Locus 59

Sequence ID Eco_1
Location 3,054,044 – 3,054,204
Length 160
Max. P 0.987959
window186 window187 window188 window189

overview

Window 6

Location 3,054,044 – 3,054,164
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -44.47
Consensus MFE -44.69
Energy contribution -44.47
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.82
Structure conservation index 1.00
SVM decision value 2.10
SVM RNA-class probability 0.987959
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3054044 120 + 1
CCGAUAUUUCAUACCACAAGAAUGUGGCGCUCCGCGGUUGGUGAGCAUGCUCGGUCCGUCCGAGAAGCCUUAAAACUGCGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAG
...................(((((((.((...(((((((..((((....(((((.....)))))....)))).))))))).)).))))))).(((((((((...)))))))))....... ( -45.10)
>Sfl_1 81 120 + 1
CCGAUAUUUCAUACCACAAGAAUGUGGCGCUCCGCGGUUGGUGAGCAUGCUCGGUUCGUCCGAGAAGCCUUAAAACUGCGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAG
...................(((((((.((...(((((((..((((....(((((.....)))))....)))).))))))).)).))))))).(((((((((...)))))))))....... ( -45.10)
>Sty_1 81 120 + 1
CCGAUAUUUCAUACCACAAGAAUGUGGCGCUCCGCGGUUGGUGAGCAUGCUCGGUUCGUCCGAGAAGCCUUAAAACUGUGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAG
...................(((((((.((...(((((((..((((....(((((.....)))))....)))).))))))).)).))))))).(((((((((...)))))))))....... ( -43.20)
>consensus
CCGAUAUUUCAUACCACAAGAAUGUGGCGCUCCGCGGUUGGUGAGCAUGCUCGGUUCGUCCGAGAAGCCUUAAAACUGCGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAG
...................(((((((.((...(((((((..((((....(((((.....)))))....)))).))))))).)).))))))).(((((((((...)))))))))....... (-44.69 = -44.47 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 7

