Locus 6572

Sequence ID 3R_DroMel_CAF1
Location 17,307,679 – 17,307,793
Length 114
Max. P 0.762310
window10693

overview

Window 3

Location 17,307,679 – 17,307,793
Length 114
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 76.07
Mean single sequence MFE -30.58
Consensus MFE -17.02
Energy contribution -16.54
Covariance contribution -0.48
Combinations/Pair 1.24
Mean z-score -1.84
Structure conservation index 0.56
SVM decision value 0.51
SVM RNA-class probability 0.762310
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17307679 114 + 27905053
AUCAACUUAGUCACUGUUUAAAAUUGGCGCGCUU--UUAUUUGAAUUUAAGUGUUUGGCAAACAUAUAC-ACAGUGGCGCCAUCUGGAGCAGUGCUGCCACUCUCGUAUUUGGCACC
........((.((((((((.....(((((((((.--.((((((....))))))...)))...(((....-...)))))))))....))))))))))((((..........))))... ( -33.10)
>DroSec_CAF1 40291 106 + 1
UUCAA--------AUGUUUGAAAUUGGCGCACUU--UUAUUUGAAUUUAAGUGCUCGUCAAAUAUAUAC-GAAGUGGCGCCAUCUGGAGCAGUGCUGCCACUCUUGUAUUUGGCGCC
(((((--------....)))))...(((((((((--..((....))..))))))..((((((((((...-((.((((((.((.(((...))))).)))))))).))))))))))))) ( -35.30)
>DroSim_CAF1 42006 106 + 1
AUUAA--------CUGUUUGAAAUUGGCGCACUU--UUAUUUGAAUUUAAGUGCUUGUCAAACAUAUAC-GAAGUGGCGCCAUCUGGAGCAGUGCUGCCACUCUUGUAUUUGGCGCC
.....--------............(((((((((--..((....))..))))))..(((((....((((-(((((((((.((.(((...))))).))))))).)))))))))))))) ( -31.90)
>DroEre_CAF1 42145 106 + 1
AU-AC-UUCUUCACAGUUUGAAACUGGCGCAUUUUUUUAUUUGAAU-A-GGUGUU-----AUAAUAAUUAG--GUGGCGCCAUCUGGAUAAGUGCUGCCACUUUAUUAUCUGCAGUC
..-..-.......(((....(((.((((((((....((((((..((-.-((((((-----((.........--))))))))))..)))))))))).)))).))).....)))..... ( -23.60)
>DroYak_CAF1 45108 113 + 1
AUCAA-CCUUUCACUGUUUGAAACUGGCGCACUU--UUAUUUGAAU-AAAGUGUUUGCCCAAGGUAAGCAGCAGUGGCGCCAUCUGGACGAGUGCUGCCACUUUAGUAUCUGCCGCC
.....-.......(((((((.....(((((((((--(.........-)))))))..))).....)))))))..((((((((....)).)(((((....)))))........))))). ( -29.00)
>consensus
AUCAA_____UCACUGUUUGAAAUUGGCGCACUU__UUAUUUGAAUUUAAGUGUUUGUCAAACAUAUAC_GAAGUGGCGCCAUCUGGAGCAGUGCUGCCACUCUAGUAUUUGGCGCC
.........................(((((((((..((.....))...))))))...................((((((.((.((.....)))).)))))).............))) (-17.02 = -16.54 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:44 2006