Locus 4850

Sequence ID X_DroMel_CAF1
Location 12,602,521 – 12,602,639
Length 118
Max. P 0.518674
window7924

overview

Window 4

Location 12,602,521 – 12,602,639
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.45
Mean single sequence MFE -23.49
Consensus MFE -16.43
Energy contribution -16.81
Covariance contribution 0.38
Combinations/Pair 1.14
Mean z-score -1.49
Structure conservation index 0.70
SVM decision value -0.03
SVM RNA-class probability 0.518674
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12602521 118 - 22224390
GAGGAUGCCAUAAAAAAAAAAAACCUUAUCGCGACGGCAAAUUGGCAAG-AAAUUCGUCACAAAUUCAAUUUCCGAUACCGGAAUUGGUAACGCA-AACAUCAUAAACAUAAGUUUAUGA
..(..(((......................(.((((((......))((.-...)))))).)....((((((.(((....)))))))))....)))-..).((((((((....)))))))) ( -23.00)
>DroSec_CAF1 1296 110 - 1
GAGGGUGCCAUAAAAA--AAAAACCUUAUCGCAACGGC--------AAGAAAAUUCGUCACAAAUUCAAUUUCCGAUACCGGAAUUGGUAUUGCAAAACAUCGUAAACAUAAGUUUAUCA
.(((((..........--....)))))...((((.(((--------..........)))......((((((.(((....)))))))))..))))........((((((....)))))).. ( -17.94)
>DroSim_CAF1 1972 115 - 1
GAGGGUGCCAUAAAAA---AAAACCUUAUCGCGACGGCCAAUUGGCAAG-AAAUUCGUCACAAAUUCAAUUUCCGAUACCGGAAUUGGUAACGCA-AACAUCAUAAACAUAAGUUUAUCA
.(((((..........---...)))))...(((...(((((.((((((.-...)).))))..........(((((....))))))))))..))).-......((((((....)))))).. ( -24.32)
>DroEre_CAF1 1576 112 - 1
GAGGGUGCAAUAAA------AAACCUUAUCGCGACGUUAAGUUGUUGAG-GAAUUCGUCACGCCUUCAAUUUCCGAUGCCGGAAUUGGCAACGCA-UACGUCAUAAACAUUGGUUUAUCA
((.(((((......------...(((((..(((((.....)))))))))-)..........(((......(((((....)))))..)))...)))-).).))((((((....)))))).. ( -28.70)
>consensus
GAGGGUGCCAUAAAAA___AAAACCUUAUCGCGACGGCAAAUUGGCAAG_AAAUUCGUCACAAAUUCAAUUUCCGAUACCGGAAUUGGUAACGCA_AACAUCAUAAACAUAAGUUUAUCA
((((...................))))...(((..(((.((((........)))).)))......((((((.(((....)))))))))...)))........((((((....)))))).. (-16.43 = -16.81 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:32 2006