Locus 4703

Sequence ID 2R_DroMel_CAF1
Location 15,404,923 – 15,405,015
Length 92
Max. P 0.539682
window7570

overview

Window 0

Location 15,404,923 – 15,405,015
Length 92
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.07
Mean single sequence MFE -30.78
Consensus MFE -20.04
Energy contribution -20.38
Covariance contribution 0.33
Combinations/Pair 1.04
Mean z-score -1.44
Structure conservation index 0.65
SVM decision value 0.01
SVM RNA-class probability 0.539682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15404923 92 + 20766785
---------CGAACCUGUCCACAUCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUCGGAAAAAGCACUUUAGCGCAUUAGAAC-CCACG----------C-
---------...................(((((.((((((((.....(((((((((...................))))))).)))))))))).)-)))).----------.- ( -24.11)
>DroVir_CAF1 282519 101 + 1
---------UG--CCCGGCCACAGCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUACGAAAAAGCACUUUAGCGCAUUAGAAGGCCACGGCGGGGACCGA-
---------..--..(((((...(((..((((..((((((((.....(((((((((...((((....))))....))))))).))))))))))...)))))))..)).))).- ( -33.50)
>DroPse_CAF1 239747 110 + 1
GCUCGGGCUCGGUGGCGGCCACAGCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUAGGAAAAAGCACUUUAGCGCAUUAGAAC-UCACGGCAGGAAGG-C-
(((..((((..((((...))))))))..(((((.((((((((.....(((((((((..((((....)))).....))))))).)))))))))).)-))))))).......-.- ( -34.20)
>DroWil_CAF1 416777 100 + 1
ACUCG-GCACAGCAGCGGCCACAGCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUAGGAAAAAGCACUUUAGCGCAUUAGAAC-GCACG----------G-
.....-((......))(((....)))..(((.(.((((((((.....(((((((((..((((....)))).....))))))).)))))))))).)-.))).----------.- ( -26.00)
>DroMoj_CAF1 305679 102 + 1
---------UG--CCCGGCCACAGCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUACGAAAAAGCACUUUAGCGCAUUAGAAGGCCACGGCGGGAGCGGAC
---------..--.(((.((...(((..((((..((((((((.....(((((((((...((((....))))....))))))).))))))))))...))))))).))..))).. ( -32.70)
>DroPer_CAF1 199770 110 + 1
GCUCGGGCUCGGUGGCGGCCACAGCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUAGGAAAAAGCACUUUAGCGCAUUAGAAC-UCACGGCAGGAAGG-C-
(((..((((..((((...))))))))..(((((.((((((((.....(((((((((..((((....)))).....))))))).)))))))))).)-))))))).......-.- ( -34.20)
>consensus
_________CGG_CCCGGCCACAGCCAAGUGGGAUUUAGUGCAAAUUGCAAAGUGUAACUUGUUUUUAGGAAAAAGCACUUUAGCGCAUUAGAAC_CCACGGC_GGAA_G_C_
................(((....)))..((((..((((((((.....(((((((((...................))))))).))))))))))...))))............. (-20.04 = -20.38 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:14 2006