Locus 5875

Sequence ID 2R_DroMel_CAF1
Location 18,572,825 – 18,572,945
Length 120
Max. P 0.500000
window9432

overview

Window 2

Location 18,572,825 – 18,572,945
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.25
Mean single sequence MFE -46.14
Consensus MFE -37.56
Energy contribution -37.44
Covariance contribution -0.12
Combinations/Pair 1.16
Mean z-score -1.31
Structure conservation index 0.81
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18572825 120 + 20766785
UCCACCGUCCGGACACCAAGGACCUCGAACUGCCCGCCUUUGCGCAGACCUUCCCGGAUCGCUUUAUCGACUCGAAGAUGCUUCGCAGCAUGCGCGAGGAGUCCUUUGUGGUGGAGCGCU
((((((((....))((.((((((..((.......)).((((((((....((((..(..(((......)))..)))))(((((....))))))))))))).)))))).))))))))..... ( -39.60)
>DroSec_CAF1 52542 120 + 1
UCCACCGUCCGGACACCAAGGAUCUGGAACUGCCCGCCUUCGCGCAGAUCUUUCCGGAUCGCUUCAUCGACUCGCAGAUGCUUCGCAGCAUGCGCGAGGAGUCCUUUGUGGUGGAGCGCU
(((((((...((((...((((((((((((((((.((....)).))))....))))))))).)))......(((((..(((((....)))))..)))))..))))....)))))))..... ( -49.10)
>DroSim_CAF1 48482 120 + 1
UCCACCGUCCGGACACCAAGGAUCUGGAACUGCCCGCCUUCGCGCAGAUCUUUCCGGAUCGCUUCAUCGACUCGCAGAUGCUUCGCAGCAUGCGCGAGGAGUCCUUUGUGGUGGAGCGCU
(((((((...((((...((((((((((((((((.((....)).))))....))))))))).)))......(((((..(((((....)))))..)))))..))))....)))))))..... ( -49.10)
>DroEre_CAF1 54611 120 + 1
UCCAUCGAUCGGACACCAAGGACCUGGGUCUGCCCGCCUUCGCGCAGAUCUUCCCGGAUCGGUUCAUCGACUCGCAGAUGCUGCGCACUAUGCGCGAGGAGUCCUUUGUGGUAGAGCGGU
...((((.((...(((.((((((..(((....)))..((((((((((((((...((..((((....))))..)).)))).))))((.....)))))))).)))))).)))...)).)))) ( -48.00)
>DroYak_CAF1 54358 120 + 1
UCCAUCGUCCGGACACCAAGGACCUGGGUCUGCCCACCUUCGCGGAGAUCUUCCCAGAUCACUUCAUCGACUCGCAGAUGAUUCGCAAUAUGCGCGAGGAGUCCUUUGUGGUGGAGCAGA
((((..((((.........)))).))))((((((((((...((((((((((....)))))...(((((........)))))))))).......((((((....))))))))))).))))) ( -44.90)
>consensus
UCCACCGUCCGGACACCAAGGACCUGGAACUGCCCGCCUUCGCGCAGAUCUUCCCGGAUCGCUUCAUCGACUCGCAGAUGCUUCGCAGCAUGCGCGAGGAGUCCUUUGUGGUGGAGCGCU
((((((((....))((.((((((.(((......))).((((((((((((((....)))))....((((........))))..........))))))))).)))))).))))))))..... (-37.56 = -37.44 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:00 2006