Locus 2200

Sequence ID 2L_DroMel_CAF1
Location 5,939,065 – 5,939,162
Length 97
Max. P 0.688458
window3542

overview

Window 2

Location 5,939,065 – 5,939,162
Length 97
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 77.58
Mean single sequence MFE -28.88
Consensus MFE -19.67
Energy contribution -20.30
Covariance contribution 0.63
Combinations/Pair 1.08
Mean z-score -1.66
Structure conservation index 0.68
SVM decision value 0.32
SVM RNA-class probability 0.688458
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5939065 97 + 22407834
UAGACGGAUACAAAUGUAUCCGUGUAUCUGGACAAGCACUUGCA---------------------UCCGUACUCCGCUUGUGCAAGUCGCCGAAUGCUUUAUAAUUGAGUUUUUCACA
((.((((((((....)))))))).)).........(((((((((---------------------(..((.....))..)))))))).)).(((.((((.......))))..)))... ( -28.60)
>DroSec_CAF1 1791 100 + 1
UAGACAGAUACAAAAGUAUCUGUGUAUCUGGACAUGCACUUGAA------------------AUGUCUGAACUCCACUUGUGCAAACCGCCGAAUGCUUUAUAAUUGAGUUUUUCACA
((.((((((((....)))))))).))...((((((.........------------------))))))((((((((.(((.((.....))))).))..........))))))...... ( -22.10)
>DroEre_CAF1 1847 115 + 1
CAGACGGAUACGAUAGUAUCUGUGUAUCUGGACAUGCACCUGCAUCCGUCAGGGGCACUGGAAUGUGUGAACUCCGCUUGUGCAA---GCCGAAUGCUUUAUAAUUGAGUUUUUCACA
(((((((((((....))))))))((..((((..((((....))))...))))..)).)))...((((.((((((...(((((.((---((.....)))))))))..))))))..)))) ( -35.90)
>DroYak_CAF1 1541 115 + 1
UAGACGGAUACACUAGUAUCUGUGUAUCUGGACAUGCACUUGCAUCCGUUUGUGGCACUAGAAUGUAUGUACUCUGCUUAUGCAA---GCCGAAUGCUUUGUAAUUGAGUUUUUCACA
(((((((((((((........))))))))(((..(((....))))))))))).(((((......))........(((....))).---)))(((.((((.......))))..)))... ( -28.90)
>consensus
UAGACGGAUACAAAAGUAUCUGUGUAUCUGGACAUGCACUUGCA__________________AUGUCUGAACUCCGCUUGUGCAA___GCCGAAUGCUUUAUAAUUGAGUUUUUCACA
((.((((((((....)))))))).))...((...(((((..((................................))..))))).....))(((.((((.......))))..)))... (-19.67 = -20.30 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:00 2006