Locus 5098

Sequence ID X_DroMel_CAF1
Location 13,318,184 – 13,318,284
Length 100
Max. P 0.989209
window8291 window8292

overview

Window 1

Location 13,318,184 – 13,318,284
Length 100
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 75.44
Mean single sequence MFE -22.33
Consensus MFE -16.94
Energy contribution -16.75
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.76
SVM decision value 1.90
SVM RNA-class probability 0.981989
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13318184 100 + 22224390
ACCCUUCUUUUGCAUAUAUUUGUUUUUU-----UGUUUUUUAUUUUGUUUGUCGCACAUUUGUGGCAGUCGGCCAAGUUGGUCAACAUGGCAUAAAUGCACAAAG
......(((((((((.(((.........-----............((.((((((((....)))))))).))((((.(((....))).))))))).))))).)))) ( -22.00)
>DroSim_CAF1 23565 105 + 1
ACCCUUCUUUUACAUAUAUUUGUUUUUUUUUUUUUUUUUGUAUUUUGUUUGUCGCACAUUUGUGGCAGUCGGCCAAGUUGGUCAACAUGGCAUAAAUGCACAAAG
..................................(((.(((((((((.((((((((....)))))))).))((((.(((....))).))))..))))))).))). ( -20.50)
>DroEre_CAF1 22367 84 + 1
AUAUUUUU-------------GAUAUUU-UUUC----UUG--CUAUGCUUGUCGCAU-UUUGUGGCAGCCGGCCAAGUUGGUCAACAUGGCAUUAAUGCAAAAAG
...(((((-------------(.((((.-....----.((--(((((.(((((((..-...)))))))..((((.....))))..)))))))..)))))))))). ( -24.20)
>DroYak_CAF1 22106 96 + 1
AUAUUUGUUGUU------UU-UGUGUUU-UUUUUUUUUUGGAUUUUGUUUGUCGCAU-UUUGUGGCAGCCGGCCAAGUUGGUCAACAUGGCAUGAAUGCACAAAG
............------((-(((((.(-((..............((.(((((((..-...))))))).))((((.(((....))).))))..))).))))))). ( -22.60)
>consensus
ACACUUCUUUU_______UU_GUUUUUU_UUUUUUUUUUGUAUUUUGUUUGUCGCAC_UUUGUGGCAGCCGGCCAAGUUGGUCAACAUGGCAUAAAUGCACAAAG
.............................................(((((((((((....))))))))...((((.(((....))).))))......)))..... (-16.94 = -16.75 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,318,184 – 13,318,284
Length 100
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 75.44
Mean single sequence MFE -16.99
Consensus MFE -12.39
Energy contribution -11.95
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -2.11
Structure conservation index 0.73
SVM decision value 2.15
SVM RNA-class probability 0.989209
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13318184 100 - 22224390
CUUUGUGCAUUUAUGCCAUGUUGACCAACUUGGCCGACUGCCACAAAUGUGCGACAAACAAAAUAAAAAACA-----AAAAAACAAAUAUAUGCAAAAGAAGGGU
((((.(((((.(((((((.(((....))).))))....((((((....))).).))................-----.........))).)))))...))))... ( -18.50)
>DroSim_CAF1 23565 105 - 1
CUUUGUGCAUUUAUGCCAUGUUGACCAACUUGGCCGACUGCCACAAAUGUGCGACAAACAAAAUACAAAAAAAAAAAAAAAAACAAAUAUAUGUAAAAGAAGGGU
..(((..(((((.((.((.((((.((.....)).)))))).)).)))))..)))................................................... ( -17.20)
>DroEre_CAF1 22367 84 - 1
CUUUUUGCAUUAAUGCCAUGUUGACCAACUUGGCCGGCUGCCACAAA-AUGCGACAAGCAUAG--CAA----GAAA-AAAUAUC-------------AAAAAUAU
.(((((((....((((..(((((.......((((.....))))....-...))))).)))).)--)))----))).-.......-------------........ ( -17.84)
>DroYak_CAF1 22106 96 - 1
CUUUGUGCAUUCAUGCCAUGUUGACCAACUUGGCCGGCUGCCACAAA-AUGCGACAAACAAAAUCCAAAAAAAAAA-AAACACA-AA------AACAACAAAUAU
.((((((((..(..((((.(((....))).)))).)..)).))))))-............................-.......-..------............ ( -14.40)
>consensus
CUUUGUGCAUUUAUGCCAUGUUGACCAACUUGGCCGACUGCCACAAA_AUGCGACAAACAAAAUACAAAAAAAAAA_AAAAAAC_AA_______AAAAGAAAGAU
.(((((((((...((.((.((((.((.....)).)))))).)).....)))).)))))............................................... (-12.39 = -11.95 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:05 2006