Locus 4008

Sequence ID 3L_DroMel_CAF1
Location 11,702,444 – 11,702,564
Length 120
Max. P 0.971719
window6244

overview

Window 4

Location 11,702,444 – 11,702,564
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.88
Mean single sequence MFE -41.98
Consensus MFE -29.25
Energy contribution -33.45
Covariance contribution 4.20
Combinations/Pair 1.13
Mean z-score -2.64
Structure conservation index 0.70
SVM decision value 1.68
SVM RNA-class probability 0.971719
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11702444 120 - 23771897
GGAAGCACUGGCCCACAAACUGGUGUGACACCUUCACAAUCCAGUUAUCCGGGUCAGAGGUCACGGCCUGCAGAAAAGCAAUGGCGAAUUCCCUGGCCACUGUCUACAUUCCACAUUACG
((((((.(((((((...(((((((((((.....)))))..))))))....)))))))((((....))))))......(((.((((.(......).)))).))).....))))........ ( -42.70)
>DroSec_CAF1 15828 120 - 1
GGAAGCACUGGCCCACAAACUGGUGUGACACCUUCACAAUCCAGUUAUCUGGGUCAGAGGUCACGGCCUGCAGAAAGGCAAUGGCGAAUUCCCUGGCCACUGUCUAUAUUCCACAUUUAG
((((((.((((((((..(((((((((((.....)))))..))))))...))))))))((((....))))))....(((((.((((.(......).)))).)))))...))))........ ( -48.70)
>DroSim_CAF1 11287 120 - 1
GGAAGCACUGGCCCACAAACUGGUGUGACACCUUCACAAUCCAGUUAUCUGGGUCAGAGGUUACGGCCUGCAGAAAGGCAAUGGCGAAUUCCCUGGCCACUGUCUAUAUUCCACAUUUAG
((((((.((((((((..(((((((((((.....)))))..))))))...))))))))((((....))))))....(((((.((((.(......).)))).)))))...))))........ ( -47.60)
>DroEre_CAF1 11661 119 - 1
GGAAGCACUGGCCCACAAACUGGUGGGACACCUUCACAAUCCAGUUAUCCGGGUCAGAGGUCACGGCCUGCAGAAAGGCAAUGGCGAAUUCUCUGGCCACUGUCUGGAUACCACUU-UAG
.((((...((.(((((......))))).)).))))...((((((.......((((((((((((..((((......))))..)))).....)))))))).....)))))).......-... ( -44.00)
>DroYak_CAF1 11747 119 - 1
GGAAGCACUGGCCCACAAACUGGUGUGACACCUUCGCAAUCCAGUUAUCCGGGUCAGAGGUCACGGCCUGCAGAAAGGCAAUGGCGAAUUCGUUGGCCACCGUCUGAAUUCCACGU-UAG
((((((.(((((((...(((((((((((.....)))))..))))))....)))))))((((....))))))....((((..((((.((....)).))))..))))...))))....-... ( -44.80)
>DroMoj_CAF1 16124 99 - 1
UGAAGCAUUGACCGACAAAGUUAUGCGACACUUCGUUUAGCCAAUUUUUUGGAUCGUUGGCAACAGCCUGCAUGAACGCGAACAUGUACUCCG---------------------AUGUGG
....((((((....(((..(((.((((....(((((.(((((((....))))...((((....))))))).)))))))))))).)))....))---------------------)))).. ( -24.10)
>consensus
GGAAGCACUGGCCCACAAACUGGUGUGACACCUUCACAAUCCAGUUAUCCGGGUCAGAGGUCACGGCCUGCAGAAAGGCAAUGGCGAAUUCCCUGGCCACUGUCUAUAUUCCACAUUUAG
((((((.(((((((...(((((((((((.....)))))..))))))....)))))))((((....))))))....(((((.((((.(......).)))).)))))...))))........ (-29.25 = -33.45 +   4.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:17 2006