Locus 583

Sequence ID 3R_DroMel_CAF1
Location 2,174,406 – 2,174,526
Length 120
Max. P 0.837857
window929 window930

overview

Window 9

Location 2,174,406 – 2,174,526
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.25
Mean single sequence MFE -40.60
Consensus MFE -38.38
Energy contribution -39.12
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.95
SVM decision value 0.74
SVM RNA-class probability 0.837857
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2174406 120 + 27905053
GGUCCGCAAUAGUAGUAGAUGAUUGUCACUUUUGACGCGCCACGCCCCCUGCCAGGGGCGUCUCGGGCAAAUAAAAAUCCUCAAAUCACGCUUUGGCACAAGGCCCUACUACACUGGGAG
..(((.((...(((((((.(((((((((....))))..((((((((((......)))))))....)))...............))))).((((((...)))))).)))))))..))))). ( -41.10)
>DroSec_CAF1 316824 120 + 1
GGUCCGCAAUGGUAGUAGAUGAUUGUCACUUUUGACGUGCCACGCCCCCUGCCAGGGGCGUUUCGGGCAAAUAAAAAUCCUCAAAUCACGCUUUGGCACAAGGCACUACUACACUGGGAG
..(((.((...(((((((.(((((((((....)))).(((((((((((......)))))))....))))..............))))).((((((...)))))).)))))))..))))). ( -43.90)
>DroSim_CAF1 333667 120 + 1
GGUCCGCAAUAGUAGUAGAUGAUUGUCACUUUUGACGCGCCACGCCCCCUGCCAGGGGCGUCUCGGGCAAAUAAAAAUCCUCAAAUCACGCUUUGGCACAAGGCACUACUACACUGGGAG
..(((.((...(((((((.(((((((((....))))..((((((((((......)))))))....)))...............))))).((((((...)))))).)))))))..))))). ( -42.20)
>DroYak_CAF1 320465 120 + 1
GGUCCGCAAUAGUAGUAGAUGAUUGUCACUUUUGACGCGCCACGCCCCCUGCCAGGGGCGUCUCGGGCAAAUAGAAAUCCUCAAUUCACGCUUUGGCACAAGGCACUAAUACACUGGCAA
.....((..((((.(((((.((((((((....))))..((((((((((......)))))))....))).......)))).)).......((((((...)))))).....))))))))).. ( -35.20)
>consensus
GGUCCGCAAUAGUAGUAGAUGAUUGUCACUUUUGACGCGCCACGCCCCCUGCCAGGGGCGUCUCGGGCAAAUAAAAAUCCUCAAAUCACGCUUUGGCACAAGGCACUACUACACUGGGAG
..(((.((...(((((((.(((((((((....))))..((((((((((......)))))))....)))...............))))).((((((...)))))).)))))))..))))). (-38.38 = -39.12 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,174,406 – 2,174,526
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.25
Mean single sequence MFE -43.88
Consensus MFE -41.99
Energy contribution -42.43
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.96
SVM decision value 0.71
SVM RNA-class probability 0.828245
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2174406 120 - 27905053
CUCCCAGUGUAGUAGGGCCUUGUGCCAAAGCGUGAUUUGAGGAUUUUUAUUUGCCCGAGACGCCCCUGGCAGGGGGCGUGGCGCGUCAAAAGUGACAAUCAUCUACUACUAUUGCGGACC
.(((((((((((((((.....(((((.........((((.((...........))))))((((((((....)))))))))))))((((....)))).....)))))))).)))).))).. ( -46.40)
>DroSec_CAF1 316824 120 - 1
CUCCCAGUGUAGUAGUGCCUUGUGCCAAAGCGUGAUUUGAGGAUUUUUAUUUGCCCGAAACGCCCCUGGCAGGGGGCGUGGCACGUCAAAAGUGACAAUCAUCUACUACCAUUGCGGACC
.((((((((((((((((....(((((.........((((.((...........))))))((((((((....)))))))))))))((((....))))...)).)))))).))))).))).. ( -45.90)
>DroSim_CAF1 333667 120 - 1
CUCCCAGUGUAGUAGUGCCUUGUGCCAAAGCGUGAUUUGAGGAUUUUUAUUUGCCCGAGACGCCCCUGGCAGGGGGCGUGGCGCGUCAAAAGUGACAAUCAUCUACUACUAUUGCGGACC
.((((((((((((((((....(((((.........((((.((...........))))))((((((((....)))))))))))))((((....))))...)).))))))).)))).))).. ( -45.30)
>DroYak_CAF1 320465 120 - 1
UUGCCAGUGUAUUAGUGCCUUGUGCCAAAGCGUGAAUUGAGGAUUUCUAUUUGCCCGAGACGCCCCUGGCAGGGGGCGUGGCGCGUCAAAAGUGACAAUCAUCUACUACUAUUGCGGACC
.......((((.(((((....(((((...(.(..(((.(((...))).)))..).)...((((((((....)))))))))))))((((....))))..........))))).)))).... ( -37.90)
>consensus
CUCCCAGUGUAGUAGUGCCUUGUGCCAAAGCGUGAUUUGAGGAUUUUUAUUUGCCCGAGACGCCCCUGGCAGGGGGCGUGGCGCGUCAAAAGUGACAAUCAUCUACUACUAUUGCGGACC
.((((((((((((((......(((((.........((((.((...........))))))((((((((....)))))))))))))((((....))))......))))))).)))).))).. (-41.99 = -42.43 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:42 2006