Locus 4518

Sequence ID 3R_DroMel_CAF1
Location 12,000,775 – 12,000,869
Length 94
Max. P 0.586464
window7378

overview

Window 8

Location 12,000,775 – 12,000,869
Length 94
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 88.28
Mean single sequence MFE -21.85
Consensus MFE -17.80
Energy contribution -18.30
Covariance contribution 0.50
Combinations/Pair 1.15
Mean z-score -1.93
Structure conservation index 0.81
SVM decision value 0.11
SVM RNA-class probability 0.586464
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12000775 94 + 27905053
---------GCGCCUUGGACUCUUCCACCUUAAUUGUUCCACUUCUGGCUUAAUUAUUGACA--CAAUAAUUGCCUGCGGAGUAAUAACAAAUUUGAACUGGCUU
---------..(((.((((....))))......(((((..(((((.(((..((((((((...--)))))))))))...)))))...))))).........))).. ( -21.50)
>DroSec_CAF1 106164 96 + 1
---------GCGCCUUGGACUCUUCCACCUUAAUUGUUCCACUUCUGGCUUAAUUAUUGACACACAAUAAUUGCCUGCGGAGUAAUAACAAAUUUGAACUGGCUU
---------..(((.((((....))))......(((((..(((((.(((..((((((((.....)))))))))))...)))))...))))).........))).. ( -22.70)
>DroSim_CAF1 106452 96 + 1
---------GCGCCUUGGACUCUUCCACCUUAAUUGUUCCACUUCUGGCUUAAUUAUUGACACACAAUAAUUGCCUGCGGAGUAAUAACAAAUUUGAACUGGCUU
---------..(((.((((....))))......(((((..(((((.(((..((((((((.....)))))))))))...)))))...))))).........))).. ( -22.70)
>DroEre_CAF1 106017 96 + 1
---------GCGCCUUGGACUCUUCCACCUUAAUUGUUCCACUUCUGGCUUAAUUAUUGACACACAAUAAUUGCCUGCGGAGUAAUAACAAAUUUGAACUGGCUU
---------..(((.((((....))))......(((((..(((((.(((..((((((((.....)))))))))))...)))))...))))).........))).. ( -22.70)
>DroYak_CAF1 108978 96 + 1
---------GCGCCUUGGACUCUUCCACCUGAAUUGUUCCACUUCUGACUUAAUUAUUGACACACACUAAUUGCCUGCGGAGUAAUAACAAAUUUGAACUGGCUU
---------..(((.((((....))))......(((((....(((((...((((((.((.....)).))))))....)))))....))))).........))).. ( -15.70)
>DroAna_CAF1 128342 103 + 1
UCGCCAAUAACGCCACCCAAUCUU--GGCUUAAUUGUUCAACUUUUGGCUUUAAUAUUGACACACGUUAAUUGUGUGUGGAGUAAUAACAAAUUUUAACAGGCUU
..(((......((((........)--))).....((((.((..((((...(((...((.(((((((.....))))))).)).)))...))))..))))))))).. ( -25.80)
>consensus
_________GCGCCUUGGACUCUUCCACCUUAAUUGUUCCACUUCUGGCUUAAUUAUUGACACACAAUAAUUGCCUGCGGAGUAAUAACAAAUUUGAACUGGCUU
...........(((.((((....))))......(((((..(((((.(((...(((((((.....))))))).)))...)))))...))))).........))).. (-17.80 = -18.30 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:15 2006