Locus 1171

Sequence ID 2R_DroMel_CAF1
Location 4,645,908 – 4,646,027
Length 119
Max. P 0.543890
window2052

overview

Window 2

Location 4,645,908 – 4,646,027
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.51
Mean single sequence MFE -45.60
Consensus MFE -28.98
Energy contribution -27.52
Covariance contribution -1.46
Combinations/Pair 1.58
Mean z-score -1.60
Structure conservation index 0.64
SVM decision value 0.02
SVM RNA-class probability 0.543890
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4645908 119 + 20766785
-CAUCCUACCGGGUCUGACCGGUGAGUCGCAGGCGGAGUACAUUAAGUGUCUCGUCUUCGCCGCCCAGCAGGCUGGCAUGCGAGUGGUGGUGUUUAAUAACCGCGGACUCGGCGGCAUAG
-.....((((((......)))))).(((((((((((..(((.....)))..))))))..((((((.....))).)))...(((((.(((((........))))).).))))))))).... ( -49.50)
>DroVir_CAF1 985 119 + 1
-UAUAUUGCCAGGUCUGACUGGCGAAUCGCAGGCGGAAUACAUUAAGUGUCUGGUCUUUGCCGCCCAGCAGGCGGGCAUGCGUGUGGUUGUCUUUAAUAAUCGAGGUCUUGGCGGCAUUG
-....(((((((......))))))).....((((.(.((((.....)))).).)))).(((((((..(((.(((....))).)))((((((.....))))))........)))))))... ( -40.10)
>DroGri_CAF1 871 119 + 1
-AAUAUUGCCAGGUCUGACUGGCGAAUCGCAGGCGGAGUAUAUUAAGUGUCUGGUCUUUGCCGCUCAGCAGGCGGCCAUGCGUGUGGUUGUCUUCAAUAAUCGAGGACUUGGCGGCAUUG
-(((.(((((((((((((.(((((((...((((((............))))))...))))))).)).(.((((((((((....)))))))))).).........))))))))))).))). ( -44.30)
>DroWil_CAF1 558 120 + 1
GAAUUUUGCCCGGCCUGACCGGAGAAUCGCAGGCGGAAUAUAUAAAAUGUCUCGUCUUCGCCGCCCAGCAAUCUGGUAUGCGUGUGGUGGUAUUCAAUAAUCGAGGUUUGGGUGGAAUUG
.(((((..((((((((((...(((.((((((((((..((((.....))))..))))).((((((((((....))))...))).)))))))).))).....)).))).)))))..))))). ( -42.00)
>DroMoj_CAF1 1050 119 + 1
-GAUAUUGCCCGGGCUGACGGGCGAAUCGCAGGCAGAGUAUAUUAAAUGCCUGGUGUUUGCUGCCCAGCAGGCGGGCAUGCGUGCUGUUGUCUUCAAUAAUCGAGGUCUGGGCGGCAUCG
-(((.(((((((......)))))))))).((((((............)))))).....((((((((((((.(((....))).))))...(.((((.......)))).).))))))))... ( -51.50)
>DroAna_CAF1 518 119 + 1
-CAUUCUGCCAGGACUCACCGGCGAGUCCCAGGCGGAAUACAUUAAAUGCCUCGUCUUUGCCGCCCAGCAAGCCGGCAUGCGGGUUGUGGUUUUCAACAAUCGUGGUCUCGGUGGCAUUG
-.((((((((.((((((......))))))..))))))))......(((((((((.....(((((...(((.(....).))).((((((........)))))))))))..))).)))))). ( -46.20)
>consensus
_AAUAUUGCCAGGUCUGACCGGCGAAUCGCAGGCGGAAUACAUUAAAUGUCUCGUCUUUGCCGCCCAGCAGGCGGGCAUGCGUGUGGUGGUCUUCAAUAAUCGAGGUCUCGGCGGCAUUG
.....(((((((((((...(((((((....(((((............)))))....)))))))....(.((((((.(((....))).)))))).).........)))))))))))..... (-28.98 = -27.52 +  -1.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:12 2006