Locus 2011

Sequence ID 2L_DroMel_CAF1
Location 5,452,008 – 5,452,117
Length 109
Max. P 0.822264
window3238

overview

Window 8

Location 5,452,008 – 5,452,117
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.90
Mean single sequence MFE -31.95
Consensus MFE -27.73
Energy contribution -28.07
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.87
SVM decision value 0.68
SVM RNA-class probability 0.822264
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5452008 109 + 22407834
-----------UCGGGAAAAUGUGAGGAAAAUAAAUGAAAAUGCUCCAGAGCUCGUUCACAAGAGUGCUUACGGCAUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCAGAGCGACGC
-----------..........(((.(((..((........))..)))...((((...(.((((..((((.(((((.(((....))))))))......))))..)))).)..))))..))) ( -29.60)
>DroVir_CAF1 105319 107 + 1
-----------GAGCCAAAAUGUGCGGAAAAUAAAUGAAAAUGCU-CAAAGCUCGUUCACAACGGUGCUUACGGCGUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCA-AGCGACAC
-----------..((((..................((((...((.-....))...))))(((((((((.....)).(((....))))))))))...))))....((((...-.))))... ( -32.60)
>DroGri_CAF1 111169 107 + 1
-----------GAGCCAAAAUGUGCGGAAAAUAAAUGAAAAUGCU-CAAAGCUCGUUCACAACGGUGCUUACGGCGUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCA-AGCGACAC
-----------..((((..................((((...((.-....))...))))(((((((((.....)).(((....))))))))))...))))....((((...-.))))... ( -32.60)
>DroWil_CAF1 103290 107 + 1
-----------UUGAGAAAAUGUGCGGAAAAUAAAUGAAAAUGCU-CAAAGCUCGUUCACAAGAGUGCUUACGGCAUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCA-AGCGACGC
-----------............(((...............((((-....((((........))))(((((((((.(((....))))))))..))))))))...((((...-.))))))) ( -31.20)
>DroMoj_CAF1 116527 107 + 1
-----------GAGCCAAAAUGUGCGGAAAAUAAAUGAAAAUGCU-CAAAGCUCGUUCACAACGGUGCUUACGGCGUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCA-AGCGACAC
-----------..((((..................((((...((.-....))...))))(((((((((.....)).(((....))))))))))...))))....((((...-.))))... ( -32.60)
>DroAna_CAF1 75837 119 + 1
CCAAAGCGAAGCUGGAAAAAUGUGAGGAAAAUAAAUGAAAAUGCU-CAGAGCUCGUUCACAAGAGUGCUUACGGCAUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCAGAGCGUCGC
.....((((...........(.((((.(.............).))-)).)((((...(.((((..((((.(((((.(((....))))))))......))))..)))).)..)))).)))) ( -33.12)
>consensus
___________GAGCCAAAAUGUGCGGAAAAUAAAUGAAAAUGCU_CAAAGCUCGUUCACAACAGUGCUUACGGCAUCCGCAAGGAGCUGUUGAAGUGGCAAAUUUGCGCA_AGCGACAC
....................((((((((.......((((...(((....)))...))))......((((.(((((.(((....))))))))......))))..))))))))......... (-27.73 = -28.07 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:05 2006