Locus 5941

Sequence ID 2R_DroMel_CAF1
Location 18,743,430 – 18,743,558
Length 128
Max. P 0.549548
window9529 window9530

overview

Window 9

Location 18,743,430 – 18,743,536
Length 106
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 79.45
Mean single sequence MFE -40.12
Consensus MFE -22.05
Energy contribution -22.83
Covariance contribution 0.78
Combinations/Pair 1.38
Mean z-score -1.80
Structure conservation index 0.55
SVM decision value 0.03
SVM RNA-class probability 0.549548
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18743430 106 - 20766785
CUGGCCGGGAUCCGG-------AAUCUGGAACCCAGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGGGACUUGGCUUAGGAUGUCUGCGAUUUGCUGGGCUCGGUAAAUAU
.((((((((.(((((-------...))))).))).(((.(((((.......)))))))))))))......(((.(((((((.(.(((...))).).))))))).)))...... ( -40.50)
>DroSec_CAF1 106159 106 - 1
CUGGCCGGGAUCCGG-------AAUCCGGGAUCCGGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGAGACUUGGCUUAGGAUGUCUGCGAUUUGCUGGGCUCGGUAAAUAU
.(((((((.((((((-------((.((((.(((.((....))))))))))))))))))))))))......(((.(((((((.(.(((...))).).))))))).)))...... ( -44.80)
>DroSim_CAF1 106938 106 - 1
CUGGCCGGGAUCCGG-------AAUCCGGGAUCCGGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGGGACUUGGCUUAGGAUGUCUGCGAUUUGCUGGGCUCGGUAAAUAU
.(((((((.((((((-------((.((((.(((.((....))))))))))))))))))))))))......(((.(((((((.(.(((...))).).))))))).)))...... ( -44.80)
>DroEre_CAF1 108650 113 - 1
CUGGCCGGGAACCGGGAUCUGGGAUCCGGGAUCCGGGAUCCCGAUCCGGUUUAGGGUCCGGUUAAAAGGGACUUGGCUUAGGAUGUCUGCGAUGUGCUGGGCUCGGUAAAUAU
((((((..(((((((.(((.(((((((.(....).)))))))))))))))))..)).)))).........(((.(((((((.(((((...))))).))))))).)))...... ( -52.80)
>DroYak_CAF1 108845 92 - 1
CUGGCCG---------------------GGAUCUGGGCUGCCGAUCCGGUUUAGGGUCCGGUUAAAAGGGACUUGGCUUAGGAUGUCUGCGAUUCGCUGGGCUCGGUAAAUAU
.((((((---------------------((..((((((((......))))))))..))))))))......(((.(((((((((.(((...))))).))))))).)))...... ( -31.60)
>DroAna_CAF1 103020 92 - 1
CUGGAGG---------------------AGAUCUCUGGAGGAGAUCCGGUUCUGGGGUCCGUCGAAAGGGUCCAGGUUUAGGAUGUCUGCGAUUUGUUGUGUUCCGUAAAUAU
..((((.---------------------....))))((((((.((((....((.((..((.......))..)).))....)))).)))((((....))))..)))........ ( -26.20)
>consensus
CUGGCCGGGAUCCGG_______AAUCCGGGAUCCGGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGGGACUUGGCUUAGGAUGUCUGCGAUUUGCUGGGCUCGGUAAAUAU
....(((((..((((..........))))..))))).......((((....((((((((.........))))))))....)))).......((((((((....)))))))).. (-22.05 = -22.83 +   0.78)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,743,467 – 18,743,558
Length 91
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 85.18
Mean single sequence MFE -34.94
Consensus MFE -21.29
Energy contribution -23.20
Covariance contribution 1.91
Combinations/Pair 1.18
Mean z-score -2.03
Structure conservation index 0.61
SVM decision value -0.04
SVM RNA-class probability 0.514358
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18743467 91 - 20766785
CACCUGUUACACUCAUCUUUCUCUGGCCGGGAUCCGG-------AAUCUGGAACCCAGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGGGACUUGG
.............((..(..((.((((((((.(((((-------...))))).))).(((.(((((.......)))))))))))))..))..)..)). ( -32.20)
>DroSec_CAF1 106196 91 - 1
CACCUGUUACACUCAUCUUUUUCUGGCCGGGAUCCGG-------AAUCCGGGAUCCGGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGAGACUUGG
...............(((((((.(((((((.((((((-------((.((((.(((.((....)))))))))))))))))))))))))))))))..... ( -38.20)
>DroSim_CAF1 106975 91 - 1
CACCUGUUACACUCAUCUUUUUCUGGCCGGGAUCCGG-------AAUCCGGGAUCCGGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGGGACUUGG
...............(((((((.(((((((.((((((-------((.((((.(((.((....)))))))))))))))))))))))))))))))..... ( -37.40)
>DroEre_CAF1 108687 97 - 1
CACCUGUUACACUCAGCUU-UUCUGGCCGGGAACCGGGAUCUGGGAUCCGGGAUCCGGGAUCCCGAUCCGGUUUAGGGUCCGGUUAAAAGGGACUUGG
...........((.(((((-((.((((((((((((((.(((.(((((((.(....).))))))))))))))))).....))))))).))))).)).)) ( -42.10)
>DroYak_CAF1 108882 77 - 1
CACCUGUUACACUCAUCUUUUUCUGGCCG---------------------GGAUCUGGGCUGCCGAUCCGGUUUAGGGUCCGGUUAAAAGGGACUUGG
...............(((((((.((((((---------------------((..((((((((......))))))))..)))))))))))))))..... ( -24.80)
>consensus
CACCUGUUACACUCAUCUUUUUCUGGCCGGGAUCCGG_______AAUCCGGGAUCCGGGAUCCCGAUCCGGUUUCGGGUCCGGUUAAAAGGGACUUGG
...............(((((((.((((((((.(((((..........))))).))).(((.(((((.......))))))))))))))))))))..... (-21.29 = -23.20 +   1.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:35 2006