Locus 4394

Sequence ID 3R_DroMel_CAF1
Location 11,620,733 – 11,620,850
Length 117
Max. P 0.985013
window7179

overview

Window 9

Location 11,620,733 – 11,620,850
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 73.86
Mean single sequence MFE -54.83
Consensus MFE -38.00
Energy contribution -40.25
Covariance contribution 2.25
Combinations/Pair 1.25
Mean z-score -2.01
Structure conservation index 0.69
SVM decision value 1.99
SVM RNA-class probability 0.985013
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11620733 117 - 27905053
CUGCUGUUGUAGAUGCGGGGAAGCGGUAACUGAGGCCGCUGCCGCU---GAUGAGCGGGUAAUCCGCGUGGUGGCCGUGGCCGGCGUGGGUGUUGCCGGCUUCUUGACCAAGCCAACUGC
((((....))))..((((......((((((...((((((.((((((---(....((((.....)))).))))))).)))))).((....))))))))(((((.......)))))..)))) ( -51.40)
>DroPse_CAF1 5824 107 - 1
CAGCUUUGGCAGCUGCC-----GCUGCUGCUGAGGCGGCCGCCUCCUUGGAGGAGCGCGUCACACGCGUUGUGGCCGUUGCCGGCGUUGGUGUCGCUGGUUUCUUCACAA--CC------
..((((..(((((....-----...)))))..))))(((((((((....))).((((((.....))))))))))))(..(((((((.......)))))))..).......--..------ ( -54.20)
>DroEre_CAF1 13115 117 - 1
CUGUUGUUGUAGUUGCGGGGAAGCGGUCACUGAGGCCGCUGCCGCC---GAAGAGCGGGUAACCCGCGUGGUGGCUGUGGCCGGCGUGGGCGUUGCCGGCUUCUUGACCAAGCCAACUGC
........((((((....((.((((.((((...((((((.((((((---(....(((((...))))).))))))).))))))...)))).)))).))(((((.......))))))))))) ( -59.50)
>DroPer_CAF1 5826 107 - 1
CAGCUUUGGCAGCUGCC-----GCUGCUGCUGAGGCGGCCGCCUCCUUGGAGGAACGCGUCACACGCGUUGUGGCCGUUGCCGGCGUUGGUGUCGCUGGUUUCUUCACCA--CC------
..((((..(((((....-----...)))))..))))(((((((((....))).((((((.....))))))))))))(..(((((((.......)))))))..).......--..------ ( -54.20)
>consensus
CAGCUGUGGCAGCUGCC_____GCGGCUACUGAGGCCGCCGCCGCC___GAGGAGCGCGUAACACGCGUGGUGGCCGUGGCCGGCGUGGGUGUCGCCGGCUUCUUCACCA__CC______
..((((((((((((((......))))))))))))))(((((((((.........(((((...))))))))))))))(..(((((((.......)))))))..)................. (-38.00 = -40.25 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:03 2006