Locus 550

Sequence ID 3L_DroMel_CAF1
Location 1,578,408 – 1,578,526
Length 118
Max. P 0.728957
window844

overview

Window 4

Location 1,578,408 – 1,578,526
Length 118
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 91.53
Mean single sequence MFE -45.30
Consensus MFE -40.05
Energy contribution -40.50
Covariance contribution 0.45
Combinations/Pair 1.19
Mean z-score -1.46
Structure conservation index 0.88
SVM decision value 0.42
SVM RNA-class probability 0.728957
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1578408 118 - 23771897
GGCAGGGGCAGCGGCGAGUCCGUGGCAUCACUGCAAUAAGCACCCGAAUCCCUGUGAUGCGACAAUGAGGAAGAUAGAGUGUAGUCCCUGUGAAUGGAGGAGUUAUUGCUCCCAGCCG
(((.(((((((..((...(((((.((((((((((.....)))...........))))))).)).((..(((..((.....))..)))..))....)))...))..)))).))).))). ( -40.90)
>DroSec_CAF1 22599 118 - 1
GGCAGGGGCAGUGGCGAGUCCGUGGCAUCACUGCAAUAAGCACCCGAAUCCCUGUGAUGCGACAAUGAGGAAGAUAGAGUGUAGUCCCUGUGAAUGGAGGAGUUAUUGCUCCCUGCCG
(((((((((((((((...(((((.((((((((((.....)))...........))))))).)).((..(((..((.....))..)))..))....)))...)))))))).))))))). ( -48.80)
>DroSim_CAF1 22972 118 - 1
GGCAGGGGCAGUGGCGAGUCCGUGGCAUCACUGCAAUAAGCACCCGAAUCCCUGUGAUGCGACAAUGAGGAAGAUAGAGUGUAGUCCCUGUGAAUGGAGGAGUUAUUGCUCCCUGCCG
(((((((((((((((...(((((.((((((((((.....)))...........))))))).)).((..(((..((.....))..)))..))....)))...)))))))).))))))). ( -48.80)
>DroEre_CAF1 29761 118 - 1
GGCAGGGGCAGUGGCGAAUCCGUGGCAUCACUGCAAUAGGCACCCGAGUCCCUGUGAUGCGACAAUGAGGAAGAUAGAGUGUAGUCCCUGUGUAUGGAGGAGUUAUUGCUCCCUGCCG
(((((((((((((((...(((((.(((((((......(((.((....)).)))))))))).)).((..(((..((.....))..)))..))....)))...)))))))).))))))). ( -51.00)
>DroYak_CAF1 23707 118 - 1
GGCAGAGGCAGUGGCGAAUCCGUGGCAUCACUGCAAUAGGCACCCGAGUCCCUGUGAUGCGACAGUGAAGAAGAUAGCGUGUAAUCCCGGUGAAUGGAGGAGUUAUUGCUCCCUGCCG
(((((.(((((((((...(((((.(((((((......(((.((....)).)))))))))).))...........((.((........)).))...)))...)))))))))..))))). ( -41.90)
>DroAna_CAF1 31189 118 - 1
GGCAGAGGUAGCGGCGAGUCGGUGGCGUCACUGCAGUAUGCCCCAGAGUCCCGGUGGUGCGACAACGAGGAAGAUAGCGUGUAGUCCCUGUGGAUGGAGGAGUUGUUGCUUCCCGCGG
.((.(.((.((((((((.((((.(((((.((....)))))))))...(((((((.((.((.(((.((..........))))).))))))).))))....)).)))))))).))))).. ( -40.40)
>consensus
GGCAGGGGCAGUGGCGAGUCCGUGGCAUCACUGCAAUAAGCACCCGAAUCCCUGUGAUGCGACAAUGAGGAAGAUAGAGUGUAGUCCCUGUGAAUGGAGGAGUUAUUGCUCCCUGCCG
(((((((((((((((...(((((.((((((((((.....)))...........))))))).)).((..(((..((.....))..)))..))....)))...)))))))).))))))). (-40.05 = -40.50 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:08 2006