Locus 3550

Sequence ID 2R_DroMel_CAF1
Location 11,864,307 – 11,864,414
Length 107
Max. P 0.754562
window5777

overview

Window 7

Location 11,864,307 – 11,864,414
Length 107
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 82.05
Mean single sequence MFE -28.11
Consensus MFE -19.52
Energy contribution -19.36
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.85
Structure conservation index 0.69
SVM decision value 0.48
SVM RNA-class probability 0.754562
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11864307 107 - 20766785
UUCCAACCUGCCCCUGCCCCCUUUUGCUCCACGCAGUCAGCGUCUUUUGUUGCGCUUAAUGAAUUUUACGUAAAUUUUACGAGCGCUGAUUUCUGGCAG-CAGCAGCA
.......((((..(((((......(((.....)))((((((((........))((((...((((((.....))))))...))))))))))....)))))-..)))).. ( -30.20)
>DroSec_CAF1 4825 107 - 1
AUCCCACCUGCCCCUGCCCCCUUUUCGUCCUCGUAGCCAGCGUCUUUUGUUGCGCUUAAUGAAUUUUACGUAAAUUUUACGAGCGCUGAUUUCUGGCAG-CAGCAGCA
.......((((..(((((......((((.(((((((((((((.....))))).)).....((((((.....)))))))))))).)).)).....)))))-..)))).. ( -30.30)
>DroEre_CAF1 4910 98 - 1
GCCCAACCUGG-----U-CUGCUUUCCUCCUACCAGCCAGCGUCUUUUGUUGCGCUUAAUGAAUUUUACGUAAAUUUUACGAGCGCUGAUUUCUGGCAG-C---AGCA
(((......))-----)-(((((............(((((.(((.......((((((...((((((.....))))))...)))))).)))..)))))))-)---)).. ( -23.40)
>DroYak_CAF1 4962 97 - 1
GCCCAACCUG------C-CCGCUUUACUCCGCCCAGCCAGCGUCUUUUGUUGCGCUUAAUGAAUUUUACGUAAAUUUUACGAGCGCUGAUUUCUGGCAG-C---AGCA
.......(((------(-..((........))...(((((.(((.......((((((...((((((.....))))))...)))))).)))..))))).)-)---)).. ( -24.90)
>DroAna_CAF1 4857 98 - 1
GGCCAACCUGU-------U---UCCUCUCCUGGCAGCCAGCGUCUUUUGUUGCGCUUAAUGAAUUUUACGUAAAUUUUACGAGCGCUGAUUUCUGGCGCUGAGCAGUG
.((((......-------.---........)))).(((((((((....(((((((((...((((((.....))))))...)))))).)))....))))))).)).... ( -31.76)
>consensus
GCCCAACCUGC_____C_CCCCUUUCCUCCUCGCAGCCAGCGUCUUUUGUUGCGCUUAAUGAAUUUUACGUAAAUUUUACGAGCGCUGAUUUCUGGCAG_CAGCAGCA
...................................(((((.(((.......((((((...((((((.....))))))...)))))).)))..)))))........... (-19.52 = -19.36 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:13 2006