Locus 4959

Sequence ID 2R_DroMel_CAF1
Location 16,165,535 – 16,165,633
Length 98
Max. P 0.999932
window7942 window7943

overview

Window 2

Location 16,165,535 – 16,165,633
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -31.04
Consensus MFE -28.42
Energy contribution -28.62
Covariance contribution 0.19
Combinations/Pair 1.04
Mean z-score -4.43
Structure conservation index 0.92
SVM decision value 4.64
SVM RNA-class probability 0.999932
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16165535 98 + 20766785
AAAUAAAAUAGCAAAUUACUAAUUUCGCCUUUGGCCUAAGCAACAUGUUGCUGUCAUUAUGAUUAGCUACAUGUUGCCCAAUUUGCUGGCUGCAACAG
........(((((((((.........(((...)))....(((((((((.((((((.....)).)))).)))))))))..))))))))).......... ( -29.70)
>DroSec_CAF1 9649 98 + 1
AAAUAAAGUAGCAAAUUACUAAUUUCGCCUUUGGCCUAUGCAACAUGUUGCUGUCAUUAUGAUUAGCUACAUGUUGCCCAAUUUGCUGGCUGCAACAG
......(((((((((((.........(((...)))....(((((((((.((((((.....)).)))).)))))))))..)))))))).)))....... ( -30.20)
>DroSim_CAF1 10113 98 + 1
AAAUAAAGUAGCAAAUUACUAAUUUCGCCUUUGGCCUGUGCAACAUGUUGCUGUCAUUAUGAUUAGCUACAUGUUGCCCAAUUUGCUGGCUGCAACAG
......(((((((((((.........(((...)))..(.(((((((((.((((((.....)).)))).))))))))).))))))))).)))....... ( -30.60)
>DroEre_CAF1 9762 98 + 1
AUAAAAAAAGGCAAAUUACUAAUUUCGCCUUUGGCCUAAGCAACAUGUUGCAGUCAUUAUGAUUAGCUACAUGUUGCCCAAUUUGCUGGCCGCAACAG
......((((((((((.....)))).))))))((((...(((((((((.((((((.....)))).)).)))))))))..........))))....... ( -30.92)
>DroYak_CAF1 9806 98 + 1
AAAUAAAAUAGCAAAUUACUAAUUUCGCCUUUGGCCUAUGCAACAUGUUGCUGUCAUUAUGAUUAGCUACAUGUUGCCCAAUUUGCUGGCCGCAACAG
........(((((((((.........(((...)))....(((((((((.((((((.....)).)))).)))))))))..))))))))).......... ( -29.50)
>DroAna_CAF1 9809 98 + 1
AAAUAAAAUAGCAAAUUACAAAUUUCGCCUUUGGCCUAUGCAACAUGUUGCUGUCAUUAUGAUUAGCAACAUGUUGCCUAAUUUGCUGUCUGUUGAAG
.((((..(((((((((((........(((...)))....((((((((((((((((.....)).)))))))))))))).))))))))))).)))).... ( -35.30)
>consensus
AAAUAAAAUAGCAAAUUACUAAUUUCGCCUUUGGCCUAUGCAACAUGUUGCUGUCAUUAUGAUUAGCUACAUGUUGCCCAAUUUGCUGGCUGCAACAG
........(((((((((.........(((...)))....(((((((((.((((((.....)).)))).)))))))))..))))))))).......... (-28.42 = -28.62 +   0.19)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 16,165,535 – 16,165,633
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 93.61
Mean single sequence MFE -30.22
Consensus MFE -27.04
Energy contribution -27.23
Covariance contribution 0.19
Combinations/Pair 1.04
Mean z-score -3.74
Structure conservation index 0.89
SVM decision value 4.06
SVM RNA-class probability 0.999778
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16165535 98 - 20766785
CUGUUGCAGCCAGCAAAUUGGGCAACAUGUAGCUAAUCAUAAUGACAGCAACAUGUUGCUUAGGCCAAAGGCGAAAUUAGUAAUUUGCUAUUUUAUUU
...........(((((((((((((((((((.(((..((.....)).))).))))))))))...(((...)))........)))))))))......... ( -28.90)
>DroSec_CAF1 9649 98 - 1
CUGUUGCAGCCAGCAAAUUGGGCAACAUGUAGCUAAUCAUAAUGACAGCAACAUGUUGCAUAGGCCAAAGGCGAAAUUAGUAAUUUGCUACUUUAUUU
...........(((((((((.(((((((((.(((..((.....)).))).)))))))))....(((...)))........)))))))))......... ( -28.50)
>DroSim_CAF1 10113 98 - 1
CUGUUGCAGCCAGCAAAUUGGGCAACAUGUAGCUAAUCAUAAUGACAGCAACAUGUUGCACAGGCCAAAGGCGAAAUUAGUAAUUUGCUACUUUAUUU
...........(((((((((.(((((((((.(((..((.....)).))).)))))))))....(((...)))........)))))))))......... ( -28.50)
>DroEre_CAF1 9762 98 - 1
CUGUUGCGGCCAGCAAAUUGGGCAACAUGUAGCUAAUCAUAAUGACUGCAACAUGUUGCUUAGGCCAAAGGCGAAAUUAGUAAUUUGCCUUUUUUUAU
.......((((.......((((((((((((.((...((.....))..)).))))))))))))))))(((((((((........)))))))))...... ( -34.01)
>DroYak_CAF1 9806 98 - 1
CUGUUGCGGCCAGCAAAUUGGGCAACAUGUAGCUAAUCAUAAUGACAGCAACAUGUUGCAUAGGCCAAAGGCGAAAUUAGUAAUUUGCUAUUUUAUUU
...........(((((((((.(((((((((.(((..((.....)).))).)))))))))....(((...)))........)))))))))......... ( -28.50)
>DroAna_CAF1 9809 98 - 1
CUUCAACAGACAGCAAAUUAGGCAACAUGUUGCUAAUCAUAAUGACAGCAACAUGUUGCAUAGGCCAAAGGCGAAAUUUGUAAUUUGCUAUUUUAUUU
...........(((((((((.(((((((((((((..((.....)).)))))))))))))....(((...)))........)))))))))......... ( -32.90)
>consensus
CUGUUGCAGCCAGCAAAUUGGGCAACAUGUAGCUAAUCAUAAUGACAGCAACAUGUUGCAUAGGCCAAAGGCGAAAUUAGUAAUUUGCUAUUUUAUUU
...........(((((((((.(((((((((.(((..((.....)).))).)))))))))....(((...)))........)))))))))......... (-27.04 = -27.23 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:12 2006