Locus 6335

Sequence ID 3L_DroMel_CAF1
Location 16,961,226 – 16,961,338
Length 112
Max. P 0.707931
window10156

overview

Window 6

Location 16,961,226 – 16,961,338
Length 112
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 78.99
Mean single sequence MFE -34.20
Consensus MFE -19.49
Energy contribution -19.27
Covariance contribution -0.22
Combinations/Pair 1.30
Mean z-score -1.86
Structure conservation index 0.57
SVM decision value 0.37
SVM RNA-class probability 0.707931
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16961226 112 - 23771897
CCGGCUUCAUUCCCUCGCUGCUGUUAAGCGUUAGCGAUCAUUACGUCUCAGACAUGGUAUUGCAGGUGGGAAAUUGCUUUGCUAUCUUUGCGAUUGAGCCAAUACUGAUUAU
..(((((.......((((((((....)))...))))).......(((.((((.((((((..((((........))))..)))))).)))).))).)))))............ ( -30.40)
>DroPse_CAF1 293 112 - 1
CGGGUUUCAUUCCCUCGCUGAUGCUGAGCGUCAGCGAUCACUAUGUCUCCGACAUGGUGCUGCAGGUGAGAAAACCUCUUUGAAGGUUACAAAUUGUAACAAUUCUAACCCA
.((((((((.....((((((((((...)))))))))).(((((((((...)))))))))....((((......))))...)))).(((((.....))))).......)))). ( -40.80)
>DroSec_CAF1 292 112 - 1
CCGGCUUCAUUCCCUCGCUGCUGUUAAGCGUCAGCGAUCAUUACGUCUCCGACAUGGUAUUGCAGGUGGGGAAUUACUUCGCGAUCUUUGCGAUUGAGCCAGUACUGAUUAU
..(((((.((((((.(((((((....)))....(((((.((((.(((...))).))))))))).))))))))))....((((((...))))))..)))))............ ( -34.90)
>DroSim_CAF1 292 112 - 1
CCGGCUUUAUUCCCUCGCUGCUGUUAAGCGUCAGCGAUCAUUACGUCUCCGAUAUGGUAUUGCAGGUGGGGAAUUGCUUUGCAAUCUUUGCGAUUGAGCCAAUACUGAUUAU
..(((((.((((((.(((((((....)))....(((((.((((..((...))..))))))))).))))))))))....(((((.....)))))..)))))............ ( -31.80)
>DroEre_CAF1 292 109 - 1
CCGGCUUCAUUCCCUCGCUGCUGUUAAGCGUCAGCGAUCAUUACGUCUCCGACAUGGUAUUGCAGGUGAGAAAUUGACCUGUCAUUUAU---UUUGAGCCAAUUGUGAUUGU
..(((((.....((((((((.((.....)).)))))).......(((...)))..))....((((((((....)).)))))).......---...)))))............ ( -26.50)
>DroPer_CAF1 293 112 - 1
CGGGUUUCAUUCCCUCGCUGAUGCUGAGCGUCAGCGAUCACUAUGUCUCCGACAUGGUGCUGCAGGUGAGAAAACCUCUUUGAAGGUUACAAAUUGUAACAAUUCUAACCCA
.((((((((.....((((((((((...)))))))))).(((((((((...)))))))))....((((......))))...)))).(((((.....))))).......)))). ( -40.80)
>consensus
CCGGCUUCAUUCCCUCGCUGCUGUUAAGCGUCAGCGAUCAUUACGUCUCCGACAUGGUAUUGCAGGUGAGAAAUUGCCUUGCAAUCUUUGCGAUUGAGCCAAUACUGAUUAU
..(((((......(((((((((....)))....(((((.((((.(((...))).))))))))).))))))........((((.......))))..)))))............ (-19.49 = -19.27 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:55 2006