Locus 5929

Sequence ID X_DroMel_CAF1
Location 15,305,330 – 15,305,433
Length 103
Max. P 0.837436
window9622

overview

Window 2

Location 15,305,330 – 15,305,433
Length 103
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 72.01
Mean single sequence MFE -39.17
Consensus MFE -18.68
Energy contribution -20.13
Covariance contribution 1.45
Combinations/Pair 1.42
Mean z-score -1.86
Structure conservation index 0.48
SVM decision value 0.74
SVM RNA-class probability 0.837436
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15305330 103 - 22224390
AGAGGAACAGGCGAAACUGGAGGCAGCCAAG-AAUACCUCCGAAACGGAGGUGGACUGGGCAGCGCUGCUGUCCGAGGAUUUUCUGGAUCCGCCAGAGGAUGAC
.........((((...(..((((...((.((-..((((((((...))))))))..))(((((((...)))))))..))..))))..)...)))).......... ( -39.00)
>DroSec_CAF1 389 103 - 1
ACAGGAACAGGCGAAACUGGAGGCAACCAGG-AAUACCUCCGAAACGGAUGAGGAUUGGCCAGCGCUGCUGGCCGAGGAUUUCCUGGAUCCGCCUGAGGAUGAC
.((....((((((....((....)).(((((-((..((((((...))))......(((((((((...)))))))))))..)))))))...))))))....)).. ( -41.80)
>DroSim_CAF1 749 103 - 1
ACAGGAACAGGCGAAACUGGAGGCAACCAGG-AAUACCUCCGAAACGGAGGUGGACUGGCCAGCGCUGCUGGCCGAGGAUUUCCUGGAUCCGCCUGAGGAUGAC
.((....((((((....((....)).(((((-((((((((((...))))))))..(((((((((...))))))).))...)))))))...))))))....)).. ( -47.30)
>DroEre_CAF1 672 93 - 1
-------GAGGUAGAACUGGAGGCCGCCAUG-CAUCCAGACGA---GGAGGUGGACUGGGCAGCGUUGCUGUCCGAGGAUUUCCUGGAUCCACCAGAGUAUGAC
-------..(((..........)))..((((-(.(((......---)))(((((((((((((((...))))))).(((....))))).))))))...))))).. ( -34.50)
>DroYak_CAF1 725 96 - 1
-------CAGGUGAAACUGGAGGUAGCCGUC-AAUUCCGCCGAAACGGAGGUGGACUGGGCAGCCCUGCUAGCCGAGGAUUUCCUGGAUCCGCCAGACGAUGAC
-------..((((...(((((((..((.(((-...((((((........))))))...))).))))).))))((.(((....)))))...)))).......... ( -32.90)
>DroAna_CAF1 702 97 - 1
-------CAGUGGCGCCUGCACACCGUCAAGCAAUGCUGCCGAGGGAGAAAUCGACUGGGUGGCGUUGCUAAGCGAGGAUUUUGUUCCACCGCUUUCCCCGGGC
-------.......(((((..........((((((((..((.((.((....))..)).))..))))))))(((((.(((......)))..)))))....))))) ( -39.50)
>consensus
_______CAGGCGAAACUGGAGGCAGCCAAG_AAUACCGCCGAAACGGAGGUGGACUGGGCAGCGCUGCUGGCCGAGGAUUUCCUGGAUCCGCCAGAGGAUGAC
.........((((.....(((((...((........(((((........)))))..((((((((...)))))))).)).)))))......)))).......... (-18.68 = -20.13 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:49 2006