Locus 2559

Sequence ID 2R_DroMel_CAF1
Location 9,075,810 – 9,075,920
Length 110
Max. P 0.523636
window4214

overview

Window 4

Location 9,075,810 – 9,075,920
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.47
Mean single sequence MFE -31.58
Consensus MFE -22.18
Energy contribution -22.54
Covariance contribution 0.36
Combinations/Pair 1.11
Mean z-score -1.69
Structure conservation index 0.70
SVM decision value -0.02
SVM RNA-class probability 0.523636
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9075810 110 + 20766785
UAAAAAACACACCCAAAUCUCAAGUGGAAAAUGA-------AAACCCGGAGAAGACCAGCUGUGGGAGUGAGUAGGCAAG---CCCUUUGCCCUUUCCCACUUUCAGCUAGAGCAAGUGA
.......(((...........((((((.......-------...((((.((........)).))))...(((..((((((---...))))))..)))))))))...((....))..))). ( -26.80)
>DroSec_CAF1 40769 109 + 1
UAAAAACCACACCCAAAUCUCAAGUGGAAAGUAA-------AAAC-CGCAGAAGACCAGCUGCAGGAGCGAGUAGGCAAG---CCCUUCGCCCUUUCCCACUUUCAGCUGGAGCAAGUGA
.........(((......(((.(((.((((((..-------....-.((((........))))(((.(((((..((....---)).)))))))).....)))))).))).)))...))). ( -29.00)
>DroSim_CAF1 42565 108 + 1
-AAGAACCACACCCAAAUCUCAAGUGGAAAGUAA-------AAAC-CGCAGAAGACCAGCUGUGGGAGCGAGUAGGCAAG---CCCUUCGCCCUUUCCCACUUUCAGCUGGAGCAAGUGA
-......(((.......(((...((((.......-------...)-)))...)))(((((((((((((((((..((....---)).)))))....))))))....)))))).....))). ( -32.20)
>DroEre_CAF1 48105 108 + 1
UAAAAACCACGCCCAAAUCUCAAGUGGAAAGUGA-------AAAC-CAGAGAAGACCAGCUGUGGGAGCGAGUAGGCAAG---CCCUUUGCCCUUUC-CACUUUCAGCUAGAGCGAGCGA
.........(((.(....(((.(((.(((((((.-------...(-((.((........)).)))....(((..((((((---...))))))..)))-))))))).))).))).).))). ( -30.90)
>DroYak_CAF1 43815 118 + 1
UGUAAACCACACCCAAAUCUCAAGUGGAAAGUGAAAAAUGAAAAG-CAGAGAAGACCAGCUGUGGGAGCGGGUAGGCAAGUGGCCCUUUGCCCUUUC-CACUUUCCGCUAGAGCGAGUGA
.........(((.(....(((.(((((((((((......((((.(-(((((...(((.(((.....))).))).(((.....)))))))))..))))-))))))))))).))).).))). ( -39.00)
>consensus
UAAAAACCACACCCAAAUCUCAAGUGGAAAGUGA_______AAAC_CGGAGAAGACCAGCUGUGGGAGCGAGUAGGCAAG___CCCUUUGCCCUUUCCCACUUUCAGCUAGAGCAAGUGA
.........(((......(((.(((.(((((((.........................(((.....)))(((..((((((......))))))..))).))))))).))).)))...))). (-22.18 = -22.54 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:03 2006