Locus 5436

Sequence ID 3R_DroMel_CAF1
Location 14,340,947 – 14,341,065
Length 118
Max. P 0.787057
window8844

overview

Window 4

Location 14,340,947 – 14,341,065
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.71
Mean single sequence MFE -40.00
Consensus MFE -24.82
Energy contribution -25.68
Covariance contribution 0.87
Combinations/Pair 1.36
Mean z-score -1.57
Structure conservation index 0.62
SVM decision value 0.57
SVM RNA-class probability 0.787057
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14340947 118 - 27905053
--CCAGAGCCAAAAUGAUGGCGACGUCACAGGAUUAUUUUGGCAAUCCAUACGCCCUUUUCCGUGGACCGCCCACAACUCUGCGGCCGCGCGAGUCGCCGCUGGGCGUGGGCCACCCUCA
--...(.(((....(((((....)))))..(((((........))))).(((((((......((((.....))))......(((((.((....)).))))).)))))))))))....... ( -47.50)
>DroPse_CAF1 128006 115 - 1
--CCGCACUCAACAUGAUGGCCACGUCACAGGAUUACUU---CAAUCCGUACGCCCUGUUCCGCGGCCCACCCACCACUCUGCGGCCGCGCGAGUCCCCGCUAGGCGUCGGCCAUGCCCA
--..............((((((........(((((....---.)))))(.(((((.......((((((((..........)).))))))(((......)))..))))))))))))..... ( -40.30)
>DroGri_CAF1 122395 110 - 1
--UUAAAAUCGACAUGAUGGCCACUUCACAGGAUUAUUUUGGCAAUCCUUAUGCACUAUUUCGCGGCCCGCCCAUCACAAUGCGGCCACGCACAUCGCCGCUGGGCGUGGCU--------
--.......(((((.(((((((........)).))))).))(((.......)))......))).((((((((((.......(((((..........))))))))))).))))-------- ( -30.91)
>DroWil_CAF1 139845 116 - 1
UACCACAAUCAACAUGAUGGCCACCUCACAGGAUUACUUUGGCAAUCCCUAUGCACUCUUUCGCGGUCCACCCACCACACUGAGACCGCGUGAGUCGCCAUUGGGUGUGGGUGGUG----
((((((.(((.....)))..((((((((..(((((.(....).)))))....((((((...(((((((((..........)).))))))).)))).))...)))).))))))))))---- ( -40.60)
>DroAna_CAF1 112760 118 - 1
--CCACCGGGAAAAUGAUGGCGACGUCACAGGAUUAUUUUGGCAAUCCCUACGCCCUUUUUCGCGGUCCGCCCACAACUUUGAGGCCGCGGGAGUCACCAUUGGGCGUCGGUCAUGCCCA
--.....(((...(((((..((((......(((((........)))))....((((.((..(((((((((..........)).)))))))..))........))))))))))))).))). ( -40.40)
>DroPer_CAF1 130635 115 - 1
--CCGCACUCAACAUGAUGGCCACGUCACAGGAUUACUU---CAAUCCGUACGCCCUGUUCCGCGGCCCACCCACCACUCUGCGGCCGCGCGAGUCCCCGCUAGGCGUCGGCCAUGCCCA
--..............((((((........(((((....---.)))))(.(((((.......((((((((..........)).))))))(((......)))..))))))))))))..... ( -40.30)
>consensus
__CCACAAUCAACAUGAUGGCCACGUCACAGGAUUACUUUGGCAAUCCCUACGCCCUGUUCCGCGGCCCACCCACCACUCUGCGGCCGCGCGAGUCGCCGCUGGGCGUCGGCCAUGCCCA
................((((((........(((((........)))))..((((((......((((((((..........)).))))))(((......))).)))))).))))))..... (-24.82 = -25.68 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:37 2006