Locus 95

Sequence ID Eco_1
Location 4,047,899 – 4,048,047
Length 148
Max. P 0.987154
window320 window321 window322

overview

Window 0

Location 4,047,899 – 4,048,018
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.77
Mean single sequence MFE -32.23
Consensus MFE -30.22
Energy contribution -30.00
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.95
Structure conservation index 0.94
SVM decision value 0.55
SVM RNA-class probability 0.777101
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 4047899 119 + 1
CAAAAAAGAGUAAAGUUAGUCGCGUAGGGUACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUA-AUGACU
.......((.((....)).))((((..((((.((((((((((((...))))))....))))))))))..))))....((...(((((((.....)))))))..))(((((...-.))))) ( -32.30)
>Sfl_1 1 119 + 1
CAAAAAAGAGUAAAGUUAGUCGCGUAGGGUACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUA-AUGACU
.......((.((....)).))((((..((((.((((((((((((...))))))....))))))))))..))))....((...(((((((.....)))))))..))(((((...-.))))) ( -32.30)
>Sty_1 1 120 + 1
CAAAAAAGAGUAAAGUUAUUCACGUAGGGUACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUUUAUGACU
.......(((((....)))))((((..((((.((((((((((((...))))))....))))))))))..))))....((...(((((((.....)))))))..))(((((.....))))) ( -32.10)
>consensus
CAAAAAAGAGUAAAGUUAGUCGCGUAGGGUACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUA_AUGACU
.....................((((..((((.((((((((((((...))))))....))))))))))..))))....((...(((((((.....)))))))..))(((((.....))))) (-30.22 = -30.00 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,047,928 – 4,048,047
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.77
Mean single sequence MFE -42.27
Consensus MFE -40.90
Energy contribution -40.90
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -4.21
Structure conservation index 0.97
SVM decision value 1.97
SVM RNA-class probability 0.984280
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 4047928 119 + 1
UACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUA-AUGACUGGGGCGUUUUUUAUUGGGCGAAAGAAAAG
....(((((((((.((.((.......)))).))))))))).(((..........((((((.....))))))((((((((((...-.))))))))))............)))......... ( -42.70)
>Sfl_1 30 119 + 1
UACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUA-AUGACUGGGGCGUUUUUUAUUGGGCGAAAGAAAAG
....(((((((((.((.((.......)))).))))))))).(((..........((((((.....))))))((((((((((...-.))))))))))............)))......... ( -42.70)
>Sty_1 30 120 + 1
UACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUUUAUGACUGGGGCGUUUUUUAUUGUGCGCAAGAAAAG
....(((((((((.((.((.......)))).))))))))).((((.........((((((.....))))))((((((((((.....))))))))))...........))))......... ( -41.40)
>consensus
UACAGAGGUAAGAUGUUCUAUCUUUCAGACCUUUUACUUCACGUAAUCGGAUUUGGCUGAAUAUUUUAGCCGCCCCAGUCAGUA_AUGACUGGGGCGUUUUUUAUUGGGCGAAAGAAAAG
....(((((((((.((.((.......)))).))))))))).(((..........((((((.....))))))((((((((((.....))))))))))............)))......... (-40.90 = -40.90 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,047,928 – 4,048,047
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.77
Mean single sequence MFE -35.63
Consensus MFE -34.87
Energy contribution -35.20
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -4.20
Structure conservation index 0.98
SVM decision value 2.07
SVM RNA-class probability 0.987154
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 4047928 119 - 1
CUUUUCUUUCGCCCAAUAAAAAACGCCCCAGUCAU-UACUGACUGGGGCGGCUAAAAUAUUCAGCCAAAUCCGAUUACGUGAAGUAAAAGGUCUGAAAGAUAGAACAUCUUACCUCUGUA
(((((.((((((............((((((((((.-...))))))))))((((.........))))............)))))).)))))......(((((.....)))))......... ( -36.00)
>Sfl_1 30 119 - 1
CUUUUCUUUCGCCCAAUAAAAAACGCCCCAGUCAU-UACUGACUGGGGCGGCUAAAAUAUUCAGCCAAAUCCGAUUACGUGAAGUAAAAGGUCUGAAAGAUAGAACAUCUUACCUCUGUA
(((((.((((((............((((((((((.-...))))))))))((((.........))))............)))))).)))))......(((((.....)))))......... ( -36.00)
>Sty_1 30 120 - 1
CUUUUCUUGCGCACAAUAAAAAACGCCCCAGUCAUAAACUGACUGGGGCGGCUAAAAUAUUCAGCCAAAUCCGAUUACGUGAAGUAAAAGGUCUGAAAGAUAGAACAUCUUACCUCUGUA
((((((((.(((............((((((((((.....))))))))))((((.........))))............)))))).)))))......(((((.....)))))......... ( -34.90)
>consensus
CUUUUCUUUCGCCCAAUAAAAAACGCCCCAGUCAU_UACUGACUGGGGCGGCUAAAAUAUUCAGCCAAAUCCGAUUACGUGAAGUAAAAGGUCUGAAAGAUAGAACAUCUUACCUCUGUA
(((((.((((((............((((((((((.....))))))))))((((.........))))............)))))).)))))......(((((.....)))))......... (-34.87 = -35.20 +   0.33)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:06:40 2006