Locus 660

Sequence ID 2R_DroMel_CAF1
Location 3,285,204 – 3,285,324
Length 120
Max. P 0.854642
window1169

overview

Window 9

Location 3,285,204 – 3,285,324
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.74
Mean single sequence MFE -30.50
Consensus MFE -13.72
Energy contribution -14.72
Covariance contribution 1.00
Combinations/Pair 1.08
Mean z-score -1.98
Structure conservation index 0.45
SVM decision value 0.80
SVM RNA-class probability 0.854642
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3285204 120 + 20766785
GACAUCGAAUGAGUUUCUAACGAUCGACUGGACGGAUGGACAUCCCUGUGGGUUCAACCAACUUUCGGUCAAAUCAAGUGCACUCACUACUGCACCGCUUGUUCCAGAGAUUCAUUGAUG
..((((.((((((((((((((((.((((((((.((((....))))...(((......)))...))))))).......(((((........))))).).)))))..))))))))))))))) ( -37.90)
>DroSec_CAF1 53725 105 + 1
GACAUCAAAUGAGUUUCUAACGAGCGACUGG----ACGGACAUCCCGGCGGGUUCAACCAACUUUCGGUCAAAUCAAGUACACUCAC-----------UUGUUCCAGAGAUUCAUUGAUG
..((((((.(((((((((...((((((((((----((((.....)))..((......))....))))))).....((((......))-----------)))))).))))))))))))))) ( -33.30)
>DroSim_CAF1 64167 108 + 1
GACAUCGAAUGAGUUUCUAACGAGCGACUGGA-GGACGGACAUCCCCGCGGGUUCAACCAACUUUCGGUCAAAUCAAGUGCACUCAC-----------UUGCUCCAGAGAUUCAUUGAUG
..((((.(((((((((((...(((((((((((-((.(((......))).((......))..))))))))).....(((((....)))-----------)))))).))))))))))))))) ( -41.20)
>DroEre_CAF1 52882 93 + 1
GACAUAAAAUGAGCUUAUAC-GAUCG-----------------------GGGUUCAAUCAACUUUCGGUCAAAUCAAGUGCACCCAC---UGCAUUGCUUGUUGCAGCGAUUCAUUGAUG
.......((..(((......-(((((-----------------------(((((.....))).)))))))......((((((.....---)))))))))..))................. ( -18.30)
>DroYak_CAF1 52889 93 + 1
GACAUCACAUGAGUAUAUAAAGAUCG------------------------GGUUCAACCAACUUUCGGUCAAAUCAAGUGCAGCCAC---UGCAUUACUUGUUCCAGAGAUUCAUUGAUG
..(((((.((((((...........(------------------------(......))..((((.((.(((....(((((((...)---))))))..)))..))))))))))))))))) ( -21.80)
>consensus
GACAUCAAAUGAGUUUCUAACGAUCGACUGG____A_GGACAUCCC_G_GGGUUCAACCAACUUUCGGUCAAAUCAAGUGCACUCAC___UGCA___CUUGUUCCAGAGAUUCAUUGAUG
..(((((.((((((((((................................((((..(((.......)))..))))..(((....)))..................))))))))))))))) (-13.72 = -14.72 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:56 2006