Locus 7199

Sequence ID 3R_DroMel_CAF1
Location 18,965,456 – 18,965,557
Length 101
Max. P 0.607025
window11649

overview

Window 9

Location 18,965,456 – 18,965,557
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 69.40
Mean single sequence MFE -29.12
Consensus MFE -13.43
Energy contribution -14.65
Covariance contribution 1.22
Combinations/Pair 1.20
Mean z-score -1.60
Structure conservation index 0.46
SVM decision value 0.15
SVM RNA-class probability 0.607025
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18965456 101 + 27905053
---------GAACCCAAUUUCUUUCAGUGCCAGCAUGUAGCUACACAUGUUGGCAAAUA--UAGGGUGACUAUCUGGGGGGAUA--GUAACCGUG--UA----UUGGCAAACGAACUACU
---------....((............(((((((((((......)))))))))))((((--((.(((.(((((((....)))))--)).))).))--))----))))............. ( -34.90)
>DroSec_CAF1 76744 105 + 1
---------GAACCCCAUUUCUUUCAGUGCCAGCUUGUAGCUACACAUGUUGGCAAAUA--UAGAGUCACUAUCUGGGGGGAUAAGGAAACCGUGUGUA----UUGGCGAACGGGCUACU
---------....((...((((..((((((((((.(((......))).)))))))...(--(((.....)))))))..))))...))...((((.(((.----...))).))))...... ( -30.70)
>DroSim_CAF1 78349 104 + 1
---------AAACCCAUUUUCUUUCAGUGCCAGCAUGUAGCUACACAUGUUGGCAAAUA--UAGAGUCACUAUCUGGGGGGAUA-GGUAACCGUGUAUA----UUGGCGAACGGGCUACU
---------..(((....((((..((((((((((((((......)))))))))))...(--(((.....)))))))..))))..-)))..((((.....----.......))))...... ( -32.80)
>DroEre_CAF1 77019 98 + 1
GGAUGUAUUGUGCGUAUUUUCUUUCAGUGUCAGCGUGUAGCUACACAUGUUGGCAAAUA--CGGAGUCACUAUCU-GGGGGA---------------UA----UUGGCGAACAGGCUACU
....(((((((.(((....(((..((((((((((((((......)))))))))))....--.(......)...))-)..)))---------------..----...))).))))..))). ( -27.70)
>DroYak_CAF1 79434 107 + 1
-----AAGAGAACCCAUUUUCUUUCAGUGUCAACAUGUAGCUACACAUGUUGGCAAAUACACAGAGUCACUAUCAUAGCAGAUA--GUAUCCGUG--UA----UUGGCGAACGGGCUACU
-----.......(((............(((((((((((......)))))))))))(((((((.((...((((((......))))--)).)).)))--))----)).......)))..... ( -33.60)
>DroAna_CAF1 79035 93 + 1
---------------AAUUUUUUUCACUGUCUUCUAGGAUCUAG--AUAUUGGCAAAUA--AA------CCCCCCAGUGGCCCA--GUGUGAGUGUAAAUUAGUCGGCGAACAAGCUACU
---------------.((((....(((((...(((((...))))--)((((((......--..------....))))))...))--))).)))).......(((.(((......)))))) ( -15.00)
>consensus
_________GAACCCAAUUUCUUUCAGUGCCAGCAUGUAGCUACACAUGUUGGCAAAUA__UAGAGUCACUAUCUGGGGGGAUA__GUAACCGUG__UA____UUGGCGAACGGGCUACU
...........................(((((((((((......))))))))))).................................................((((......)))).. (-13.43 = -14.65 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:56 2006