Locus 5201

Sequence ID 3R_DroMel_CAF1
Location 13,625,687 – 13,625,806
Length 119
Max. P 0.867995
window8489

overview

Window 9

Location 13,625,687 – 13,625,806
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.70
Mean single sequence MFE -32.60
Consensus MFE -16.18
Energy contribution -19.85
Covariance contribution 3.67
Combinations/Pair 1.26
Mean z-score -2.16
Structure conservation index 0.50
SVM decision value 0.86
SVM RNA-class probability 0.867995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13625687 119 + 27905053
CUCUGGACUCACCCUUAGUUGAGGUUUCUUUGGUAGUGAAAGCGAAUACUUUGGUGCAGU-UUCCUUUAGGCUAUUGUACUCACCGAGCACAACCUUAUAGACCUUGGCUCCGUGAUCUA
...((((.((((....(((..((((((.(..(((.(((((((......))))((((((((-..((....))..)))))))).......))).)))..).))))))..)))..)))))))) ( -36.00)
>DroSec_CAF1 4298 119 + 1
CUCUGGACUCACCCUGAGUUGAGGUCUCUUUGGUAGUGGAAGCGAAUACUUUGGUGCAGU-UUCUUUUUGGCUAUUGUACUCACCGAGCACAACCUUAUAGACCUUGGCUCCGUGAUCUA
...((((.((((...((((..((((((.(..(((.(((((((......))))((((((((-..((....))..)))))))).......))).)))..).))))))..)))).)))))))) ( -40.50)
>DroSim_CAF1 4335 119 + 1
CUCUGGACUCACCCUGAGUUGAGGUCUCUUUGGUAGUGGAAGCGAAUACUUUGGUGUAGU-UUCCUUCUGGCUAUUGUACUCACCGAGCACAACCUUAUAGACCUUGGCUCCGUGAUCUA
...((((.((((...((((..((((((.(..(((.((((((((..((((....)))).))-)))).....(((..((....))...))))).)))..).))))))..)))).)))))))) ( -41.40)
>DroEre_CAF1 4296 119 + 1
CUCUGGACUCACUCUCAAUCGAGGUCUCUUUGGUAGUGGAAGCGAAUACUUUGUUUCAGC-UUCUUUUUGGCUAUUGUAUUCACCCAACACAACCUUAUAGACCUUGGCUCCGUGAUCUA
...((((.((((......(((((((((.(..(((.((((((((((.....)))))))(((-(.......))))...............))).)))..).)))))))))....)))))))) ( -33.60)
>DroYak_CAF1 4636 119 + 1
CUCUGGACUCACCCUCAAUCGAGGUCGCUUUGGUAGUGGAAGCGAAUACUUUGGUUCAGC-UUCUUUUUGGCUAUUGUAUUCACCCAACACAACCUUAUAGACCUUAGCUCCGUACUCUA
....(((((...........((((((.....(((.(((...(.((((((..((((.(((.-......)))))))..)))))).)....))).))).....)))))))).)))........ ( -28.10)
>DroAna_CAF1 3954 107 + 1
UUCUAUGGUCAACUUUGGUGGUUUUAUUUUUGGAG-------------CUGUGUUCAAACUUUCCUCGGUUUUAUUACAUUCGUUUAGCGCAACCUUGUACACACUACCUUCUCCUUCCA
.....(((........((((((..........(((-------------.((((...(((((......)))))...))))))).....(..((....))..)..))))))........))) ( -15.99)
>consensus
CUCUGGACUCACCCUCAGUUGAGGUCUCUUUGGUAGUGGAAGCGAAUACUUUGGUGCAGC_UUCCUUUUGGCUAUUGUACUCACCGAGCACAACCUUAUAGACCUUGGCUCCGUGAUCUA
...((((.((((....(((((((((((.(..(((.(((...(.((.(((..((((.(((........)))))))..))).)).)....))).)))..).)))))))))))..)))))))) (-16.18 = -19.85 +   3.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:56 2006