Locus 6856

Sequence ID 3R_DroMel_CAF1
Location 18,139,767 – 18,139,863
Length 96
Max. P 0.630532
window11126

overview

Window 6

Location 18,139,767 – 18,139,863
Length 96
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 83.64
Mean single sequence MFE -24.84
Consensus MFE -19.18
Energy contribution -20.44
Covariance contribution 1.25
Combinations/Pair 1.15
Mean z-score -1.74
Structure conservation index 0.77
SVM decision value 0.20
SVM RNA-class probability 0.630532
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18139767 96 - 27905053
GAUGGGGAGAAUGUCCC-----------UA-CCG--------CCGCUCCCUAUCUCUCUGGAAAGCCAUGAAAAGUUCCAUAAUUUGGAGCCAACUUCAAAGCAUUUCCUUGCCGC
(((((((((...((...-----------..-..)--------)..))))))))).....(((((((..((((..((((((.....))))))....))))..)).)))))....... ( -31.00)
>DroSec_CAF1 168384 96 - 1
GACGGGGAGAAUGUCCC-----------UA-CCU--------CCGCUCCCUAUCUCUCUGGAAAGCCAUGAAAAGUUCCAUAAUUUGGAGCCAACUUCAAAGCAUUUCCUUGCCGC
((..(((((...((...-----------.)-)..--------...)))))..)).....(((((((..((((..((((((.....))))))....))))..)).)))))....... ( -26.60)
>DroSim_CAF1 173319 96 - 1
GACGGGGAGAACGUCCC-----------UA-CCU--------CCGCUCCUUAUCUCUCUGGAAAGCCAUGAAAAGUUCCAUAAUUUGGAGCUAACUUCAAAGCAUUUCCUUGCCGC
((..(((((...((...-----------.)-)..--------...)))))..)).....(((((((..((((.(((((((.....)))))))...))))..)).)))))....... ( -26.50)
>DroEre_CAF1 180064 96 - 1
GAUAGGGAGAAUGCCCC-----------UA-CCU--------CCGCUCCUCAUCUCUCUGGAAAGCCAUGAAAAGUUCCAUAAUUUGGAGCCAACUUCAAAGCAUUUCCUUGCCGC
(((..((((........-----------..-...--------...))))..))).....(((((((..((((..((((((.....))))))....))))..)).)))))....... ( -24.09)
>DroYak_CAF1 177407 97 - 1
GAUGGCGAGAAUGUCCC-----------UAACCC--------CCGUUCGCUAUCUCUCUGCAAAGCCAUGAAAAGUUCCAUAAUUUGGAGCCAACUUCAAAGCAUUUCCUUGCCGC
...((((((........-----------......--------......((.........))...((..((((..((((((.....))))))....))))..)).....)))))).. ( -22.50)
>DroAna_CAF1 163545 111 - 1
GAUCGG----AUGUCCCCUGAAGUCCCCUC-CGUCUACUUGCUCGCUACCCAUUUCCCUAGAAUGCCAUAAAAAGUUCCAUAAUUCGGAGCCAACUUCAAAGCAUUUCCUAGCCGC
....((----(.((.(..((((((...(((-((.......(((.......(((((.....)))))........))).........)))))...))))))..).)).)))....... ( -18.35)
>consensus
GAUGGGGAGAAUGUCCC___________UA_CCU________CCGCUCCCUAUCUCUCUGGAAAGCCAUGAAAAGUUCCAUAAUUUGGAGCCAACUUCAAAGCAUUUCCUUGCCGC
(((((((((....................................))))))))).....(((((((..((((..((((((.....))))))....))))..)).)))))....... (-19.18 = -20.44 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:37 2006