Locus 2469

Sequence ID 3L_DroMel_CAF1
Location 6,972,675 – 6,972,778
Length 103
Max. P 0.774319
window3810

overview

Window 0

Location 6,972,675 – 6,972,778
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.54
Mean single sequence MFE -37.97
Consensus MFE -26.38
Energy contribution -26.66
Covariance contribution 0.28
Combinations/Pair 1.14
Mean z-score -1.91
Structure conservation index 0.69
SVM decision value 0.54
SVM RNA-class probability 0.774319
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6972675 103 - 23771897
--------------AGCUGGCAGCCGGCAGAGCAGCUGGCAGCGCAGUCGGCAGCGGGAGAAUGCC---GAAAUCAAAAUGCUACCGUUUGCCGUCUAUGGUAAAUACAUUUUGGCAGAU
--------------.((((.((((..((...)).)))).))))((..((((((.(....)..))))---))...(((((((.....((((((((....)))))))).))))))))).... ( -38.30)
>DroSec_CAF1 42668 106 - 1
--------------AGCAGUCAGCCGGCAGAGCAGCUGGCAGCGCAGUCGGCAGCGGGAGAAUGCCGACGAAAUCAAAAUGCUACCGUUUGCCGUCUAUGGUAAAUACAUUUUGGCAGAU
--------------((((....((((((......))))))......(((((((.(....)..)))))))..........))))...((((((((...(((.......)))..)))))))) ( -39.40)
>DroSim_CAF1 42374 106 - 1
--------------AGCAGUCAGCCGGCAGAGCAGCUGGCAGCGCAGUCGGCAGCGGGAGAAUGCCGACGAAAUCAAAAUGCUACCGUUUGCCGUCUAUGGUAAAUACAUUUUGGCAGAU
--------------((((....((((((......))))))......(((((((.(....)..)))))))..........))))...((((((((...(((.......)))..)))))))) ( -39.40)
>DroEre_CAF1 42573 114 - 1
---GCGUGUGUGAGAGCAGGCAGCCGGCAGAGCAGUCGGCAGCGCGGUUGGCAGCGGGAGAAUGCC---AAAAUCAAAGUGCUACCGUUUUCCGCCUAUGGUAAAUACAUUUUGGCAGAU
---((((.(((....))).)).((((((......)))))).))((..((((((.(....)..))))---))...(((((((.((((((.........))))))....))))))))).... ( -40.50)
>DroYak_CAF1 43828 105 - 1
UGUGUGUGUGUGAGAGCAGGCAGCCGGCAGAGCAGUCGGC------------AGCGGGAGAAUGUC---AAAAUCAAAAUGCUACCGUUUUCCGCCUAUGGUAAAUACAUUUUGGCAGAU
.((.(((.(((....))).)))((((((......))))))------------.)).((((((((..---................))))))))(((.(((.......)))...))).... ( -32.27)
>consensus
______________AGCAGGCAGCCGGCAGAGCAGCUGGCAGCGCAGUCGGCAGCGGGAGAAUGCC___GAAAUCAAAAUGCUACCGUUUGCCGUCUAUGGUAAAUACAUUUUGGCAGAU
...............((.((((((((((......))))))..(((........)))......))))........(((((((.((((((.........))))))....))))))))).... (-26.38 = -26.66 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:05 2006