Locus 2133

Sequence ID 2L_DroMel_CAF1
Location 5,772,847 – 5,772,957
Length 110
Max. P 0.958461
window3449 window3450

overview

Window 9

Location 5,772,847 – 5,772,957
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 84.82
Mean single sequence MFE -22.06
Consensus MFE -16.52
Energy contribution -16.64
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -2.31
Structure conservation index 0.75
SVM decision value 1.26
SVM RNA-class probability 0.937672
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5772847 110 + 22407834
CUGACCUUACACCUGAAUAUCGCAUAUAAAAAUAUUAUUUUCCAGGCACAAAGUAUAUUUUCUUUGCCAAAAAAAAAAAAACAACAAUUGGCAAGGUGUGUUGGCCAGAU
(((.((.(((((((..............(((((((.(((((........))))))))))))...((((((.................)))))))))))))..)).))).. ( -22.43)
>DroSec_CAF1 10045 92 + 1
CUGACCUUACACCUGAAUAACGCAUAUAAAAAUAUUAUUUUCCAGCCACGAAGUAUAUUUUCUUUGCCAAAACG------------------AAGGUGUGUUGGCCAGAU
(((.((.(((((((.......(((....(((((((.(((((........))))))))))))...))).......------------------.)))))))..)).))).. ( -20.56)
>DroSim_CAF1 10325 92 + 1
CUGACCUUACACCUGAAUAACGCAUAUAAAAAUAUUAUUUUCCAGGCACGAAGUAUAUUUUCUUUGCCAAAACG------------------AAGGUGUGUUGGCCAGAU
(((.((.(((((((((((((..............))))))....((((.((((.....))))..))))......------------------.)))))))..)).))).. ( -20.64)
>DroEre_CAF1 10008 107 + 1
CUGACCUUACACCUGAAUACAACAUAUAAAAAUAUUAUUUUCCAGGCACGAAGUAUAUUUUCUUUGCCAAAAAG---AAAACAAGAAAUGCCAAGGUGUGUUGGCCAAAU
.((.((.(((((((.........((((....)))).........((((.........((((((((.....))))---)))).......)))).)))))))..)).))... ( -20.59)
>DroYak_CAF1 10499 107 + 1
UUGACCUUACACCUGAAUAUCACAUAUAAAAAUAUUAUUUUCCAGGCACGGAGUAUAUUUUCUUUGCCAAAAAG---AACACAACAAAUGCCAAGGUGUGUUGGUCAGAU
((((((.(((((((.(((((...........)))))........((((.((((......)))).))))......---................)))))))..)))))).. ( -26.10)
>consensus
CUGACCUUACACCUGAAUAACGCAUAUAAAAAUAUUAUUUUCCAGGCACGAAGUAUAUUUUCUUUGCCAAAAAG___AA_ACAA_AA_UG_CAAGGUGUGUUGGCCAGAU
(((.((.(((((((.........((((....)))).........((((..(((........))))))).........................)))))))..)).))).. (-16.52 = -16.64 +   0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,772,847 – 5,772,957
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 84.82
Mean single sequence MFE -26.83
Consensus MFE -18.92
Energy contribution -18.88
Covariance contribution -0.04
Combinations/Pair 1.12
Mean z-score -2.67
Structure conservation index 0.71
SVM decision value 1.49
SVM RNA-class probability 0.958461
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5772847 110 - 22407834
AUCUGGCCAACACACCUUGCCAAUUGUUGUUUUUUUUUUUUUGGCAAAGAAAAUAUACUUUGUGCCUGGAAAAUAAUAUUUUUAUAUGCGAUAUUCAGGUGUAAGGUCAG
..((((((......(.(((((((.................))))))).)..........(((..((((((.....((((....))))......))))))..))))))))) ( -27.63)
>DroSec_CAF1 10045 92 - 1
AUCUGGCCAACACACCUU------------------CGUUUUGGCAAAGAAAAUAUACUUCGUGGCUGGAAAAUAAUAUUUUUAUAUGCGUUAUUCAGGUGUAAGGUCAG
..((((((...((((((.------------------..(((..((...(((.......)))...))..)))(((.((((....))))..)))....))))))..)))))) ( -22.90)
>DroSim_CAF1 10325 92 - 1
AUCUGGCCAACACACCUU------------------CGUUUUGGCAAAGAAAAUAUACUUCGUGCCUGGAAAAUAAUAUUUUUAUAUGCGUUAUUCAGGUGUAAGGUCAG
..((((((((.((.....------------------.)).)))))...........((((..((((((((.(((.((((....))))..))).))))))))..))))))) ( -23.60)
>DroEre_CAF1 10008 107 - 1
AUUUGGCCAACACACCUUGGCAUUUCUUGUUUU---CUUUUUGGCAAAGAAAAUAUACUUCGUGCCUGGAAAAUAAUAUUUUUAUAUGUUGUAUUCAGGUGUAAGGUCAG
...(((((...((((((.(((((....((((((---((((.....))))))))))......)))))..(((.(((((((......))))))).)))))))))..))))). ( -32.70)
>DroYak_CAF1 10499 107 - 1
AUCUGACCAACACACCUUGGCAUUUGUUGUGUU---CUUUUUGGCAAAGAAAAUAUACUCCGUGCCUGGAAAAUAAUAUUUUUAUAUGUGAUAUUCAGGUGUAAGGUCAA
...(((((...(((((((.((((.((((((.((---((....((((..((........))..)))).)))).)))))).......)))).).....))))))..))))). ( -27.30)
>consensus
AUCUGGCCAACACACCUUG_CA_UU_UUGU_UU___CUUUUUGGCAAAGAAAAUAUACUUCGUGCCUGGAAAAUAAUAUUUUUAUAUGCGAUAUUCAGGUGUAAGGUCAG
..((((((...(((((..........................((((..((........))..))))((((.....((((....))))......)))))))))..)))))) (-18.92 = -18.88 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:30 2006