Locus 3098

Sequence ID 2R_DroMel_CAF1
Location 10,594,891 – 10,595,008
Length 117
Max. P 0.990556
window5114 window5115

overview

Window 4

Location 10,594,891 – 10,595,008
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.76
Mean single sequence MFE -31.98
Consensus MFE -22.83
Energy contribution -23.07
Covariance contribution 0.24
Combinations/Pair 1.14
Mean z-score -3.05
Structure conservation index 0.71
SVM decision value 2.22
SVM RNA-class probability 0.990556
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10594891 117 + 20766785
AUACGAAAGGUA---ACUGCAUGACUACGAGAAGUUAAUUAUACUGAGACACUUCCUAAUUGGCUUCCUGUUUGGGAAGCAAUCUAUUGUGCUACAUUAAUUAACUCCAAAUCGUAGUCA
...(....)...---......(((((((((..(((((((((.....((.(((..........(((((((....)))))))........)))))....))))))))).....))))))))) ( -35.47)
>DroSec_CAF1 43929 117 + 1
AUACGAAAGGUA---ACUGCAUGACUACGAGAAGUUAAUUAGACUGAGACACUUCCUAAUUGGCUUCCUGUUUGGGAAGCAAUCUAUUGUGCCACAGUAAUUAACUGCAAAUCGUUGUCA
...(....)...---......((((.((((..((((((((..((((.(.(((..........(((((((....)))))))........))).).)))))))))))).....)))).)))) ( -33.37)
>DroSim_CAF1 43213 117 + 1
AUAAGAAAGGUA---ACUGCAUGACUACGAGAAGAUAAUUAGACUGAGACACUUCCUAAUUGGCUUCCUGUUUGGGAAGCAAUCUAUUGUGCCACAGUAAUUAACUGCAAAUCGUUGUCA
............---......((((.((((..((.(((((..((((.(.(((..........(((((((....)))))))........))).).))))))))).)).....)))).)))) ( -27.77)
>DroEre_CAF1 43193 96 + 1
AUA------------------------CGAGAAGUUAAUUAGAGUGAGACACUUCCUAAUUGGCUUCCUGUUUAGGCAGCCAUAUAUUGUGCUGUAGUGAUUAACUACAAAUCGUAGUCA
.((------------------------(((((((((((((((((((...))))..)))))))))))).(((....(((((((.....)).)))))(((.....))))))..))))).... ( -27.20)
>DroYak_CAF1 50617 120 + 1
AUACGAUAGGUACUCACUACAUGACUACGAGAAGUUAAUUAGACUGAGACACUUCCCAAUCGGCUUCCUGCUUAGGAAGCAAUCUAUUGUGCUGUACUGAUUAACUACAAAUCGUAGUCA
....(.(((.......)))).(((((((((..((((((((((((..((.(((..........(((((((....)))))))........))))))).)))))))))).....))))))))) ( -36.07)
>consensus
AUACGAAAGGUA___ACUGCAUGACUACGAGAAGUUAAUUAGACUGAGACACUUCCUAAUUGGCUUCCUGUUUGGGAAGCAAUCUAUUGUGCUACAGUAAUUAACUACAAAUCGUAGUCA
......................(((.((((..(((((((((...((.(.(((..........(((((((....)))))))........))))))...))))))))).....)))).))). (-22.83 = -23.07 +   0.24)

alignment

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secondary structure

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dotplot

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Window 5

Location 10,594,891 – 10,595,008
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.76
Mean single sequence MFE -31.97
Consensus MFE -19.52
Energy contribution -21.36
Covariance contribution 1.84
Combinations/Pair 1.06
Mean z-score -3.08
Structure conservation index 0.61
SVM decision value 1.56
SVM RNA-class probability 0.963933
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10594891 117 - 20766785
UGACUACGAUUUGGAGUUAAUUAAUGUAGCACAAUAGAUUGCUUCCCAAACAGGAAGCCAAUUAGGAAGUGUCUCAGUAUAAUUAACUUCUCGUAGUCAUGCAGU---UACCUUUCGUAU
(((((((((...(((((((((((.((..((((..(.((((((((((......))))).))))).)...))))..))...))))))))))))))))))))......---............ ( -37.90)
>DroSec_CAF1 43929 117 - 1
UGACAACGAUUUGCAGUUAAUUACUGUGGCACAAUAGAUUGCUUCCCAAACAGGAAGCCAAUUAGGAAGUGUCUCAGUCUAAUUAACUUCUCGUAGUCAUGCAGU---UACCUUUCGUAU
((((.((((...(.((((((((((((.(((((..(.((((((((((......))))).))))).)...))))).))))..)))))))).))))).))))......---............ ( -34.20)
>DroSim_CAF1 43213 117 - 1
UGACAACGAUUUGCAGUUAAUUACUGUGGCACAAUAGAUUGCUUCCCAAACAGGAAGCCAAUUAGGAAGUGUCUCAGUCUAAUUAUCUUCUCGUAGUCAUGCAGU---UACCUUUCUUAU
((((.((((...(.((.(((((((((.(((((..(.((((((((((......))))).))))).)...))))).))))..))))).)).))))).))))......---............ ( -30.10)
>DroEre_CAF1 43193 96 - 1
UGACUACGAUUUGUAGUUAAUCACUACAGCACAAUAUAUGGCUGCCUAAACAGGAAGCCAAUUAGGAAGUGUCUCACUCUAAUUAACUUCUCG------------------------UAU
....(((((.(((((((.....))))))).........(((((.(((....))).))))).....(((((...............))))))))------------------------)). ( -22.66)
>DroYak_CAF1 50617 120 - 1
UGACUACGAUUUGUAGUUAAUCAGUACAGCACAAUAGAUUGCUUCCUAAGCAGGAAGCCGAUUGGGAAGUGUCUCAGUCUAAUUAACUUCUCGUAGUCAUGUAGUGAGUACCUAUCGUAU
(((((((((.....(((((((...................(((((((....))))))).((((((((....))))))))..)))))))..)))))))))..................... ( -35.00)
>consensus
UGACUACGAUUUGCAGUUAAUUACUGUAGCACAAUAGAUUGCUUCCCAAACAGGAAGCCAAUUAGGAAGUGUCUCAGUCUAAUUAACUUCUCGUAGUCAUGCAGU___UACCUUUCGUAU
((((.((((...(.(((((((((....(((((....((((((((((......))))).))))).....))).)).....))))))))).))))).))))..................... (-19.52 = -21.36 +   1.84)

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 10:47:30 2006