Locus 4093

Sequence ID 3L_DroMel_CAF1
Location 11,925,209 – 11,925,329
Length 120
Max. P 0.593388
window6368

overview

Window 8

Location 11,925,209 – 11,925,329
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.06
Mean single sequence MFE -39.82
Consensus MFE -19.46
Energy contribution -21.69
Covariance contribution 2.23
Combinations/Pair 1.34
Mean z-score -1.62
Structure conservation index 0.49
SVM decision value 0.12
SVM RNA-class probability 0.593388
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11925209 120 + 23771897
GAUAAUGGUCAGUGCAAUGGAAAUGGAACGACAUGCACUGAUGGCGAACUUAAGGUGGACCCCACCAAUUGCGCAGGCUACUUGGCUUGCUCGAACGGUAACUGGGUGAGCAAGCAGUGC
.......(((((((((.((............))))))))))).(((.......(((((...))))).....)))..((.(((..(((((((((..(((...)))..)))))))))))))) ( -43.00)
>DroSec_CAF1 6910 120 + 1
GAUAAUGGUCAGUGCAACGGAAAUGGAACGACGUGCACUGAUGGCGAACUUAAGGUGGACCCCACCAACUGCGCAGCCUACUUGGCUUGCUCGAACGGUAACUGGGUGAGCAAGCAGUGC
.......(((((((((.((............))))))))))).((........(((((...))))).(((((...(((.....)))(((((((..(((...)))..)))))))))))))) ( -46.20)
>DroSim_CAF1 7611 120 + 1
GAUGAAGGUCAGUGCAACGGAAAUGGAACGACGUGCACUGAUGGCGAACUUAAGGUGGACCCCACCAACUGCGCAGGCUACUUGGCUUGCUCGAACGGUAACUGGGUGAGCAAGCAAUGC
....((((((((((((.((............))))))))))).(((.......(((((...))))).....)))......))).(((((((((..(((...)))..)))))))))..... ( -44.20)
>DroWil_CAF1 13699 120 + 1
GACAAUGGUGAAUGCAAUGGCAACAACUCAACAUGUAAAGAUGGAACUCUACAGGCAAAUCCUUUGGAUUGUGCUGGUUAUCAGCAAUGUGAGAAUAACGAGUGGAUCAACAAGAGUUGU
............(((....)))(((((((..(((......)))((..(((((.(((((((((...))))).)))).(((((((....)).....)))))..))))))).....))))))) ( -25.50)
>DroYak_CAF1 8329 120 + 1
GACAAUGGACAGUGCAACGGAGGUGGAUCGUCAUGCACUGAUGGUGAUCUUAAAGUGGACGCCACCAAUUGCGCAGGAUACUUGGCUUGCUCGAAUGGCAACUGGGUGAGCAAGCAGUGC
.....(((.(((((((...((.(.....).)).))))))).(((((.(((......)))))))))))...((((((....))..(((((((((...(....)....))))))))).)))) ( -44.10)
>DroAna_CAF1 7522 117 + 1
GACAAUGGCCAGUGCAACGGAAACCAAA---CUUGCACCGAAGGCGACAUUCAGGAGGAUGCCGAAGAUUGCGCUGGAUACGAAGUGUGCUCCAAUGGCAUCUGGGUCAGUCGUAAGUGU
(((..(((((.((((((.(....)....---.)))))).((((....).)))....((((((((..((..(((((........)))))..))...)))))))).))))))))........ ( -35.90)
>consensus
GACAAUGGUCAGUGCAACGGAAAUGGAACGACAUGCACUGAUGGCGAACUUAAGGUGGACCCCACCAAUUGCGCAGGCUACUUGGCUUGCUCGAACGGCAACUGGGUGAGCAAGCAGUGC
.......(((((((((.((............))))))))))).(((........(((.....)))......)))..........(((((((((..(((...)))..)))))))))..... (-19.46 = -21.69 +   2.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:18 2006