Locus 121

Sequence ID sp_mu.0
Location 24,586 – 24,682
Length 96
Max. P 0.997853
window787 window788 window789 window790

overview

Window 7

Location 24,586 – 24,682
Length 96
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 74.23
Mean single sequence MFE -31.80
Consensus MFE -29.72
Energy contribution -30.73
Covariance contribution 1.02
Combinations/Pair 1.31
Mean z-score -5.33
Structure conservation index 0.93
SVM decision value 2.95
SVM RNA-class probability 0.997853
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 24586 96 - 2030921
AAUUUGAUAAAAUAAAUAUAACAAUAAUCAUGAUGGUCAAAGCUCAUGAGAAUUGUUGGUCUUUU-GACCCACAAUUUUCGAGGGUUUUGGCUAUUU
...............................((((((((((((((.((((((((((.((((....-)))).)))))))))).)))))))))))))). ( -34.90)
>sp_ag.0 34359 97 - 2160267
UAAAUGCUAAAAUAAAUUUAACAAUAACUAUGAUGGUCAAAGCUCAUGGAAUUUGUAAGUCUUUUUGACGUACAAUUUUCGAGAGUUUUGGCUAUUU
...............................((((((((((((((.(((((.(((((.(((.....))).))))).))))).)))))))))))))). ( -30.00)
>sp_pn.0 131753 97 + 2038615
AAUUUGCUACAAUAAUAACAGCAAUAGAAAUGAUGGUCAAAGCUCAUGGAUGUUGCAGGCUUUUUUGUCCUGCACUUCUUUGUAGUUUUGACUGUUU
...(((((...........))))).......(((((((((((((((.(((.((.((((((......).))))))).))).)).))))))))))))). ( -30.50)
>consensus
AAUUUGCUAAAAUAAAUAUAACAAUAAAAAUGAUGGUCAAAGCUCAUGGAAAUUGUAGGUCUUUUUGACCUACAAUUUUCGAGAGUUUUGGCUAUUU
...............................((((((((((((((.(((((((((((((((.....))))))))))))))).)))))))))))))). (-29.72 = -30.73 +   1.02)

alignment

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secondary structure

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dotplot

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Window 8

Location 24,586 – 24,682
Length 96
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 74.23
Mean single sequence MFE -18.43
Consensus MFE -9.82
Energy contribution -12.16
Covariance contribution 2.34
Combinations/Pair 1.17
Mean z-score -2.29
Structure conservation index 0.53
SVM decision value 1.09
SVM RNA-class probability 0.913824
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 24586 96 - 2030921
AAAUAGCCAAAACCCUCGAAAAUUGUGGGUC-AAAAGACCAACAAUUCUCAUGAGCUUUGACCAUCAUGAUUAUUGUUAUAUUUAUUUUAUCAAAUU
..(((((.............((((((.((((-....)))).)))))).((((((..........)))))).....)))))................. ( -16.90)
>sp_ag.0 34359 97 - 2160267
AAAUAGCCAAAACUCUCGAAAAUUGUACGUCAAAAAGACUUACAAAUUCCAUGAGCUUUGACCAUCAUAGUUAUUGUUAAAUUUAUUUUAGCAUUUA
.((((((((((.(((..(((..(((((.(((.....))).))))).)))...))).)))).........))))))((((((.....))))))..... ( -16.50)
>sp_pn.0 131753 97 + 2038615
AAACAGUCAAAACUACAAAGAAGUGCAGGACAAAAAAGCCUGCAACAUCCAUGAGCUUUGACCAUCAUUUCUAUUGCUGUUAUUAUUGUAGCAAAUU
.....((((((.((.((..((..((((((.(......)))))))...))..)))).))))))...........((((((.........))))))... ( -21.90)
>consensus
AAAUAGCCAAAACUCUCGAAAAUUGUAGGUCAAAAAGACCUACAAAUUCCAUGAGCUUUGACCAUCAUAAUUAUUGUUAUAUUUAUUUUAGCAAAUU
.......((((.(((........((((((((.....))))))))........))).)))).............((((((((.....))))))))... ( -9.82 = -12.16 +   2.34) 
# Strand winner: forward (0.98)

