Locus 4641

Sequence ID 3R_DroMel_CAF1
Location 12,208,748 – 12,208,843
Length 95
Max. P 0.508998
window7630

overview

Window 0

Location 12,208,748 – 12,208,843
Length 95
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 77.14
Mean single sequence MFE -28.88
Consensus MFE -16.13
Energy contribution -16.38
Covariance contribution 0.25
Combinations/Pair 1.09
Mean z-score -1.55
Structure conservation index 0.56
SVM decision value -0.05
SVM RNA-class probability 0.508998
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12208748 95 + 27905053
CUCCA-----AUGCCCGGUGAGCUAUGUGCGCAUUAAAUUAAACUGUCAUGACUGUGACAAGUGCAUAUGUUGGCGCCUCGGAC-A---GUGCAACAAACAAAU
...((-----.((.((((.(.(((((((((((.(((...)))..((((((....)))))).))))))))...))).).)))).)-)---.))............ ( -22.80)
>DroVir_CAF1 29785 92 + 1
GUCUAGGUUU-GGCUGGGUGAGCUAUGUGUGCAUUAAAUUAAACUGUCAUGAGUGUGACAAGUGCAUAUGUUCGCGCCUGGC-C-ACAU--GCACC-A------
.....(((.(-(((..((((....(((((((((((.........((((((....)))))))))))))))))...))))..))-)-)...--..)))-.------ ( -34.60)
>DroPse_CAF1 23309 95 + 1
CUCCA-----AUGCCCGGUGAGCUAUGUGGGCAUUAAAUUAAACUGUCAUGACUGUGACAAGUGCAUAUGUUGGCGCCUCGGAC-A---GUGCAGGAGAGAGAG
(((((-----(((((((..........)))))))).........((((((....))))))..(((((.((((.(.....).)))-)---)))))))))...... ( -29.10)
>DroWil_CAF1 25652 94 + 1
GCCCG------AGCUGGGUGAGCUAUGUGCACAUUAAAUUAAACUGUCAUGACUGUGACAAGUGCAUAUGUUGGCGCCUUGGACUA---CUACAACAA-CUACU
..(((------((..(.((.(((.((((((((.(((...)))..((((((....)))))).))))))))))).)).))))))....---.........-..... ( -25.60)
>DroMoj_CAF1 32368 92 + 1
GCCUAGCUCU-GACCGGCUGAGCUAUGUGUGCAUUAAAUUAAACUGUCAUGAGUGUGACAAGUGCAUAUGUUCGCGCCUGGC-C-ACAA--GCGGC-A------
(((..(((.(-(.((((((((((...(((((((((.........((((((....)))))))))))))))))))).))).)).-)-)..)--)))))-.------ ( -32.10)
>DroPer_CAF1 23156 93 + 1
CUCCA-----AUGCCCGGUGAGCUAUGUGGGCAUUAAAUUAAACUGUCAUGACUGUGACAAGUGCAUAUGUUGGCGCCUCGGAC-A---GUGCAGGAGAGAG--
(((((-----(((((((..........)))))))).........((((((....))))))..(((((.((((.(.....).)))-)---)))))))))....-- ( -29.10)
>consensus
CUCCA______UGCCCGGUGAGCUAUGUGCGCAUUAAAUUAAACUGUCAUGACUGUGACAAGUGCAUAUGUUGGCGCCUCGGAC_A___GUGCAGCAA__A___
................((((...(((((((((.(((...)))..((((((....)))))).)))))))))....)))).......................... (-16.13 = -16.38 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:24 2006