Locus 8

Sequence ID nosto.0
Location 1,819,469 – 1,819,685
Length 216
Max. P 0.998677
window14 window15 window16 window17 window18 window19 window20 window21

overview

Window 4

Location 1,819,469 – 1,819,588
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.31
Mean single sequence MFE -33.45
Consensus MFE -32.31
Energy contribution -30.15
Covariance contribution -2.16
Combinations/Pair 1.25
Mean z-score -1.32
Structure conservation index 0.97
SVM decision value 1.35
SVM RNA-class probability 0.944852
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819469 119 + 6413771
GGGUCGGUGUCCGAGUGGUUAAUGGAGACGGACUGUAAAUCCGUUGGUUUACACCUACGCUGGUUCAAAUCCAGCCCGGCCCACCUUCA-AUUUUAGAUUUUGAAUUAUAACCUAGUUCA
(((((((.((((..((.....))(....)))))((((((((....)))))))).....(((((.......)))))))))))).......-...........(((((((.....))))))) ( -35.90)
>proch.0 1343538 91 - 1709204
-GGUCGGUGCCCGAGUGGUUAAAGGGGGCGGACUGUAAAUCCGCUGGCUC-UGCCUACGUUGGUUCAAAUCCAACCCGGCCCACUUUUA-AAUU--------------------------
-((((((.......((((....((((((((((.......))))))..)))-)..))))(((((.......)))))))))))........-....-------------------------- ( -30.10)
>synec.0 1843149 91 + 2434428
-GGUCGGUGCCCGAGUGGUUAAUGGGGGCGGACUGUAAAUCCGCUGGCUC-UGCCUACGUUGGUUCAAAUCCAACCCGGCCCAUCCUCC-ACAU--------------------------
-..((((...))))((((...(((((((((((.......))))))(((..-.)))...(((((.......)))))....)))))...))-))..-------------------------- ( -32.50)
>anava.0 6278818 119 + 6365727
GGGUCGGUGUCCGAGUGGUUAAUGGAGACGGACUGUAAAUCCGUUGGUUUACACCUACGCUGGUUCAAAUCCAGCCCGGCCCACCUUCA-AUUUUAGAUUUUGAAUUAUAACCUAGUUCA
(((((((.((((..((.....))(....)))))((((((((....)))))))).....(((((.......)))))))))))).......-...........(((((((.....))))))) ( -35.90)
>synel.0 1998599 92 - 2696255
GGGUCGAUGCCCGAGUGGUUAAUGGGGGUGGACUGUAAAUCCACUGGCUA-CGCCUACGCUGGUUCGAAUCCAGCUCGGCCCACCUUUC-CACU--------------------------
((((....)))).(((((....((((((((((.......))))))(((..-.)))...(((((.......)))))....)))).....)-))))-------------------------- ( -34.20)
>gloev.0 3245929 93 - 4659019
GGGUCGGUGUCCGAGUGGUUAAAGGAGACGGACUGUAAAUCCGUUGGCUC-UGCCUACGUUGGUUCAAAUCCAACCCGGCCCACAUUUGUAUAU--------------------------
(((((((.......((((.((.((..((((((.......))))))..)).-)).))))(((((.......))))))))))))............-------------------------- ( -32.10)
>consensus
GGGUCGGUGCCCGAGUGGUUAAUGGAGACGGACUGUAAAUCCGCUGGCUC_CGCCUACGCUGGUUCAAAUCCAACCCGGCCCACCUUCA_AUUU__________________________
(((((((..(((...........)))((((((.......))))))(((....)))...(((((.......))))))))))))...................................... (-32.31 = -30.15 +  -2.16)

