Locus 5227

Sequence ID X_DroMel_CAF1
Location 13,638,027 – 13,638,130
Length 103
Max. P 0.663871
window8472

overview

Window 2

Location 13,638,027 – 13,638,130
Length 103
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 83.28
Mean single sequence MFE -25.28
Consensus MFE -19.95
Energy contribution -20.37
Covariance contribution 0.42
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.79
SVM decision value 0.27
SVM RNA-class probability 0.663871
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13638027 103 - 22224390
GACAUGUUGACCACGGAAGUGGGUUCGGGUCCACAGCCACAGCAGAUGACCGAGCAGGAAAUGGUCUUCCACUAAAAUA-AAAAUAUGACAAAAAUAAAACGUA
..((((((..((((....))))((((((.((....((....))....)))))))).((((......)))).........-..))))))................ ( -26.40)
>DroSec_CAF1 7371 92 - 1
GACAUGUUGACCACAGAAGUGGGCUCGGGUCCACAGCCACAGCAGAUGACCGAGCAGGAAAUGGUCUUCCACUAAAAGA-AAA-----------AAGCAACGUA
...((((((.((((....))))((((((.((....((....))....)))))))).((((......)))).........-...-----------...)))))). ( -26.30)
>DroSim_CAF1 8222 92 - 1
GACAUGUUGACCACAGAAGUGGGCUCGGGUCCACAGCCACAGCAGAUGACCGAGCAGGAAAUGGUCUUCCACUAAAAGA-AAA-----------AAGAAACGUA
...(((((..((((....))))((((((.((....((....))....)))))))).((((......)))).........-...-----------....))))). ( -23.40)
>DroEre_CAF1 8226 95 - 1
GACAUGUUGACCACGGAAGUGGGCUCGGGUCCACAGCCACAGCAGAUGACCGAGCAGGAAAUGGUCUUCCACUAAAACG-ACA--------UAGAACGAACGUA
...((((((.((((....))))((((((.((....((....))....)))))))).((((......)))).......))-)))--------)............ ( -30.40)
>DroWil_CAF1 17300 93 - 1
GACAUAUUGACCACUGAGGUGGGCUCUGGACCACAGCCACAGCAGAUGACCGAACAGGAAAUUGUUUUCCACUACAAAGCAAA-----------UCGAUAGUUA
(((.((((((.(((((..((((...(((.....)))))))..))).))........(((((....))))).............-----------))))))))). ( -22.30)
>DroYak_CAF1 8968 102 - 1
GACAUGUUGACCACGGAAGUGGGCUCGGGUCCACAGCCACAGCAGAUGACCGAACAGGAAAUGGUCUUCCACUAAAACG-AUA-UAAAAUAUAGAAAGAACUCA
...((((((.((((....))))(((..(((.....)))..))).((.(((((.........))))).))........))-)))-)................... ( -22.90)
>consensus
GACAUGUUGACCACGGAAGUGGGCUCGGGUCCACAGCCACAGCAGAUGACCGAGCAGGAAAUGGUCUUCCACUAAAACA_AAA___________AAGAAACGUA
..........((((....))))((((.((((....((....))....)))))))).((((......)))).................................. (-19.95 = -20.37 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:46 2006