Locus 1612

Sequence ID 3R_DroMel_CAF1
Location 4,658,052 – 4,658,160
Length 108
Max. P 0.552861
window2657

overview

Window 7

Location 4,658,052 – 4,658,160
Length 108
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 74.57
Mean single sequence MFE -37.75
Consensus MFE -23.72
Energy contribution -23.20
Covariance contribution -0.52
Combinations/Pair 1.32
Mean z-score -1.20
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.552861
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4658052 108 + 27905053
-------CUUAAGAUAGGGCUAA--CACGCACCUAUUGGCGGUGGCAUGCCGCGAUGUGGUGCAAUAUAGGGUCCUGUGCCGCUGCCCCCGUUGUAGUGAUGCCCAUUC-CCAUUGUA
-------.........((((...--((((((.(....(((((((((..(((((...))))).....((((....)))))))))))))...).))).)))..))))....-........ ( -37.50)
>DroVir_CAF1 9338 110 + 1
AAGCCUCGUUUAAGUAGG-------GACUUACCUAUUGGCGGUGGCAUGCCCCGAUGUGGAGCAAUGUACGGUCCGGUGCCACUGCCACCAUUGUAGUGAUGACUGUUG-CCAUUGUA
............((((((-------......))))))((((((((((.((.(((.((((.(....).))))...))).))...)))))))....((((....))))..)-))...... ( -35.70)
>DroEre_CAF1 8034 108 + 1
-------CUUGGGAAAGGGACAC--CACCUACCUAUUGGCGGCGGCAUGCCGCGAUGUGGUGCAAUGUAGGGUCCCGUGCCGCUGCCUCCGUUGUAGUGAUGGCCAUUC-CCGUUGUA
-------...(((((.((..((.--(((.(((.....((((((((((((((((...)))))........((...)))))))))))))......)))))).)).)).)))-))...... ( -43.70)
>DroWil_CAF1 11077 104 + 1
-------AUUGGAAU--GAU--U--AACUUACCAAUUGGCGGUGGCAUGCCACGAUGUGGUGCUAUAUAGGGACCCGUUCCGCUUCCACCAUUAUAAUGAUGGCUAUUG-CCAUUGUA
-------(((((...--...--.--......)))))..(((((((((.((((((..((((((.......((((....)))).....)))))).....)).))))...))-))))))). ( -31.32)
>DroMoj_CAF1 9033 115 + 1
AGGUAUUCCUUAAAUAUG-CUUC--CACUCACCUAUUGGCGGUGGCAUGCCGCGAUGUGGCGCUAUGUAGGGCCCGGUACCGCUGCCUCCAUUGUAGUGGUGACUGUUGGCCAUUGUA
(((....)))...(((((-(..(--(((.(.((....)).)))))...(((((...))))))).))))..((((((((((((((((.......)))))))).))))..))))...... ( -39.80)
>DroAna_CAF1 11428 108 + 1
--------UUAAGA-GGAGUAACUAUAUUUACCAAUUGGCGGUGGCAUGCCACGAUGUGGCGCUAUGUAGGGUCCUGUGCCACUGCCUCCGUUGUAGUGGUGACUGUUG-CCAUUGUA
--------......-(((((((......)))).....((((((((((((((((...))))).......((....))))))))))))))))....((((((..(...)..-)))))).. ( -38.50)
>consensus
_______CUUAAAAUAGGGC_AC__CACUUACCUAUUGGCGGUGGCAUGCCGCGAUGUGGUGCAAUGUAGGGUCCCGUGCCGCUGCCUCCAUUGUAGUGAUGACUAUUG_CCAUUGUA
.....................................((((((((((((((...((((......))))..)))...))))))))))).........(..(((.........)))..). (-23.72 = -23.20 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:50 2006