alignment

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secondary structure

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Window 5

Location 1,819,469 – 1,819,588
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.31
Mean single sequence MFE -33.05
Consensus MFE -28.58
Energy contribution -26.42
Covariance contribution -2.16
Combinations/Pair 1.26
Mean z-score -1.73
Structure conservation index 0.86
SVM decision value 1.82
SVM RNA-class probability 0.978807
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819469 119 - 6413771
UGAACUAGGUUAUAAUUCAAAAUCUAAAAU-UGAAGGUGGGCCGGGCUGGAUUUGAACCAGCGUAGGUGUAAACCAACGGAUUUACAGUCCGUCUCCAUUAACCACUCGGACACCGACCC
.......((((....(((((.........)-))))((((..(((((((((.......)))))((.(((........((((((.....))))))........))))))))).)))))))). ( -35.29)
>proch.0 1343538 91 + 1709204
--------------------------AAUU-UAAAAGUGGGCCGGGUUGGAUUUGAACCAACGUAGGCA-GAGCCAGCGGAUUUACAGUCCGCCCCCUUUAACCACUCGGGCACCGACC-
--------------------------....-.....(((((((..(((((.......)))))...)))(-(((...((((((.....))))))...))))..))))((((...))))..- ( -30.00)
>synec.0 1843149 91 - 2434428
--------------------------AUGU-GGAGGAUGGGCCGGGUUGGAUUUGAACCAACGUAGGCA-GAGCCAGCGGAUUUACAGUCCGCCCCCAUUAACCACUCGGGCACCGACC-
--------------------------..((-((..((((((((..(((((.......)))))...))).-......((((((.....))))))..)))))..))))((((...))))..- ( -34.80)
>anava.0 6278818 119 - 6365727
UGAACUAGGUUAUAAUUCAAAAUCUAAAAU-UGAAGGUGGGCCGGGCUGGAUUUGAACCAGCGUAGGUGUAAACCAACGGAUUUACAGUCCGUCUCCAUUAACCACUCGGACACCGACCC
.......((((....(((((.........)-))))((((..(((((((((.......)))))((.(((........((((((.....))))))........))))))))).)))))))). ( -35.29)
>synel.0 1998599 92 + 2696255
--------------------------AGUG-GAAAGGUGGGCCGAGCUGGAUUCGAACCAGCGUAGGCG-UAGCCAGUGGAUUUACAGUCCACCCCCAUUAACCACUCGGGCAUCGACCC
--------------------------((((-(...((((((((..(((((.......)))))...))).-......((((((.....))))))..)))))..))))).(((......))) ( -35.00)
>gloev.0 3245929 93 + 4659019
--------------------------AUAUACAAAUGUGGGCCGGGUUGGAUUUGAACCAACGUAGGCA-GAGCCAACGGAUUUACAGUCCGUCUCCUUUAACCACUCGGACACCGACCC
--------------------------..........(((((((..(((((.......)))))...))).-(((...((((((.....)))))))))......))))((((...))))... ( -27.90)
>consensus
__________________________AAAU_UAAAGGUGGGCCGGGCUGGAUUUGAACCAACGUAGGCA_GAGCCAACGGAUUUACAGUCCGCCCCCAUUAACCACUCGGACACCGACCC
......................................(((.((((((((.......)))))...(((....))).((((((.....)))))).(((...........)))..))).))) (-28.58 = -26.42 +  -2.16)

alignment

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secondary structure

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Window 6

Location 1,819,509 – 1,819,628
Length 119
Sequences 2
Columns 119
Reading direction forward
Mean pairwise identity 98.32
Mean single sequence MFE -34.73
Consensus MFE -34.65
Energy contribution -34.65
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -4.51
Structure conservation index 1.00
SVM decision value 2.78
SVM RNA-class probability 0.996994
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819509 119 + 6413771
CCGUUGGUUUACACCUACGCUGGUUCAAAUCCAGCCCGGCCCACCUUCAAUUUUAGAUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAAAUUUCGCCCGUGUGGCUCAGU
...(((..((((((....(((((.......)))))..(((........(((((((((((((((((((.....)))))))))))))))))))............))).))))))..))). ( -34.65)
>anava.0 6278858 119 + 6365727
CCGUUGGUUUACACCUACGCUGGUUCAAAUCCAGCCCGGCCCACCUUCAAUUUUAGAUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAACUUCCGCCCGUGUGGCUCAGU
...(((..((((((....(((((.......))))).(((.........(((((((((((((((((((.....)))))))))))))))))))..........)))...))))))..))). ( -34.81)
>consensus
CCGUUGGUUUACACCUACGCUGGUUCAAAUCCAGCCCGGCCCACCUUCAAUUUUAGAUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAAAUUCCGCCCGUGUGGCUCAGU
...(((..((((((....(((((.......)))))..(((........(((((((((((((((((((.....)))))))))))))))))))............))).))))))..))). (-34.65 = -34.65 +   0.00)

