Locus 4008

Sequence ID 3R_DroMel_CAF1
Location 10,920,723 – 10,920,874
Length 151
Max. P 0.571561
window6424 window6425

overview

Window 4

Location 10,920,723 – 10,920,819
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -31.97
Consensus MFE -27.39
Energy contribution -27.40
Covariance contribution 0.01
Combinations/Pair 1.09
Mean z-score -1.84
Structure conservation index 0.86
SVM decision value 0.05
SVM RNA-class probability 0.560765
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10920723 96 + 27905053
UGUCGCCUUUGCUUUGCUUCUUUCUUCGCCUUCGUCAAGAGAAAGAGAGGGCACGAGCGAGAGAGUGAAAGAGAGCGGCGAGAUUCAGAUUCUUGA
.(((((((((..((..((.((((((((((((((.((........))))))))..))).)))))))..)))))).)))))((((.......)))).. ( -31.50)
>DroSec_CAF1 191245 96 + 1
UGUCGCCUUUGCUUUGCUUCUUUCUUCGCCUUCGUCAAGAGAAAGAGAGGGCACGAGCGAGAGAGUGAAAGAGAGCGGCGAGAUUCAGAUUCUUGA
.(((((((((..((..((.((((((((((((((.((........))))))))..))).)))))))..)))))).)))))((((.......)))).. ( -31.50)
>DroEre_CAF1 190754 90 + 1
UGUUGCUUUUGCUUUGCUUCUUUCUUCGCCUUCGUCAAGAGAAAGAGAGGGCAAGCGCGAGCGAGUGAAGGAGAGCGGCGAGA------UUCUUGA
.(((((((((.(((..(((........((((((.((........))))))))..((....)))))..))))))))))))....------....... ( -32.90)
>consensus
UGUCGCCUUUGCUUUGCUUCUUUCUUCGCCUUCGUCAAGAGAAAGAGAGGGCACGAGCGAGAGAGUGAAAGAGAGCGGCGAGAUUCAGAUUCUUGA
.(((((((((..((..((.((((((((((((((.((........))))))))..))).)))))))..)))))).)))))((((.......)))).. (-27.39 = -27.40 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,920,779 – 10,920,874
Length 95
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 81.41
Mean single sequence MFE -28.00
Consensus MFE -19.35
Energy contribution -19.47
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value 0.08
SVM RNA-class probability 0.571561
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10920779 95 + 27905053
GCGAGAGAGUGAAAGAGAGCGGCGAGAUUCAGAUUCUUGAGGAUGCUGUU------------GCUGCCUUUUUUGCCUAGCAAUUUAU-UUGUUGUUUGGUUUUUCAA
..(((((((..((((((.(((((((....(((((((....)))).)))))------------)))))))))))..)(.((((((....-..)))))).).)))))).. ( -29.40)
>DroSec_CAF1 191301 96 + 1
GCGAGAGAGUGAAAGAGAGCGGCGAGAUUCAGAUUCUUGAGGAUGCUGUU------------GCUGCCUUUUUUGCCUAGCAAUUUAUUUUGUUGUGUGGUUUUUCGA
.((((((((..((((((.(((((((....(((((((....)))).)))))------------)))))))))))..).((((((......)))))).....))))))). ( -30.70)
>DroEre_CAF1 190810 98 + 1
GCGAGCGAGUGAAGGAGAGCGGCGAGA------UUCUUGAGGAUGCUGUUGCUGUUGUUGUUGCUGCCUUUUUUCCCUAGCAAUUUAUUUUGAUGUGUGGU----CGA
((.((.(((.(((((..((((((((.(------(((....))))((....)).....)))))))).))))).))).)).))........(((((.....))----))) ( -23.90)
>consensus
GCGAGAGAGUGAAAGAGAGCGGCGAGAUUCAGAUUCUUGAGGAUGCUGUU____________GCUGCCUUUUUUGCCUAGCAAUUUAUUUUGUUGUGUGGUUUUUCGA
((...((.(..((((((.(((((((((.......)))).((....))...............)))))))))))..))).))........................... (-19.35 = -19.47 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:45 2006