Location 3,054,044 – 3,054,164
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -40.90
Consensus MFE -39.15
Energy contribution -38.93
Covariance contribution -0.22
Combinations/Pair 1.02
Mean z-score -1.63
Structure conservation index 0.96
SVM decision value 0.21
SVM RNA-class probability 0.634134
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3054044 120 - 1
CUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCGCAGUUUUAAGGCUUCUCGGACGGACCGAGCAUGCUCACCAACCGCGGAGCGCCACAUUCUUGUGGUAUGAAAUAUCGG
.......(((((((((...)))))))))(((.((((....))))((((((..(((((.(((..((...(((....))).))..))).)))))((((((....)))))).)))))).))). ( -42.40)
>Sfl_1 81 120 - 1
CUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCGCAGUUUUAAGGCUUCUCGGACGAACCGAGCAUGCUCACCAACCGCGGAGCGCCACAUUCUUGUGGUAUGAAAUAUCGG
(..(((.(((((((((...))))))))).(((((((.((((((.(((....(((..(((((.....)))))...)))....))).)))..))).))))))))))..)............. ( -41.10)
>Sty_1 81 120 - 1
CUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCACAGUUUUAAGGCUUCUCGGACGAACCGAGCAUGCUCACCAACCGCGGAGCGCCACAUUCUUGUGGUAUGAAAUAUCGG
.......(((((((((...)))))))))(((.((((....))))((((((..(((((.(((..(....(((....)))..)..))).)))))((((((....)))))).)))))).))). ( -39.20)
>consensus
CUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCGCAGUUUUAAGGCUUCUCGGACGAACCGAGCAUGCUCACCAACCGCGGAGCGCCACAUUCUUGUGGUAUGAAAUAUCGG
.......(((((((((...)))))))))(((.((((....))))((((((..(((((.(((..(....(((....)))..)..))).)))))((((((....)))))).)))))).))). (-39.15 = -38.93 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,054,084 – 3,054,204
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -42.87
Consensus MFE -40.00
Energy contribution -40.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.93
SVM decision value 0.21
SVM RNA-class probability 0.633879
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3054084 120 + 1
GUGAGCAUGCUCGGUCCGUCCGAGAAGCCUUAAAACUGCGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAGCCUGCGGCGGCAUCUCGGAGAUUCCCUUCUUAUCUGGCAC
(((((....)))((....(((((((.(((.......((..((((.....)).(((((((((...)))))))))))..))(((...)))))).)))))))....))...........)).. ( -40.70)
>Sfl_1 121 120 + 1
GUGAGCAUGCUCGGUUCGUCCGAGAAGCCUUAAAACUGCGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAGCCUGCGGCGGCAUCUCGGAGAUUCCCUUCUUAUCUGGCAC
(((((....)))((.((.(((((((.(((.......((..((((.....)).(((((((((...)))))))))))..))(((...)))))).)))))))))..))...........)).. ( -41.70)
>Sty_1 121 120 + 1
GUGAGCAUGCUCGGUUCGUCCGAGAAGCCUUAAAACUGUGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAGCCUGCGGCGGCAUCUCGGAGAUUCCCCUUCUGACUGGCGA
((.((((.....((.((.(((((((.(((.......((((((((.....)).(((((((((...)))))))))))))))(((...)))))).)))))))))..)).....)).)).)).. ( -46.20)
>consensus
GUGAGCAUGCUCGGUUCGUCCGAGAAGCCUUAAAACUGCGACGACACAUUCACCUUGAACCAAGGGUUCAAGGGUUACAGCCUGCGGCGGCAUCUCGGAGAUUCCCUUCUUAUCUGGCAC
(((((....)))((....(((((((.(((.......((.(((((.....)).(((((((((...)))))))))))).))(((...)))))).)))))))....))...........)).. (-40.00 = -40.00 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,054,084 – 3,054,204
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -43.60
Consensus MFE -43.07
Energy contribution -42.63
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -1.51
Structure conservation index 0.99
SVM decision value 0.33
SVM RNA-class probability 0.690065
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 3054084 120 - 1
GUGCCAGAUAAGAAGGGAAUCUCCGAGAUGCCGCCGCAGGCUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCGCAGUUUUAAGGCUUCUCGGACGGACCGAGCAUGCUCAC
..............((...(((((((((.(((.....((((((..(((((((((((...))))))))).((.....))))..))))))...))).))))))).)).))(((....))).. ( -42.90)
>Sfl_1 121 120 - 1
GUGCCAGAUAAGAAGGGAAUCUCCGAGAUGCCGCCGCAGGCUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCGCAGUUUUAAGGCUUCUCGGACGAACCGAGCAUGCUCAC
..............((...(((((((((.(((.....((((((..(((((((((((...))))))))).((.....))))..))))))...))).))))))).)).))(((....))).. ( -43.80)
>Sty_1 121 120 - 1
UCGCCAGUCAGAAGGGGAAUCUCCGAGAUGCCGCCGCAGGCUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCACAGUUUUAAGGCUUCUCGGACGAACCGAGCAUGCUCAC
((.((........)).)).(((((((((.(((.....(((((((.(((((((((((...))))))))).((.....)))).)))))))...))).))))))).))...(((....))).. ( -44.10)
>consensus
GUGCCAGAUAAGAAGGGAAUCUCCGAGAUGCCGCCGCAGGCUGUAACCCUUGAACCCUUGGUUCAAGGUGAAUGUGUCGUCGCAGUUUUAAGGCUUCUCGGACGAACCGAGCAUGCUCAC
..............((...(((((((((.(((.....(((((((.(((((((((((...))))))))).((.....)))).)))))))...))).))))))).)).))(((....))).. (-43.07 = -42.63 +  -0.44)

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 11:04:43 2006