Locus 1323

Sequence ID 3L_DroMel_CAF1
Location 3,847,656 – 3,847,752
Length 96
Max. P 0.914463
window2066

overview

Window 6

Location 3,847,656 – 3,847,752
Length 96
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 90.18
Mean single sequence MFE -29.10
Consensus MFE -25.22
Energy contribution -25.82
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.87
SVM decision value 1.10
SVM RNA-class probability 0.914463
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3847656 96 + 23771897
--------CGUCGAGGAGGUCCC----AGCCAGGUCCGACAAAGGGAGCCCGCUCCUUUCAACACUUUUGAAAACUCUCGACC-AUUCGAAGACCAACCUCAUCGAAUC
--------.(((((((.((.((.----.....)).))....(((((((....)))))))................))))))).-((((((.((......)).)))))). ( -28.00)
>DroSec_CAF1 47154 101 + 1
--------CGUCGAGGAGGUCCCGCCUGGCCAGGUCCGACAAAGGGAGCCCGCUCCUUUCAACACUUUGGAACACUCUCGACCGAUGCGAAGACCAACCUCAUCGAAUC
--------.(((((((..((.((((((....))))......(((((((....))))))).........)).))..)))))))(((((.(.........).))))).... ( -30.70)
>DroSim_CAF1 47631 101 + 1
--------CGUCGAGGAGGUCCCGCCUGGCCAGGUCCGACAAAGGGAGCCCGCUCCUUUCAACACUUUGGAACACUCUCGACCGAUGCGAAGACCAACCUCAUCGAAUC
--------.(((((((..((.((((((....))))......(((((((....))))))).........)).))..)))))))(((((.(.........).))))).... ( -30.70)
>DroEre_CAF1 47913 100 + 1
----CAACCGUCGAGGAGGUCCC----GGCCAGAUCCGACAAAGGGAGCCCGCUCCUUUCAACACUUUUGAACACUUUCGACC-AUUCGAAGACCAACCUCAUCGAAUC
----....((..((((.((((..----(..((((.......(((((((....))))))).......))))..)...(((((..-..)))))))))..))))..)).... ( -28.04)
>DroYak_CAF1 48775 104 + 1
CAUCCAACCGUCGAGGAGGUCCC----GGCCAGAUCCGACAAAGGGAGCCCGCUCCUUUCAACACUUUUGAACACUUUCGACC-AUUCGAAGACCAACCUCAUCGAAUC
........((..((((.((((..----(..((((.......(((((((....))))))).......))))..)...(((((..-..)))))))))..))))..)).... ( -28.04)
>consensus
________CGUCGAGGAGGUCCC____GGCCAGGUCCGACAAAGGGAGCCCGCUCCUUUCAACACUUUUGAACACUCUCGACC_AUUCGAAGACCAACCUCAUCGAAUC
........((..((((.((((......)))).((((.....(((((((....)))))))..................(((.......))).))))..))))..)).... (-25.22 = -25.82 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:46 2006