Locus 8635

Sequence ID 3R_DroMel_CAF1
Location 23,097,444 – 23,097,548
Length 104
Max. P 0.515932
window13869

overview

Window 9

Location 23,097,444 – 23,097,548
Length 104
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 69.13
Mean single sequence MFE -28.87
Consensus MFE -18.78
Energy contribution -20.53
Covariance contribution 1.75
Combinations/Pair 1.25
Mean z-score -0.94
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.515932
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23097444 104 + 27905053
----------AUUGCGCUGGAGCUGCUUGGCCUCCGCACUGGCCAUCGACAAUGGCAGCAUUUUGAGCCGUUUAUGCUUAGAGCUA----UGGAUUUU-UGAUUUCU-UUUUUAACCAGC
----------.....(((((.(((((((((((........)))))........)))))).((((((((.......))))))))...----........-........-.......))))) ( -31.50)
>DroSec_CAF1 581 105 + 1
----------AUUGCGCUGGAGCUGCUUGGCCUCCGCACUGGCCAUCGACAAUGGCAGCAUUUUGAAUCGUUUAGGCUUAGAGCUA----UGGAUUUG-UGUUUCUUAUUUUUUACCAGC
----------.....(((((.(((((((((((........)))))........)))))).....(((((.....(((.....))).----..))))).-................))))) ( -29.70)
>DroSim_CAF1 585 105 + 1
----------AUUGCGCUGGAGCUGCUUGGCCUCCGCACUGGCCAUCGACAAUGGCAGCAUUUUGAGUCGUUUAGGCUUAGAGCUA----UGGAUUUG-UGUUUCUUAUUUUUAACCAGC
----------.....(((((.(((((((((((........)))))........)))))).(((((((((.....)))))))))...----........-................))))) ( -33.80)
>DroEre_CAF1 585 96 + 1
----------AUCGCGCUGUAGCUGCUUGGCCUCCGCGCUGGCCAACGACAAUGGCAGCAUUUUAAGUCGUUUAUCCCAAGGGCUU----UGUAUUUG-GG---------UUUUCCCAGC
----------...(((((((...(((((((((........)))))).).))...))))).....(((((.((......)).)))))----......((-((---------....)))))) ( -28.30)
>DroYak_CAF1 596 101 + 1
----------AUCGCGCUGAAUCUGCUUGACCUCCGCGCUGGCCAACGACAAUGGCAGCAUUUUGAGUCGUUUAUCCUAAAGACUCUUUCUGUAUUUGGGG---------UUUUCCCAGC
----------...((((.((.((.....))..)).))))..((((.......)))).(((....(((((............)))))....)))..(((((.---------....))))). ( -25.70)
>DroAna_CAF1 587 105 + 1
CCUCACGCUUCGUCUGCUGGAGCUGCUUGGCCACUCCGGAGGCCAUCGACAUCGGCACCAUUGUACUCC-----CGCUUCAGACGC---------CCA-CUUUUAUUAUUCCUUUCGAGU
..........(((((((.((((.(((.(((((........)))))(((....))).......)))))))-----.))...))))).---------...-..................... ( -24.20)
>consensus
__________AUUGCGCUGGAGCUGCUUGGCCUCCGCACUGGCCAUCGACAAUGGCAGCAUUUUGAGUCGUUUAUGCUUAGAGCUA____UGGAUUUG_UGUUU_UU_UUUUUUACCAGC
...............(((((.(((((((((((........)))))........)))))).((((((((.......))))))))................................))))) (-18.78 = -20.53 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:56 2006