Locus 3052

Sequence ID 3L_DroMel_CAF1
Location 8,796,654 – 8,796,757
Length 103
Max. P 0.981682
window4764

overview

Window 4

Location 8,796,654 – 8,796,757
Length 103
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 76.08
Mean single sequence MFE -25.17
Consensus MFE -16.48
Energy contribution -16.65
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.25
Structure conservation index 0.65
SVM decision value 1.89
SVM RNA-class probability 0.981682
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8796654 103 - 23771897
CGUGCCAU---ACAGUAAGGCAUCCUGAAG----------UGAGGC--UCGCAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCUUAAAUAAAGCAUGA
(((((...---....(((((..((.((..(----------..(.((--(((((.....)))))..)).)..)...(((((((....))))))).)).))..)))))......))))). ( -24.82)
>DroVir_CAF1 68209 106 - 1
CGUGCUGC---AC--------AUCCUGCAGCUCGCUGGC-AGACGUAGCUGCAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCCUAAAUAAAGCAUGA
((((((((---((--------((..((((((((((....-.).)).)))))))..))))))...((((...))))(((((((....)))))))..................)))))). ( -32.30)
>DroGri_CAF1 59809 102 - 1
CGUGCUGA---AC--------AUCCUGCAGCUCGAC-----GAUGCUGCUGCAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCCUAAAUAAAGCAUGA
((((((..---..--------.....(((((.....-----...)))))(((((((..(....)..)))))))..(((((((....)))))))..................)))))). ( -27.50)
>DroWil_CAF1 74819 108 - 1
CGUGCCGU---ACA------CAUCCUGAAGCACUUUGGAGUAGACCU-GCACAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCUUAAAUAAAGCAUGA
.((((...---(((------(((.(....((((.(((..(((....)-)).))).))))..).)))))).)))).(((((((....))))))).((((...............)))). ( -23.06)
>DroAna_CAF1 59660 103 - 1
CGUGCCUC---ACCGUAUGGCAUCCCGAGC----------CUCAGC--UCGCAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCUUAAAUAAAGCAUGA
.(((((..---.......)))))...((((----------....))--))((((((..(....)..))))))...(((((((....))))))).((((...............)))). ( -23.96)
>DroPer_CAF1 67069 97 - 1
CGUGCAUCCUCUCUCUCUCUCUUUCUG---------------------UGGCAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCUUAAAUAAAGCAUGA
(((((....................((---------------------((.(((((..(....)..)))))))))(((((((....)))))))...................))))). ( -19.40)
>consensus
CGUGCCGC___AC_______CAUCCUGAAG___________GAAGC__UCGCAACGUGUGCGAAUGUGUUGCACAAUAAAUAAAAAUAUUUAUACAUGAAACCUUAAAUAAAGCAUGA
(((((.............................................((((((..(....)..))))))...(((((((....)))))))...................))))). (-16.48 = -16.65 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:24 2006