Locus 7078

Sequence ID 3L_DroMel_CAF1
Location 19,141,653 – 19,141,796
Length 143
Max. P 0.925181
window11474 window11475

overview

Window 4

Location 19,141,653 – 19,141,763
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.25
Mean single sequence MFE -26.47
Consensus MFE -17.04
Energy contribution -16.80
Covariance contribution -0.24
Combinations/Pair 1.11
Mean z-score -3.10
Structure conservation index 0.64
SVM decision value 0.03
SVM RNA-class probability 0.547999
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19141653 110 - 23771897
CCGCCUAGUUGGAAACUCUCAAAGAACCGUAAGG----------GAAACUUUACGGAAAGUUCAACAAACACCACGCACUUUCCGAACUCUCCUCCCUGGGCACCUCAUAAAUAUGAUUU
..((((((..(((...............((((((----------....))))))(((((((.(............).)))))))......)))...))))))...((((....))))... ( -30.90)
>DroSec_CAF1 4542 110 - 1
CCGCCUAGUUGAAAACUCUCAAAGAACCGUAAGG----------GAAACUUUACGGAAACUUCAACAAACACCACGCACUUUCCGAACUCUCCUCCCUGGGCACCUCAUAAAUAUGAUUU
..(((((((((((...((.....)).((((((((----------....))))))))....))))))........((.......))............)))))...((((....))))... ( -26.40)
>DroSim_CAF1 4120 110 - 1
CCGCCUAGUUGAAAACUCUCAAAGAAUCGUAAGG----------GAAACUUUACGGAAACUUCAACAAACACCACGCACUUUCCGAACUCUCCUCCCUGGGCACCUCAUAAAUAUGAUUU
..((((((((((......))))(((.((((((((----------....))))))(((((....................)))))))..))).....))))))...((((....))))... ( -23.75)
>DroEre_CAF1 4939 120 - 1
CUGCCUAGUUGGAAACUCUGAAAAAACCGUAAGGAAACUUUGCGGAAACUUUACGGAAACUUCAACAAACACCACGCACUUUCUGAACUCUCCUCCCUGGGCACCUCAUAAAUAUGAUUU
.(((((((..(((...((.((((...(((((((....).)))))).........(....)...................)))).))....)))...)))))))..((((....))))... ( -27.90)
>DroYak_CAF1 4919 107 - 1
CUGCCUAGUUGGAAACUCUCAAAGAACCGUAAGGAAA-----------CUUUAGGGAAACUUCAACAAUCACCACGCACUUUCUGAACU--CCUCCCUGGGCACCUCAUAAAUAUGAUUU
.(((((((..(((...((..((((...((((((....-----------))).(((....)))...........)))..))))..))..)--))...)))))))..((((....))))... ( -23.40)
>consensus
CCGCCUAGUUGGAAACUCUCAAAGAACCGUAAGG__________GAAACUUUACGGAAACUUCAACAAACACCACGCACUUUCCGAACUCUCCUCCCUGGGCACCUCAUAAAUAUGAUUU
..(((((((((((...((.....)).((((((((..............))))))))....))))))........((.......))............)))))...((((....))))... (-17.04 = -16.80 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,141,693 – 19,141,796
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.82
Mean single sequence MFE -24.61
Consensus MFE -15.64
Energy contribution -16.12
Covariance contribution 0.48
Combinations/Pair 1.10
Mean z-score -3.10
Structure conservation index 0.64
SVM decision value 1.17
SVM RNA-class probability 0.925181
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19141693 103 - 23771897
CCCACAA-------UAGAGUUUCCGAAGUUUACAUAAUAUCCGCCUAGUUGGAAACUCUCAAAGAACCGUAAGG----------GAAACUUUACGGAAAGUUCAACAAACACCACGCACU
.......-------.(((((((((((......................))))))))))).......((((((((----------....))))))))........................ ( -25.95)
>DroSec_CAF1 4582 103 - 1
CUCACAA-------UAGAGUUGCCGAAGUUUACAUAAUAUCCGCCUAGUUGAAAACUCUCAAAGAACCGUAAGG----------GAAACUUUACGGAAACUUCAACAAACACCACGCACU
(((....-------..))).....(((((((.................((((......))))....((((((((----------....)))))))))))))))................. ( -23.80)
>DroSim_CAF1 4160 103 - 1
CCCACAA-------UAGAGUUUCCAAAGUUUACAUAAUAUCCGCCUAGUUGAAAACUCUCAAAGAAUCGUAAGG----------GAAACUUUACGGAAACUUCAACAAACACCACGCACU
.......-------..((((((((..(((((.((...((......))..)).)))))...........((((((----------....)))))))))))))).................. ( -20.60)
>DroEre_CAF1 4979 120 - 1
CGCUCAAUAGAGCUAAGAGUUUCCGAAGUAUACAUAAUAUCUGCCUAGUUGGAAACUCUGAAAAAACCGUAAGGAAACUUUGCGGAAACUUUACGGAAACUUCAACAAACACCACGCACU
.((((....))))..(((((((((((.(((...........)))....)))))))))))(((....(((((((....).)))))).........(....))))................. ( -31.00)
>DroYak_CAF1 4957 102 - 1
CCCUCAA-------AAGAGUUUCCGAAGUUUACAUAAUAUCUGCCUAGUUGGAAACUCUCAAAGAACCGUAAGGAAA-----------CUUUAGGGAAACUUCAACAAUCACCACGCACU
((((...-------.(((((((((((......((.......)).....))))))))))).((((..((....))...-----------))))))))........................ ( -21.70)
>consensus
CCCACAA_______UAGAGUUUCCGAAGUUUACAUAAUAUCCGCCUAGUUGGAAACUCUCAAAGAACCGUAAGG__________GAAACUUUACGGAAACUUCAACAAACACCACGCACU
...............(((((((((((.((.............))....))))))))))).......((((((((..............))))))))........................ (-15.64 = -16.12 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:07 2006