( -31.10)
>DroEre_CAF1 14750 108 + 1
AAGAAUCCACAAUCUACGCAUAUUUAAGAAAUGAAUAUGCACGCUGUG--UGUGUGGAGAUUUAUAAGAGCAAAUCCCCGCUUAUUUCCCACUGCGACCGACGCAUUUAG
.......((((......(((((((((.....)))))))))....))))--.(((.((((((......((((........)))))))))))))((((.....))))..... ( -24.60)
>DroYak_CAF1 14164 106 + 1
AAGCAUGUAGAAUCUACGCAUAUUUAAGAAACGAAUAUGCAAGCUGUG----UGUGGAGAUUUAUAAGCGCAAAUCCCCGCUUAUUUCCCACUGCGGCCGUCGCAUUUAG
..((..((((...))))((((((((.......))))))))..((((((----.((((.((...(((((((........))))))).))))))))))))....))...... ( -33.00)
>consensus
AAGAACUCACAAUCUACGCAUAUUUAAGAAAUGAAUAUGCAAGCUGUG__UGUGUGGAGAUUUAUAAGCGCAAAUCCCCGCUUAUUUCCCACUGCGGCCGACGCAUUUAG
.................(((((((((.....))))))))).............((((.((...(((((((........))))))).))))))((((.....))))..... (-24.76 = -25.32 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:57 2006