Locus 10143

Sequence ID 3R_DroMel_CAF1
Location 27,228,331 – 27,228,438
Length 107
Max. P 0.526650
window16144

overview

Window 4

Location 27,228,331 – 27,228,438
Length 107
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 81.60
Mean single sequence MFE -29.30
Consensus MFE -18.79
Energy contribution -19.63
Covariance contribution 0.84
Combinations/Pair 1.38
Mean z-score -1.55
Structure conservation index 0.64
SVM decision value -0.01
SVM RNA-class probability 0.526650
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27228331 107 - 27905053
AAGGCCACCGAUGCCAAAUCUAAUAUUCUGGACAUCAUGAGUGAGGCUAUUAGGGAACCUCGGUGAGU---ACACGUCACUUAAGGGAACUACAUGGUUUUAAAUGCUAA
..(((....(((((((............))).)))).....((((((((((((....(((.((((((.---...).)))))..)))...))).)))))))))...))).. ( -24.00)
>DroPse_CAF1 6311 104 - 1
AAAGCCACCGAUGCCAAGUCCAAAAUACUGGACAUCAUGGCCGAGGCCAUUCGAGAGCCACGGUGAGUGCCAAACGAUGCCCUAAGGAUCCUCCU------GAAUGCUCA
...(((((((..(((..(((((......)))))...(((((....)))))....).))..))))).)).......((.((....(((.....)))------....)))). ( -30.90)
>DroSec_CAF1 6501 107 - 1
AAGGCCACCGAUGCCAAAUCUAAGAUUCUGGACAUCAUGAGUGAGGCUAUUAGGGAACCUAGGUGAGU---AAACGUCACUUAAGGAACCUACAUGGCUUCAAUUGCUAA
..(((....(((((((((((...)))).))).)))).....(((((((((((((...((((((((((.---...).)))))).)))..)))).)))))))))...))).. ( -35.40)
>DroSim_CAF1 6592 107 - 1
AAGGCCACCGAUGCCAAAUCUAAGAUUCUGGACAUCAUGAGUGAGGCUAUUAGGGAACCUCGGUGAGU---AAACGUCACUUAAGGGAACUACAUGGCUUCAAUUGCUAA
..(((....(((((((((((...)))).))).)))).....((((((((((((....(((.((((((.---...).)))))..)))...))).)))))))))...))).. ( -30.70)
>DroEre_CAF1 6450 107 - 1
AAAGCCACCGAUGCCAAAUCCAAAAUUCUGGACAUCAUGAGUGAGGCUAUUAGGGAACCUCGGUGAGU---AAACGUCACUCAAAGGAACCACGUGGUCUCAAUUGCUAA
..(((....(((((((............))).)))).....(((((((((...((..(((...(((((---.......))))).)))..))..)))))))))...))).. ( -29.70)
>DroYak_CAF1 6559 103 - 1
AAGGCCACCGACGCCAAAUCCAAGAUUCUGGACAUCAUGAGCGAGGCCAUAAGGGAACCUCGGUGAGU---GGACUUCACCCAA----ACUACAUGGUUUCAUUUGCUAA
..((((.....(((((..((((......)))).....)).))).)))).....((((((...(((..(---((.......))).----..)))..))))))......... ( -25.10)
>consensus
AAGGCCACCGAUGCCAAAUCCAAGAUUCUGGACAUCAUGAGUGAGGCUAUUAGGGAACCUCGGUGAGU___AAACGUCACUCAAGGGAACUACAUGGUUUCAAUUGCUAA
..(((....((((((((((.....))).))).)))).....(((((((((..((...(((.(((((((.....)).)))))...)))..))..)))))))))...))).. (-18.79 = -19.63 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:49 2006