Locus 656

Sequence ID 3R_DroMel_CAF1
Location 2,420,284 – 2,420,398
Length 114
Max. P 0.610729
window1037

overview

Window 7

Location 2,420,284 – 2,420,398
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.14
Mean single sequence MFE -27.15
Consensus MFE -13.41
Energy contribution -13.80
Covariance contribution 0.39
Combinations/Pair 1.15
Mean z-score -2.47
Structure conservation index 0.49
SVM decision value 0.16
SVM RNA-class probability 0.610729
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2420284 114 + 27905053
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACAAGCCGGGACUCAAGUGCCCGGGCACUUGAAAUGCUUCGCUGGCCACGAGCAGAGAAUAAGGUGCAAAA---AUGGAC---
......((((((((....))))))))..(((...........(((((((....)).)))))((((((......((..(((.(...).)))..))....))))))....---.)))..--- ( -31.00)
>DroSim_CAF1 125459 114 + 1
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACAAGCCGGGACUCAAGUGCCCGGGCACUUGAAAUGCUUCGCUGGCCACGAGCAGAGAAUAAGGUGCAAAA---AAGGAC---
...(((((((((((....)))))))).....((((......(((((((.((((((((....))))))))......)).))))).....)))).......)))......---......--- ( -30.50)
>DroEre_CAF1 128217 114 + 1
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACAAGCCGGGACUCAAGUACCUGGGCACUUGAAAUGCUUCGCUGGCCACGAGCAGAGAAUAAGGUGCAAAA---AAGGAC---
......((((((((....))))))))..((............(((((((....)).)))))((((((......((..(((.(...).)))..))....))))))....---..))..--- ( -28.30)
>DroWil_CAF1 196168 92 + 1
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACAAGAC---------------AAGCACUUCAAAUGCAUCUCUGGGCAUGAGA-GA-AAGAAAGUGGAAGA--------C---
......((((((((....))))))))..(((((...........---------------..(((.......))).(((((.......)))-))-.....)))))....--------.--- ( -17.40)
>DroYak_CAF1 122477 117 + 1
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACAAGCAGGGACUCAAGUACCCGGGCACUUGAAAUGCUUCGCUGCCCACCAGCAGAGAAUAAGGUGCAAAAAAAAAAGAC---
....((((((((((....))))))))..((.((((......))))))............))((((((......((..((((.....))))..))....)))))).............--- ( -28.20)
>DroAna_CAF1 125610 108 + 1
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACACUCCCUGACUCGAA------GGCACUCGAAACGCUUCGCUGGCCACGAGU---GAGGAAAGUGCAAAA---AAGAAGUCC
......((((((((....)))))))).....((.....((((.(((.(((((..------(((...((((....))))...))).)))))---.)))..)))).....---.))...... ( -27.50)
>consensus
AAAACCAAAUUGACCAAAGUUAAUUUAACCACUGUAAACAAGCCGGGACUCAAGU_CCCGGGCACUUGAAAUGCUUCGCUGGCCACGAGCAGAGAAUAAGGUGCAAAA___AAGGAC___
......((((((((....))))))))...................................((((((......(((.(((.......))).)))....))))))................ (-13.41 = -13.80 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:29 2006