alignment

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secondary structure

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Window 7

Location 1,819,509 – 1,819,628
Length 119
Sequences 2
Columns 119
Reading direction reverse
Mean pairwise identity 98.32
Mean single sequence MFE -37.10
Consensus MFE -35.45
Energy contribution -35.95
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -3.20
Structure conservation index 0.96
SVM decision value 2.44
SVM RNA-class probability 0.994029
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819509 119 - 6413771
ACUGAGCCACACGGGCGAAAUUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAUCUAAAAUUGAAGGUGGGCCGGGCUGGAUUUGAACCAGCGUAGGUGUAAACCAACGG
.(((.(((.(((...(((.((((....)))).((((((((((((.((.....)).))))))))))))..)))...)))))))))(((((.......)))))((.(((....))).)).. ( -34.40)
>anava.0 6278858 119 - 6365727
ACUGAGCCACACGGGCGGAAGUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAUCUAAAAUUGAAGGUGGGCCGGGCUGGAUUUGAACCAGCGUAGGUGUAAACCAACGG
.(((.(((.(((.(((....))).(((((...((((((((((((.((.....)).))))))))))))..))))).)))))))))(((((.......)))))((.(((....))).)).. ( -39.80)
>consensus
ACUGAGCCACACGGGCGAAAGUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAUCUAAAAUUGAAGGUGGGCCGGGCUGGAUUUGAACCAGCGUAGGUGUAAACCAACGG
.(((.(((.(((.(((....))).(((((...((((((((((((.((.....)).))))))))))))..))))).)))))))))(((((.......)))))((.(((....))).)).. (-35.45 = -35.95 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,819,549 – 1,819,668
Length 119
Sequences 2
Columns 119
Reading direction forward
Mean pairwise identity 98.32
Mean single sequence MFE -38.45
Consensus MFE -38.40
Energy contribution -38.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.96
Structure conservation index 1.00
SVM decision value 3.12
SVM RNA-class probability 0.998492
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819549 119 + 6413771
CCACCUUCAAUUUUAGAUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAAAUUUCGCCCGUGUGGCUCAGUGGUAGAGCACACCCUUGGUAAGGGUGAGGUCACGAGUUCA
.....((((((((((((((((((((((.....))))))))))))))))))).......((((((((((((((.(((.......))))))))(....)...)))))))))...))).... ( -38.50)
>anava.0 6278898 119 + 6365727
CCACCUUCAAUUUUAGAUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAACUUCCGCCCGUGUGGCUCAGUGGUAGAGCACACCCUUGGUAAGGGUGAGGUCACGAGUUCA
((((....(((((((((((((((((((.....)))))))))))))))))))............(((.....)))...))))..((((.((((((.....)))))).(....)..)))). ( -38.40)
>consensus
CCACCUUCAAUUUUAGAUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAAAUUCCGCCCGUGUGGCUCAGUGGUAGAGCACACCCUUGGUAAGGGUGAGGUCACGAGUUCA
((((....(((((((((((((((((((.....)))))))))))))))))))............(((.....)))...))))..((((.((((((.....)))))).(....)..)))). (-38.40 = -38.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 1,819,549 – 1,819,668
Length 119
Sequences 2
Columns 119
Reading direction reverse
Mean pairwise identity 98.32
Mean single sequence MFE -34.40
Consensus MFE -34.20
Energy contribution -34.20
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.88
Structure conservation index 0.99
SVM decision value 2.71
SVM RNA-class probability 0.996519
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819549 119 - 6413771
UGAACUCGUGACCUCACCCUUACCAAGGGUGUGCUCUACCACUGAGCCACACGGGCGAAAUUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAUCUAAAAUUGAAGGUGG
