Locus 6494

Sequence ID 3L_DroMel_CAF1
Location 17,258,720 – 17,258,834
Length 114
Max. P 0.920793
window10479

overview

Window 9

Location 17,258,720 – 17,258,834
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.32
Mean single sequence MFE -21.24
Consensus MFE -19.96
Energy contribution -19.80
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.40
Structure conservation index 0.94
SVM decision value 1.14
SVM RNA-class probability 0.920793
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17258720 114 - 23771897
AUUUUCCCCAAAACCACCUCGCAAUUU-UACCCAUUCUCCGCAUUUCC--CAGCGCGCGUGUCCAAUUACGCUGACAUCCUUGU---UGUUGGCUACGCCUGUGUUAUUUACAUAUGCAC
....................(((....-...........(((......--..))).(((((.(((((.(((..(....)..)))---.))))).))))).(((((.....)))))))).. ( -20.90)
>DroSec_CAF1 142391 114 - 1
AUUUUCCCCAAAACCACCUCGCAAUUU-UACCCAUUCUCCGCAUUUCC--CAGCGCGCGUGUCCAAUUACGCUGACAUCCUUGU---UGUUGGCUACGCCUGUGUUAUUUACAUAUGCAC
....................(((....-...........(((......--..))).(((((.(((((.(((..(....)..)))---.))))).))))).(((((.....)))))))).. ( -20.90)
>DroSim_CAF1 137251 114 - 1
AUUUUCCCCAAAACCACCUCGCAAUUU-UACCCAUUCUCCGCAUUUCC--CAGCGCGCGUGUCCAAUUACGCUGACAUCCUUGU---UGUUGGCUACGCCUGUGUUAUUUACAUAUGCAC
....................(((....-...........(((......--..))).(((((.(((((.(((..(....)..)))---.))))).))))).(((((.....)))))))).. ( -20.90)
>DroEre_CAF1 145468 117 - 1
GUUUUCCCCAAAACCACCUCGCAAUUUUUACCCAUUCUCCGCAUUUCCCCCGGCGCGCGUGUCCAAUUACGUUGACAUCCUUGU---UGUUGGCUACGCCUGUGUUAUUUACAUAUGCAC
(((((....)))))..........................((((.......((((((((((.(((((.(((..(....)..)))---.))))).)))))..)))))........)))).. ( -21.76)
>DroYak_CAF1 149630 119 - 1
AUUUUCCCCAAAACCACCUCGCAAUUUCUACCCAUUCUCCGCAUUUCC-CCAGCGCGCGUGUCCAAUUACGUUGACAUCCUUGUUGUUGUUGGCUACGCCUGUGUUAUUUACAUAUGCAC
........................................((((....-..((((((((((.(((((.((...((((....)))))).))))).)))))..)))))........)))).. ( -21.74)
>consensus
AUUUUCCCCAAAACCACCUCGCAAUUU_UACCCAUUCUCCGCAUUUCC__CAGCGCGCGUGUCCAAUUACGCUGACAUCCUUGU___UGUUGGCUACGCCUGUGUUAUUUACAUAUGCAC
........................................((((.......((((((((((.(((((.......(((....)))....))))).)))))..)))))........)))).. (-19.96 = -19.80 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:10 2006