Locus 431

Sequence ID 3R_DroMel_CAF1
Location 1,623,634 – 1,623,748
Length 114
Max. P 0.539902
window701

overview

Window 1

Location 1,623,634 – 1,623,748
Length 114
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 84.21
Mean single sequence MFE -37.37
Consensus MFE -24.54
Energy contribution -26.35
Covariance contribution 1.81
Combinations/Pair 1.21
Mean z-score -2.43
Structure conservation index 0.66
SVM decision value 0.01
SVM RNA-class probability 0.539902
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1623634 114 + 27905053
GCAGCGAAAGCGGAUCGCAGCAAAAGCAAAAUAUUGUAGAAACUACAGUGGAUCCUGCUCCGGAA-----ACCGAGAGUUUCAUCGAGAAGAUUGCGAAGCGAACGGCAGCUGCUGGCA
(((((....((.(.((((.((((........((((((((...))))))))(((...(((((((..-----.))).))))...))).......))))...)))).).)).)))))..... ( -37.30)
>DroSec_CAF1 2953 114 + 1
GCAGCGAAAGCGGAUCGCAGCAAAAGCAAAAUAUUGUAGAGACUACAGUGGAUCCUGCUCCAGAA-----ACCGAGAGUUUCAUCGAGAAGAUUGCGAAGCGAACGGCAGCUGCUGGCA
(((((....((.(.((((.((((.((((...((((((((...)))))))).....))))...(((-----((.....)))))..........))))...)))).).)).)))))..... ( -35.30)
>DroSim_CAF1 2931 114 + 1
GCAGCGAAAGCGGAUCGCAGCAAAAGCAAAAUAUUGUAGAGACUACAGUGGAUCCUGCUCCGGAA-----ACCGAGAGUUUCAUCGAGAAGAUUGCGAAGCGAACGGCAGCUGCUGGCA
(((((....((.(.((((.((((........((((((((...))))))))(((...(((((((..-----.))).))))...))).......))))...)))).).)).)))))..... ( -37.30)
>DroEre_CAF1 3119 114 + 1
GCAGCGAAAGUGGAUCCCAGCAAAAGCAAAAUUUUGUAGAAACUACAGUGGAUCCUGCUCCGGAA-----ACCGAGAGUUUCAUCGAGAAGAUUGCGAAGCGAACAGCAGCUGCUGGCA
(((((......(((((((.((....)).......(((((...)))))).))))))((((((((..-----.))).))((((((((.....)))...))))).....))))))))..... ( -33.40)
>DroYak_CAF1 2962 114 + 1
GCAGCGAUAGCGGUUCGCAGCAAAAGCAAAAUAUUGUAGAAACUACAGUGGAUCCUGCUCCGGAA-----ACUGAGAGUUUUAUCGAGAAGAUUGCGAAGCGAACAGCAGCUGCUGGCA
(((((....((.((((((.((((........((((((((...))))))))(((...((((((...-----.).).))))...))).......))))...)))))).)).)))))..... ( -38.10)
>DroMoj_CAF1 3093 102 + 1
GUAGCGAUUG-------CAGC--CAGCAGAAUGUGGUGGACACCAC------GCCAG--UCAGCAGCGUGGGCGAGAGCUUUAUUGAGAAGAUUGCCAAACGUACGGCUGCUGCUGGCA
...((....)-------).((--((((((...(((((....)))))------.....--.((((.((((.(((((...((((.....)))).)))))..))))...)))))))))))). ( -42.80)
>consensus
GCAGCGAAAGCGGAUCGCAGCAAAAGCAAAAUAUUGUAGAAACUACAGUGGAUCCUGCUCCGGAA_____ACCGAGAGUUUCAUCGAGAAGAUUGCGAAGCGAACGGCAGCUGCUGGCA
((.((....)).....(((((....((((..((((((((...))))))))(((...(((((((........))).))))...))).......))))...((.....)).)))))..)). (-24.54 = -26.35 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:59 2006