Locus 8157

Sequence ID 3L_DroMel_CAF1
Location 21,503,788 – 21,503,908
Length 120
Max. P 0.821704
window13325

overview

Window 5

Location 21,503,788 – 21,503,908
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -30.60
Consensus MFE -21.75
Energy contribution -23.75
Covariance contribution 2.00
Combinations/Pair 1.22
Mean z-score -1.96
Structure conservation index 0.71
SVM decision value 0.68
SVM RNA-class probability 0.821704
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21503788 120 + 23771897
CUGUUUCAGGACUUCUCCAAGAUGAAUCCUCAAGAGCUUUUGCUCAACACAAUGUCCUCCGUGUGUGACGAAGACCUGAUCAACAGCUUCAACAGUCUAAAGCAAAUGCGCACAGAACAG
((((((.(((((..........(((....))).((((....))))........)))))..((((((...((((..(((.....)))))))....((.....))....)))))).)))))) ( -28.40)
>DroSec_CAF1 9225 120 + 1
CUGUUUCAGGACUUCUCCAAGAUGAAUCCUCAAGAACUUUUGCUCAACACAAUGUCCUCCGUGUGUGACGAUGAGCUGACCAACAGCUUCAAUCGUCUAAAGCAAAUGCGCACAGAACAG
((((((.((((.(((........)))))))...(..(.((((((..(((((.((.....)))))))((((((((((((.....))))))..))))))...)))))).)..)...)))))) ( -32.10)
>DroSim_CAF1 9094 120 + 1
CUGUUUCAGGACUUCUCCAAGAUGAAUCCUCAAGAGCUUUUGCUCAACACAAUGUCCUCCGUGUGUGACGAUGAGCUGACUAACAGCUUCAAUCGUCUAAAGCAAAUGCGCACAGAACAG
((((((.(((((..........(((....))).((((....))))........)))))...(((((((((((((((((.....))))))..))))))....((....))))))))))))) ( -37.80)
>DroAna_CAF1 8684 118 + 1
--AUUGCAGGACUUUUCGAAAAUGAAUCCCCAAGAACUGCUGCUUAACACCAUGUCUUCUGUGUGCGAUGACGAACUCACCAAAAGUUUUAAUUUAUUAAAACAGAUGCGCACAAAGCAC
--...((((..(((...((.......))...)))..))))(((((.((.....))....((((((((.(((.....))).)....(((((((....)))))))....)))))))))))). ( -24.10)
>consensus
CUGUUUCAGGACUUCUCCAAGAUGAAUCCUCAAGAACUUUUGCUCAACACAAUGUCCUCCGUGUGUGACGAUGAGCUGACCAACAGCUUCAAUCGUCUAAAGCAAAUGCGCACAGAACAG
((((((.((((((((........))).......((((....))))........)))))..((((((((((((((((((.....))))))..))))))..........)))))).)))))) (-21.75 = -23.75 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:49 2006