Locus 5505

Sequence ID 3R_DroMel_CAF1
Location 14,479,760 – 14,479,861
Length 101
Max. P 0.500000
window8987

overview

Window 7

Location 14,479,760 – 14,479,861
Length 101
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 82.67
Mean single sequence MFE -44.36
Consensus MFE -26.48
Energy contribution -25.65
Covariance contribution -0.83
Combinations/Pair 1.32
Mean z-score -2.05
Structure conservation index 0.60
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14479760 101 + 27905053
GUA------CUGCUGCUGGCGAAAACUGAGCCAGCCGAGGGAAAGCCUACACUGGCAUUAACCACAAACGUUGUGCUCGACGCG------GCCAGUGGCGGCGGCUGCUUCGA
...------.....((((((.........))))))(((((.(..(((..(((((((............(((((....)))))..------)))))))..)))...).))))). ( -38.84)
>DroSec_CAF1 16616 101 + 1
CUA------CUGCUGCUGGCAAAAACUGAGCCAGCAGAGGGAAAGCCUACACUGGCAUUGACCACGAACGUUGUGCUCGACGCU------GCCAGUGGCGGCGGCUGCUUCGA
...------((.((((((((.........))))))))))((...(((..((((((((((((.(((((...))))).))))...)------)))))))..)))..))....... ( -42.90)
>DroSim_CAF1 9412 101 + 1
CUA------CUGCUGCUGGCGAAAACUGAGCCAGCCGAGGGAAAGCCCACACUGGCAUUAACCACAAACGUUGUGCUCGACGCU------GCCAGUGGCGGCGGCUGCUUGGA
(..------((((..((((((........(((((..(.(((....))).).)))))............(((((....))))).)------)))))..))))..)......... ( -38.50)
>DroEre_CAF1 25631 101 + 1
CUA------CUGCUGCUGGCGAAAACUGACCCCGCCGAGGGAAACCCUGCACUGGCAUUUACCACGAAAGUGGUGCUGGAUGCG------GCCAGUGGCGGCGGCUGCUUCGA
...------((((((((((((...........))))).((....))...(((((((....(((((....)))))((.....)).------))))))))))))))......... ( -45.90)
>DroYak_CAF1 9527 101 + 1
UUA------CUGCUGCUGGCGAAAACUGAUCCCGCCGAGGGAAAACCUGCACUAGCAUUUACCACGAAAGUGGUGCUGGUGGCG------GCCAGUGGCGCCGGCUGCUUCGA
...------..((.(((((((...((((...(((((.(((.....)))..((((((....(((((....)))))))))))))))------).))))..))))))).))..... ( -52.00)
>DroPer_CAF1 11990 113 + 1
CUGUGCGCUGUGCUGCUGGCAAACACGGAGCCCGCUGAGGGGAAGCCCGAAUUGGCAUUCACCACAAAGGUGGUGCUGGAGGCGGUGCCUGCGAGCGUCGCCGGCUGCUUCGA
.(((..(((........)))..)))(((((((((((..(((....)))...(..((((.((((.....))))))))..).))))).(((.(((.....))).))).)))))). ( -48.00)
>consensus
CUA______CUGCUGCUGGCGAAAACUGAGCCAGCCGAGGGAAAGCCUACACUGGCAUUAACCACAAACGUGGUGCUCGACGCG______GCCAGUGGCGGCGGCUGCUUCGA
.........(((((((((((..................(((....)))...(..((((.(((.......)))))))..)...........)))))))))))............ (-26.48 = -25.65 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:52 2006