Locus 3946

Sequence ID 2R_DroMel_CAF1
Location 13,022,417 – 13,022,513
Length 96
Max. P 0.669489
window6372

overview

Window 2

Location 13,022,417 – 13,022,513
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 84.65
Mean single sequence MFE -39.47
Consensus MFE -29.72
Energy contribution -32.17
Covariance contribution 2.45
Combinations/Pair 1.11
Mean z-score -2.24
Structure conservation index 0.75
SVM decision value 0.29
SVM RNA-class probability 0.669489
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13022417 96 - 20766785
AGCUUAAAGGACAUAAACGAGGGUUGCUGCUGGGAGCUGGAAUCAUCGAUCAGUCGGUGGCCAACGGCUGGCGAAGAUUUGGCCUUGGCAGCGGUG
(((((...(........)..)))))(((((..((.((..((.((.(((.(((((((........)))))))))).))))..))))..))))).... ( -37.80)
>DroSec_CAF1 1944 96 - 1
AGCUUGAAGGACAUAAAGGAGGGCUGCUGCUGGGAGCUGGAGUCAUCGAUCAGUCGGUGGCCAACGGCUGGCGAAGAUUUGGCCUUGGCAGCGGUA
......................((((((((..((.((..((.((.(((.(((((((........)))))))))).))))..))))..)))))))). ( -41.90)
>DroSim_CAF1 1940 96 - 1
AGCUUGAAGGACAUAAAGGAGGGCUGCUGCUGGGAGCUGGAGUCAUCGAUCAGUCGGUGGCCAACGGCUGGCGAAGAUUUGGCCUUGGCAGCGGUG
......................((((((((..((.((..((.((.(((.(((((((........)))))))))).))))..))))..)))))))). ( -41.90)
>DroEre_CAF1 1890 96 - 1
AGCUUGAAGGACAUGAAGGAUGGCUGCUGCUGGGAGCUGGAAUCGUCGAUCAGUCGGUGGCCCACGGCUGGCGAGGAUUUGGCCUUGGCAGCGGUA
...........(((.....)))((((((((..((.((..((.((.(((.(((((((........)))))))))).))))..))))..)))))))). ( -44.10)
>DroYak_CAF1 1914 96 - 1
AGCUUGAAGGACAUAAAGGAUGGCUGCUGCUGCGAGCUGGAAUCAUCGAGCAGACGGUGGCCCACGGCCGGCGAGGAUUUGGCCUUGGCAGCGGUG
.....................(((..(((((((..(.((....)).)..)))).)))..)))(((.((.(.(((((......))))).).)).))) ( -35.00)
>DroPer_CAF1 2214 87 - 1
AGCUUGAAGGAGUGGAACGACGGC---------GAGCUGGCCUCCUCUGCCAGGCGCUGGGCAAUCGCUGGCGACGACUUGGCCUUGGCGGCCGUG
((((((..(..(.....)..)..)---------)))))((((.((...(((((((((..(.......)..)))....))))))...)).))))... ( -36.10)
>consensus
AGCUUGAAGGACAUAAAGGAGGGCUGCUGCUGGGAGCUGGAAUCAUCGAUCAGUCGGUGGCCAACGGCUGGCGAAGAUUUGGCCUUGGCAGCGGUG
......................((((((((((((.((..((.((.(((.(((((((........)))))))))).))))..)))))))))))))). (-29.72 = -32.17 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:00 2006