Locus 1820

Sequence ID X_DroMel_CAF1
Location 5,042,126 – 5,042,225
Length 99
Max. P 0.500000
window2963

overview

Window 3

Location 5,042,126 – 5,042,225
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.33
Mean single sequence MFE -30.38
Consensus MFE -23.54
Energy contribution -23.73
Covariance contribution 0.20
Combinations/Pair 1.19
Mean z-score -1.12
Structure conservation index 0.77
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5042126 99 + 22224390
GGCGGUUGUUGCGAGGCGGAAAGUCCCGACAGUCAAGUCAAUGUCAAAGGACAAGGAGAAGACUGUCAUUUGGCACUUAAUAACU--CAGCGUUGCUA-------------------GCU
((((((...((((((..(..((((((.(((((((...((..((((....))))..))...)))))))....)).))))..)..))--).)))..))).-------------------))) ( -29.60)
>DroPse_CAF1 726 111 + 1
--GCCC--CCGGCGGGCGGAAG-----AGCAGUCAAGUCAAUGUCAAAGGACGAACGGAGGACUGUCAUUUGGCACUUAAUAACUCUCAGCGCUGCUCCCAACCCCACCCCCCCGAUGCU
--((..--(.((.(((.((..(-----((((((.........(((....)))(...((((...((((....))))........))))...))))))))......)).))).)).)..)). ( -28.50)
>DroSec_CAF1 1035 97 + 1
--UGGGUCUUGCGAGGCGGAAAGUCCCGGCAGUCAAGUCAAUGUCAAAGGACAAGGAGGGGACUGUCAUUUGGCACUUAAUAACU--CAGCGUUGCUA-------------------GCU
--..(((..((((((..(..((((((.(((((((...((..((((....))))..))...)))))))....)).))))..)..))--).)))..))).-------------------... ( -29.00)
>DroSim_CAF1 1112 97 + 1
--CGGGUCUUGCGAGGCGGAAAGUCCCGGCAGUCAAGUCAAUGUCAAAGGACAAGGAGGGGACUGUCAUUUGGCACUUAAUAACU--CAGCGUUGCUA-------------------GCU
--..(((..((((((..(..((((((.(((((((...((..((((....))))..))...)))))))....)).))))..)..))--).)))..))).-------------------... ( -29.00)
>DroEre_CAF1 6204 95 + 1
--AGGG--CUGCGAGGCGGAAAGUCCCGACAGUCAAGUCAAUGUCAAAGGACAAGGAGAGGACUGUCAUUUGGCACUUAAUAACU--CAGCGUUGCUA-------------------GCU
--..((--((((((.((((......))(((((((...((..((((....))))..))...)))))))..................--..)).)))).)-------------------))) ( -32.70)
>DroYak_CAF1 6098 95 + 1
--AGGG--UUGCGAUGCGGAAAGUCCCGACAGUCAAGUCUAUGUCAAAGGACAAGGAGAGGACUGUCAUUUGGCACUUAAUAACU--CAGCGUUGCUA-------------------GCU
--..((--(((((((((((......))(((((((...(((.((((....)))).)))...)))))))..................--..))))))).)-------------------))) ( -33.50)
>consensus
__AGGG__UUGCGAGGCGGAAAGUCCCGACAGUCAAGUCAAUGUCAAAGGACAAGGAGAGGACUGUCAUUUGGCACUUAAUAACU__CAGCGUUGCUA___________________GCU
..........((((.((((......))(((((((...((..((((....))))..))...)))))))......................)).))))........................ (-23.54 = -23.73 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:32 2006