Locus 3396

Sequence ID X_DroMel_CAF1
Location 9,084,548 – 9,084,654
Length 106
Max. P 0.873082
window5559

overview

Window 9

Location 9,084,548 – 9,084,654
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.12
Mean single sequence MFE -43.30
Consensus MFE -22.16
Energy contribution -22.48
Covariance contribution 0.31
Combinations/Pair 1.48
Mean z-score -1.99
Structure conservation index 0.51
SVM decision value 0.88
SVM RNA-class probability 0.873082
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9084548 106 + 22224390
UAGAUCC---UUCAAUAAUUGCCUCGGGCAGGCCAGGCAAAAGUUUAUAGUGCGGA--AGCUGC-------UGCUGAUCGGAGGGAAAUGAGCCA--GCUGUAGCGGACUCCGCACUGUC
.......---........((((((.((.....))))))))......((((((((((--.(((((-------.((((.(((........)))..))--)).)))))....)))))))))). ( -40.90)
>DroSec_CAF1 11698 106 + 1
UAGAUCC---UUCAAUGAUUGCCUCGGGCAGGCCAGGCAAAAGUUUAUAGUGCGGA--AGCUGC-------UGUUGAUCGGAGGGAAAAGAGCCA--GCGGCAGCGGAUUCCGCAUUAUC
.......---........((((((.((.....))))))))......((((((((((--((((((-------(((((.((..........))..))--))))))))...))))))))))). ( -41.20)
>DroEre_CAF1 15067 106 + 1
UGGAUCC---UUCAAUGAUUGCCUCGGGCAGCCCGGGCAGAAGUUUAUAGUGCGGA--AGCUGC-------UGCUGAUCCGAGGGAAAUGAACCA--UCGGCAGCGGAUUCCACACUGUC
......(---(((......((((.((((...))))))))))))...((((((.(((--(.((((-------(((((((....((........)))--)))))))))).)))).)))))). ( -45.00)
>DroYak_CAF1 11297 106 + 1
UGGAUCC---UUCAAUGAUAGCCUCGGGCAGCCCAGGCAGAAGUUUGUAGUGCGGA--AGCUGC-------UGCUGAUCGGAGGGAAAAGAGCCA--GCGGCAGCAGAUUCCGCACUGUC
.......---..........((((.(((...))))))).........(((((((((--((((((-------(((((.((..........))..))--))))))))...)))))))))).. ( -45.10)
>DroAna_CAF1 12631 106 + 1
UGGAGCC---CUCUAUAAUUGCUUCGGGCAGACCGCGCAGGAGCUUGUAGUGCGGC--UGGUGC-------UGCUGGUCCGACGGAUACGAGCCG--GCAGUGGCGGACUCUGCACUAUC
..(((((---((........((..(((.....))).))))).))))((((((((((--((.(((-------((((((..((.......))..)))--)))))).)))...))))))))). ( -44.10)
>DroPer_CAF1 13024 118 + 1
UGCAUGCCUCCUCUACCACGGAUUCGGGCAGGCCAGGCAUCAGUUUAUAAUGCGGCGGAGCCGCCUCCACUUGCUGUUCA-AGGGC-CAGGGCCAGGGCGGUAGCCUCCUCGAUGCUGUC
.((.(((((..(((.....)))...))))).))..((((((.((.......))(((...(((((((...((((.....))-))(((-....))).))))))).))).....))))))... ( -43.50)
>consensus
UGGAUCC___UUCAAUGAUUGCCUCGGGCAGGCCAGGCAGAAGUUUAUAGUGCGGA__AGCUGC_______UGCUGAUCGGAGGGAAAAGAGCCA__GCGGCAGCGGACUCCGCACUGUC
..................((((((.((.....))))))))......((((((((((....((((.......(((((.......((.......))....)))))))))..)))))))))). (-22.16 = -22.48 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:21 2006