....((((((....((((((.....)))))).((((.......))))..)))))).......(((((.(((.((((((((((((.((.....)).)))))))))))).)))..))))). ( -34.20)
>anava.0 6278898 119 - 6365727
UGAACUCGUGACCUCACCCUUACCAAGGGUGUGCUCUACCACUGAGCCACACGGGCGGAAGUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAUCUAAAAUUGAAGGUGG
....((((((....((((((.....)))))).((((.......))))..))))))(....).(((((.(((.((((((((((((.((.....)).)))))))))))).)))..))))). ( -34.60)
>consensus
UGAACUCGUGACCUCACCCUUACCAAGGGUGUGCUCUACCACUGAGCCACACGGGCGAAAGUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAUCUAAAAUUGAAGGUGG
....((((((....((((((.....)))))).((((.......))))..)))))).......(((((.(((.((((((((((((.((.....)).)))))))))))).)))..))))). (-34.20 = -34.20 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,819,565 – 1,819,685
Length 120
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -39.30
Consensus MFE -39.30
Energy contribution -39.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.15
Structure conservation index 1.00
SVM decision value 3.02
SVM RNA-class probability 0.998164
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819565 120 + 6413771
AUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAAAUUUCGCCCGUGUGGCUCAGUGGUAGAGCACACCCUUGGUAAGGGUGAGGUCACGAGUUCAAUCCUCGUCACGGGCUU
(((((((((((.....)))))))))))....................(((((((..((((.......)))).((((((.....)))))).....(((((.......)))))))))))).. ( -39.30)
>anava.0 6278914 120 + 6365727
AUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAACUUCCGCCCGUGUGGCUCAGUGGUAGAGCACACCCUUGGUAAGGGUGAGGUCACGAGUUCAAUCCUCGUCACGGGCUU
(((((((((((.....)))))))))))....................(((((((..((((.......)))).((((((.....)))))).....(((((.......)))))))))))).. ( -39.30)
>consensus
AUUUUGAAUUAUAACCUAGUUCAAAAUCUAAGAUUUAAAUAAAUUCCGCCCGUGUGGCUCAGUGGUAGAGCACACCCUUGGUAAGGGUGAGGUCACGAGUUCAAUCCUCGUCACGGGCUU
(((((((((((.....)))))))))))....................(((((((..((((.......)))).((((((.....)))))).....(((((.......)))))))))))).. (-39.30 = -39.30 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,819,565 – 1,819,685
Length 120
Sequences 2
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -38.80
Consensus MFE -38.80
Energy contribution -38.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.58
Structure conservation index 1.00
SVM decision value 3.18
SVM RNA-class probability 0.998677
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1819565 120 - 6413771
AAGCCCGUGACGAGGAUUGAACUCGUGACCUCACCCUUACCAAGGGUGUGCUCUACCACUGAGCCACACGGGCGAAAUUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAU
..((((((((((((.......))))).....((((((.....)))))).((((.......))))..)))))))....................((((((((.((.....)).)))))))) ( -38.80)
>anava.0 6278914 120 - 6365727
AAGCCCGUGACGAGGAUUGAACUCGUGACCUCACCCUUACCAAGGGUGUGCUCUACCACUGAGCCACACGGGCGGAAGUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAU
..((((((((((((.......))))).....((((((.....)))))).((((.......))))..)))))))....................((((((((.((.....)).)))))))) ( -38.80)
>consensus
AAGCCCGUGACGAGGAUUGAACUCGUGACCUCACCCUUACCAAGGGUGUGCUCUACCACUGAGCCACACGGGCGAAAGUUAUUUAAAUCUUAGAUUUUGAACUAGGUUAUAAUUCAAAAU
..((((((((((((.......))))).....((((((.....)))))).((((.......))))..)))))))....................((((((((.((.....)).)))))))) (-38.80 = -38.80 +   0.00)

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 Wed Apr 5 20:05:50 2006