alignment

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secondary structure

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dotplot

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Window 9

Location 24,586 – 24,682
Length 96
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 74.23
Mean single sequence MFE -31.80
Consensus MFE -29.72
Energy contribution -30.73
Covariance contribution 1.02
Combinations/Pair 1.31
Mean z-score -5.33
Structure conservation index 0.93
SVM decision value 2.95
SVM RNA-class probability 0.997853
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 24586 96 - 2030921/0-97
AAUUUGAUAAAAUAAAUAUAACAAUAAUCAUGAUGGUCAAAGCUCAUGAGAAUUGUUGGUCUUUU-GACCCACAAUUUUCGAGGGUUUUGGCUAUUU
...............................((((((((((((((.((((((((((.((((....-)))).)))))))))).)))))))))))))). ( -34.90)
>sp_ag.0 34359 97 - 2160267/0-97
UAAAUGCUAAAAUAAAUUUAACAAUAACUAUGAUGGUCAAAGCUCAUGGAAUUUGUAAGUCUUUUUGACGUACAAUUUUCGAGAGUUUUGGCUAUUU
...............................((((((((((((((.(((((.(((((.(((.....))).))))).))))).)))))))))))))). ( -30.00)
>sp_pn.0 131753 97 + 2038615/0-97
AAUUUGCUACAAUAAUAACAGCAAUAGAAAUGAUGGUCAAAGCUCAUGGAUGUUGCAGGCUUUUUUGUCCUGCACUUCUUUGUAGUUUUGACUGUUU
...(((((...........))))).......(((((((((((((((.(((.((.((((((......).))))))).))).)).))))))))))))). ( -30.50)
>consensus
AAUUUGCUAAAAUAAAUAUAACAAUAAAAAUGAUGGUCAAAGCUCAUGGAAAUUGUAGGUCUUUUUGACCUACAAUUUUCGAGAGUUUUGGCUAUUU
...............................((((((((((((((.(((((((((((((((.....))))))))))))))).)))))))))))))). (-29.72 = -30.73 +   1.02)

alignment

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secondary structure

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dotplot

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Window 0

Location 24,586 – 24,682
Length 96
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 74.23
Mean single sequence MFE -18.43
Consensus MFE -9.82
Energy contribution -12.16
Covariance contribution 2.34
Combinations/Pair 1.17
Mean z-score -2.29
Structure conservation index 0.53
SVM decision value 1.09
SVM RNA-class probability 0.913824
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 24586 96 - 2030921/0-97
AAAUAGCCAAAACCCUCGAAAAUUGUGGGUC-AAAAGACCAACAAUUCUCAUGAGCUUUGACCAUCAUGAUUAUUGUUAUAUUUAUUUUAUCAAAUU
..(((((.............((((((.((((-....)))).)))))).((((((..........)))))).....)))))................. ( -16.90)
>sp_ag.0 34359 97 - 2160267/0-97
AAAUAGCCAAAACUCUCGAAAAUUGUACGUCAAAAAGACUUACAAAUUCCAUGAGCUUUGACCAUCAUAGUUAUUGUUAAAUUUAUUUUAGCAUUUA
.((((((((((.(((..(((..(((((.(((.....))).))))).)))...))).)))).........))))))((((((.....))))))..... ( -16.50)
>sp_pn.0 131753 97 + 2038615/0-97
AAACAGUCAAAACUACAAAGAAGUGCAGGACAAAAAAGCCUGCAACAUCCAUGAGCUUUGACCAUCAUUUCUAUUGCUGUUAUUAUUGUAGCAAAUU
.....((((((.((.((..((..((((((.(......)))))))...))..)))).))))))...........((((((.........))))))... ( -21.90)
>consensus
AAAUAGCCAAAACUCUCGAAAAUUGUAGGUCAAAAAGACCUACAAAUUCCAUGAGCUUUGACCAUCAUAAUUAUUGUUAUAUUUAUUUUAGCAAAUU
.......((((.(((........((((((((.....))))))))........))).)))).............((((((((.....))))))))... ( -9.82 = -12.16 +   2.34) 
# Strand winner: forward (0.98)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 19:01:38 2006