Locus 4768

Sequence ID 3R_DroMel_CAF1
Location 12,498,047 – 12,498,145
Length 98
Max. P 0.548613
window7820

overview

Window 0

Location 12,498,047 – 12,498,145
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.61
Mean single sequence MFE -34.00
Consensus MFE -16.89
Energy contribution -18.58
Covariance contribution 1.69
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.50
SVM decision value 0.03
SVM RNA-class probability 0.548613
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12498047 98 + 27905053
C-----------------GCCAG-----UGGGUGGGUUUUUCGGGCCUGGCACACAGGCCAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
(-----------------((((.-----..(((.(((..(((.((((((.....))))))..))).....))).)))....((((.((((((.((....)).)))))))))))))))... ( -35.10)
>DroPse_CAF1 20779 90 + 1
GAG---------------------------GGUGGAUUCUU-GGGCCUGGCA--CGGCCCAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
...---------------------------(((((((((((-(((((.....--.))))))))))))..)))).(((((...(((.((((((.((....)).)))))))))))))).... ( -35.60)
>DroGri_CAF1 70775 104 + 1
GAGGGUGGGUGUUGGGAGG----------GGAUGGGC----AUAGCCUGGC--AGAGCACAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
..((((..(((((.(....----------...).)))----)).))))..(--((((((((....((((..((((..(((((.....))))).))).)..)))).)))))))))...... ( -24.60)
>DroMoj_CAF1 45263 107 + 1
-----UGGGGGUUGGUAGGCGGG-----UGGGUGGGUUUUUUUGGCCU-GC--AGAGCACAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
-----....(((((((((.(..(-----((.(..((((.....)))).-.)--....)))..).....)))))))))....((((.((((((.((....)).))))))))))........ ( -30.40)
>DroAna_CAF1 18782 97 + 1
G-----------------GCGAA-----GGGGUGGGUUUUU-GGGCCUGGAACACAGGCCAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
.-----------------((...-----..(((((..((((-.((((((.....)))))).))))...))))).(((((...(((.((((((.((....)).)))))))))))))))).. ( -32.80)
>DroPer_CAF1 21485 113 + 1
GAG---GGGCACUGCGU-GGCAGUGGCGGGGGUGGGUUCUU-GGGCCUGGCA--CGGCCCAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
...---.(.((((((..-.)))))).)((..((((.(((((-(((((.....--.))))))))))))))..)).(((((...(((.((((((.((....)).)))))))))))))).... ( -45.50)
>consensus
G_________________GC_AG______GGGUGGGUUUUU_GGGCCUGGCA_ACAGCCCAAGAAUUAUUACCGACCAAAUAAGCGAUAUUUCUCGAGGGAUGAAUGUGCUUUGGUGCGU
..............................(((((((((((.((((..........)))))))))))..)))).(((((...(((.((((((.((....)).)))))))))))))).... (-16.89 = -18.58 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:23 2006