Locus 3791

Sequence ID X_DroMel_CAF1
Location 10,030,688 – 10,030,799
Length 111
Max. P 0.867019
window6227 window6228

overview

Window 7

Location 10,030,688 – 10,030,799
Length 111
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 84.13
Mean single sequence MFE -31.10
Consensus MFE -20.55
Energy contribution -20.11
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -2.66
Structure conservation index 0.66
SVM decision value 0.85
SVM RNA-class probability 0.867019
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10030688 111 + 22224390
GAGAGGCCUAGAAAUGGCAACAUUUGGCCUGGUCAAAUUAUUAACUUGCCGGGAAUCCGCCCAUCAGGUGUGGACAAUGGCCAAAAAAAAUGAUAUAUAUAUUAUAUAC-AU
....((((...(((((....)))))..(((((.(((.........))))))))..(((((((....)).)))))....)))).......((((((((.....))))).)-)) ( -31.60)
>DroSim_CAF1 6869 108 + 1
GAGAGGCCUAGAAAUGGCAACAUCUGGCCUGGUCAAAUUAUUAACUUGACUGGAAUGCGC-CACCAGGUGUGGACAAUGGCCAAAAA--AUAAUAUAUAUGU-AUAUAUAGU
...(((((.(((..((....))))))))))(((((........(((((..(((......)-)).)))))........))))).....--....((((((...-.)))))).. ( -27.59)
>DroEre_CAF1 37984 106 + 1
GAGAGGCCUAGAAAUGGCCACAUCUGGCCUGGUCGAAUUAUUAACUUGACUGGAAUCCGC-CGCCAGGUGUGGACAAUGGCCAAAAAAAUAAGUAUCUAUAU-----AUAUG
....((((......((.(((((((((((..((((((.........))))))((......)-)))))))))))).))..))))....................-----..... ( -34.10)
>consensus
GAGAGGCCUAGAAAUGGCAACAUCUGGCCUGGUCAAAUUAUUAACUUGACUGGAAUCCGC_CACCAGGUGUGGACAAUGGCCAAAAAAAAUAAUAUAUAUAU_AUAUAUAAU
...(((((.(((..((....))))))))))(((((........(((((................)))))........))))).............................. (-20.55 = -20.11 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 10,030,688 – 10,030,799
Length 111
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 84.13
Mean single sequence MFE -27.78
Consensus MFE -17.02
Energy contribution -18.13
Covariance contribution 1.11
Combinations/Pair 1.04
Mean z-score -2.31
Structure conservation index 0.61
SVM decision value 0.06
SVM RNA-class probability 0.562759
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10030688 111 - 22224390
AU-GUAUAUAAUAUAUAUAUCAUUUUUUUUGGCCAUUGUCCACACCUGAUGGGCGGAUUCCCGGCAAGUUAAUAAUUUGACCAGGCCAAAUGUUGCCAUUUCUAGGCCUCUC
((-((((((...)))))))).......(((((((...((((((....).)))))((....))(((((((.....))))).)).))))))).(..(((.......)))..).. ( -27.60)
>DroSim_CAF1 6869 108 - 1
ACUAUAUAU-ACAUAUAUAUUAU--UUUUUGGCCAUUGUCCACACCUGGUG-GCGCAUUCCAGUCAAGUUAAUAAUUUGACCAGGCCAGAUGUUGCCAUUUCUAGGCCUCUC
..((((((.-...))))))....--..(((((((..(((((((.....)))-).))).....(((((((.....)))))))..))))))).(..(((.......)))..).. ( -27.20)
>DroEre_CAF1 37984 106 - 1
CAUAU-----AUAUAGAUACUUAUUUUUUUGGCCAUUGUCCACACCUGGCG-GCGGAUUCCAGUCAAGUUAAUAAUUCGACCAGGCCAGAUGUGGCCAUUUCUAGGCCUCUC
.....-----....................((((..((.(((((.((((((-(((((((..............)))))).))..))))).))))).))......)))).... ( -28.54)
>consensus
AAUAUAUAU_AUAUAUAUAUUAUUUUUUUUGGCCAUUGUCCACACCUGGUG_GCGGAUUCCAGUCAAGUUAAUAAUUUGACCAGGCCAGAUGUUGCCAUUUCUAGGCCUCUC
...........................(((((((..(((.(((.....))).))).......(((((((.....)))))))..)))))))....(((.......)))..... (-17.02 = -18.13 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:38 2006