Locus 7689

Sequence ID 3L_DroMel_CAF1
Location 20,588,553 – 20,588,697
Length 144
Max. P 0.995276
window12496 window12497

overview

Window 6

Location 20,588,553 – 20,588,673
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -35.39
Consensus MFE -30.89
Energy contribution -30.89
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.87
SVM decision value 2.56
SVM RNA-class probability 0.995276
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20588553 120 + 23771897
GGCGCAAUGUGCCCCCACAUGCAAAUUGGCUGCUCGACAAUCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACG
(((((...)))))......(((((...((.(((..........))).)))))))((((((((((.......((((((..................))))))....))))))))))..... ( -36.67)
>DroSec_CAF1 33299 120 + 1
GGCGCAAUGUGCCCCCACAUGCAAAUUGGCUGCUCGACAAUCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACG
(((((...)))))......(((((...((.(((..........))).)))))))((((((((((.......((((((..................))))))....))))))))))..... ( -36.67)
>DroAna_CAF1 54679 113 + 1
AUUCGAAUGUGCCCCCACAUGCAAAUUGGUUGCUCG-------GCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACG
.(((..(((((....)))))((((...((.(((...-------))).)))))).((((((((((.......((((((..................))))))....))))))))))))).. ( -33.17)
>DroSim_CAF1 26801 120 + 1
UGCGCAAUGUGCCCCCACAUGCAAAUUGGCUGCUCGACAAUCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACG
((((((.((((....))))))).....((.(((..........))).))..)))((((((((((.......((((((..................))))))....))))))))))..... ( -35.97)
>DroEre_CAF1 26405 109 + 1
G-----------CCCCAGAUGCAAAUUGGCUGCUCGGCAAUCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACG
(-----------(....(((((..((((.(.....).))))..)))))...)).((((((((((.......((((((..................))))))....))))))))))..... ( -34.47)
>consensus
GGCGCAAUGUGCCCCCACAUGCAAAUUGGCUGCUCGACAAUCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACG
...................(((((...((.(((..........))).)))))))((((((((((.......((((((..................))))))....))))))))))..... (-30.89 = -30.89 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,588,593 – 20,588,697
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.32
Mean single sequence MFE -36.33
Consensus MFE -29.51
Energy contribution -29.35
Covariance contribution -0.16
Combinations/Pair 1.08
Mean z-score -2.49
Structure conservation index 0.81
SVM decision value 2.18
SVM RNA-class probability 0.989676
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20588593 104 + 23771897
UCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACGCA----UCGAAGUCGCUUCGCAGGG------------GGA
......(((((((.((((((((((.......((((((..................))))))....))))))))))(((.((.----........)))))))))))------------).. ( -36.07)
>DroSec_CAF1 33339 104 + 1
UCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACGCA----UCGAAGUCGCUUCGCAGGG------------GGA
......(((((((.((((((((((.......((((((..................))))))....))))))))))(((.((.----........)))))))))))------------).. ( -36.07)
>DroAna_CAF1 54715 117 + 1
---GCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACGCAUGCAUCCAAGUGGCCCAGUAGCUUCGGCUGCCCGUGUU
---(((....))).((((((((((.......((((((..................))))))....)))))))))).(((((......((....))....(((((....)))))..))))) ( -39.17)
>DroSim_CAF1 26841 104 + 1
UCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACGCA----UCGAAGUCGCUUCGCAGGG------------GGA
......(((((((.((((((((((.......((((((..................))))))....))))))))))(((.((.----........)))))))))))------------).. ( -36.07)
>DroEre_CAF1 26434 103 + 1
UCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACGCA----UCGAAGCCGCU-CGUAGGG------------AGA
......(((((((.((((((((((.......((((((..................))))))....))))))))))((.(((.----.....).)).)-)))))))------------).. ( -34.27)
>consensus
UCCGCAUCCUUGCAGCCAUGUGUUGACUUAAGUGCCACACAAUUUACUACACUUUUGGCAUGACAAACGCAUGGCGAACGCA____UCGAAGUCGCUUCGCAGGG____________GGA
.......((((((.((((((((((.......((((((..................))))))....))))))))))............((....))....))))))............... (-29.51 = -29.35 +  -0.16)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:55 2006