Locus 6580

Sequence ID 3R_DroMel_CAF1
Location 17,325,284 – 17,325,379
Length 95
Max. P 0.516782
window10708

overview

Window 8

Location 17,325,284 – 17,325,379
Length 95
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 82.37
Mean single sequence MFE -48.77
Consensus MFE -30.65
Energy contribution -31.82
Covariance contribution 1.17
Combinations/Pair 1.14
Mean z-score -1.76
Structure conservation index 0.63
SVM decision value -0.03
SVM RNA-class probability 0.516782
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17325284 95 + 27905053
UGGGGCAAACUCCGG--------------CCAGCG---------GCCAAUGGCGGUUGGCCGAGGCCACGCCCCGUGGCUCAAUUACCGACCAGUGCUGCCCAUCGGCGGGCAGAGCG
.(((((...(..(((--------------(((((.---------(((...))).))))))))..)....))))).(((.((.......)))))((.((((((......)))))).)). ( -49.80)
>DroSec_CAF1 1522 95 + 1
UGGGGCAAACUCCGG--------------CCAGCG---------GCCAAUGGCGGUUGGCCGAGGCCACGCCCCGUGGCUCAAUUACCGACCAGUGCUGCCCAUCGGCGGGCAGAGCG
.(((((...(..(((--------------(((((.---------(((...))).))))))))..)....))))).(((.((.......)))))((.((((((......)))))).)). ( -49.80)
>DroSim_CAF1 6916 95 + 1
UGGGGCAAACUCCGG--------------CCAGCG---------GCCAAUGGCGGUUGGCCGAGGCCACGCCCCGUGGCUCAAUUACCGACCAGUGCUGCCCAUCGGCGGGCAGAGCG
.(((((...(..(((--------------(((((.---------(((...))).))))))))..)....))))).(((.((.......)))))((.((((((......)))))).)). ( -49.80)
>DroEre_CAF1 6577 94 + 1
-GGGC-AAACUCCGG-------------GCCAGCG---------GCCAAUGGCGGUUGGCCGAGGCCACGCCCCGUGCCUCAAUUACCGACCAGUGCUGCCCAUCGGCGGGCAGAGCG
-((..-........(-------------((((((.---------(((...))).)))))))(((((.(((...)))))))).....)).....((.((((((......)))))).)). ( -45.50)
>DroYak_CAF1 4906 108 + 1
CGGGG-CAACUCCGGCCAGCAGCCAGCGGCCGGCG---------GCCAAUGGCGGUUCGCCGAGGCCACGCCCCGUGCCUCAAUUACCGACCAGUGCUGCCCAUCGGCGGGCAGAGCG
(((((-(....((((((.((.....)))))))).(---------(((..(((((...))))).))))..))))))..................((.((((((......)))))).)). ( -55.00)
>DroAna_CAF1 6609 102 + 1
--UCC-AAACUGCCC-------------CCCAGCUGUAGGGGGAACCAAUGGCAACCGGGCUUGGCCACGCCCCCGGGCCCAAUUACCGGCCAGUGCUGCCCAUCGGCGGGCAGAGCA
--...-...((((((-------------.((.(((((..((....)).)))))....((((((((((..(((....))).........))))))....))))...)).)))))).... ( -42.70)
>consensus
UGGGG_AAACUCCGG______________CCAGCG_________GCCAAUGGCGGUUGGCCGAGGCCACGCCCCGUGGCUCAAUUACCGACCAGUGCUGCCCAUCGGCGGGCAGAGCG
.((((....))))...................((..........(((...)))((((((....(((((((...)))))))......))))))....((((((......)))))).)). (-30.65 = -31.82 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:59 2006