Locus 124

Sequence ID Banth.0
Location 370,947 – 371,067
Length 120
Max. P 0.997862
window866 window867 window868 window869 window870

overview

Window 6

Location 370,947 – 371,067
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 59.52
Mean single sequence MFE -26.84
Consensus MFE -10.80
Energy contribution -11.28
Covariance contribution 0.48
Combinations/Pair 1.37
Mean z-score -2.98
Structure conservation index 0.40
SVM decision value 2.28
SVM RNA-class probability 0.991684
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 370947 120 + 5227293/0-120
UAUGUUUUGAAAUAUAAAAAAACUCACCUUUCAUGAUCAAGAAAGAUGAGUUUUGUACACAAUAGUUACGUUUUAUCUUUCAAAAUGCAAUGCAUUUUGCAGGAAUUAGCACCUAUUCAG
...(((((((((.(((((((((((((.(((((........))))).))))))))(((.((....)))))..))))).)))))))))((((......))))(((........)))...... ( -27.90)
>Bcere.0 470944 119 + 5224283/0-120
UAUAUUUUGAAAUAUAAAAAA-CUCACCUUUCAUAAUCAAGAAAGAUGAGUUUUGCACACAAUAGUUACGUUUUAUCUUUCAAAAUGCAAUGCAUUUUGCAGGAAUUAGCACCUAUUCAG
.......((((......((((-((((.(((((........))))).))))))))...............(((...((((.((((((((...)))))))).))))...))).....)))). ( -27.10)
>Bsubt.0 2585051 109 - 4214630/0-120
UACCUCUUAAAAUAAAAAACUUUCAAUCCGGCG--GA-AAGAAAGACAGGA-------ACAGCAUGCAGCCCUUAUCUUUCAAAAUGGAAUUCAUUUUGCUGGAAGUAGCACCU-UACAA
..........................((((((.--..-..((((((.(((.-------...((.....)))))..))))))((((((.....)))))))))))).((((....)-))).. ( -20.60)
>Blich.0 2487439 110 - 4222334/0-120
UGCCCCUAAAAAAUUAAAAUCUUUCUUCCAAUUUUGA-AAGAAAGACGAGG-------AACUCCGCUAUUCCUUAUCUCUCAAAAUGAGGG-CAUUUUGCUGGAAGUAGCACCU-UACGC
(((((..............((((((..........))-)))).(((..(((-------((........)))))..)))..........)))-))...(((((....)))))...-..... ( -24.80)
>Bhalo.0 910027 100 + 4202352/0-120
AAGGUGUUAAAACAAGAAAAAACACCUCUUCGAU-----AAGAAGACGUGC-------GAUCCGUUCGCUUCUUAUCUUUCAGAACAUCAU--GUUCUGCUGGAAUUGGCACCU------
.(((((((((...(((((.....((.(((((...-----..))))).))((-------((.....))))))))).(((..((((((.....--))))))..))).)))))))))------ ( -33.80)
>consensus
UACCUCUUAAAAUAUAAAAAAACUCAUCUUUCAU_AA_AAGAAAGACGAGU_______ACAACAGUUACGUCUUAUCUUUCAAAAUGCAAU_CAUUUUGCUGGAAUUAGCACCU_UACAG
......................(((.((((((........)))))).))).........................(((..(((((((.....)))))))..)))................ (-10.80 = -11.28 +   0.48)

alignment

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secondary structure

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dotplot

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Window 7

Location 370,947 – 371,067
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 59.52
Mean single sequence MFE -30.48
Consensus MFE -13.00
Energy contribution -13.68
Covariance contribution 0.68
Combinations/Pair 1.50
Mean z-score -2.91
Structure conservation index 0.43
SVM decision value 2.46
SVM RNA-class probability 0.994261
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 370947 120 + 5227293/0-120
CUGAAUAGGUGCUAAUUCCUGCAAAAUGCAUUGCAUUUUGAAAGAUAAAACGUAACUAUUGUGUACAAAACUCAUCUUUCUUGAUCAUGAAAGGUGAGUUUUUUUAUAUUUCAAAACAUA
......(((........)))((((......)))).((((((((.(((((..(((((....)).)))((((((((((((((........))))))))))))))))))).)))))))).... ( -30.60)
>Bcere.0 470944 119 + 5224283/0-120
CUGAAUAGGUGCUAAUUCCUGCAAAAUGCAUUGCAUUUUGAAAGAUAAAACGUAACUAUUGUGUGCAAAACUCAUCUUUCUUGAUUAUGAAAGGUGAG-UUUUUUAUAUUUCAAAAUAUA
...(((((.(((....((...((((((((...))))))))...))......))).)))))(((((.((((((((((((((........))))))))))-)))).)))))........... ( -32.10)
>Bsubt.0 2585051 109 - 4214630/0-120
UUGUA-AGGUGCUACUUCCAGCAAAAUGAAUUCCAUUUUGAAAGAUAAGGGCUGCAUGCUGU-------UCCUGUCUUUCUU-UC--CGCCGGAUUGAAAGUUUUUUAUUUUAAGAGGUA
..(((-(((.(((...(((.((((((((.....))))))((((((((.((((........))-------)).))))))))..-..--.)).))).....))).))))))........... ( -23.90)
>Blich.0 2487439 110 - 4222334/0-120
GCGUA-AGGUGCUACUUCCAGCAAAAUG-CCCUCAUUUUGAGAGAUAAGGAAUAGCGGAGUU-------CCUCGUCUUUCUU-UCAAAAUUGGAAGAAAGAUUUUAAUUUUUUAGGGGCA
((..(-((......)))...))....((-((((.....((((((((.((((((......)))-------))).(((((((((-(((....))))))))))))....)))))))))))))) ( -33.00)
>Bhalo.0 910027 100 + 4202352/0-120
------AGGUGCCAAUUCCAGCAGAAC--AUGAUGUUCUGAAAGAUAAGAAGCGAACGGAUC-------GCACGUCUUCUU-----AUCGAAGAGGUGUUUUUUCUUGUUUUAACACCUU
------(((((..........((((((--.....)))))).((((((((((((((.....))-------))((.(((((..-----...))))).)).....))))))))))..))))). ( -32.80)
>consensus
CUGAA_AGGUGCUAAUUCCAGCAAAAUG_AUUGCAUUUUGAAAGAUAAGAAGUAACUGUUGU_______ACUCGUCUUUCUU_AC_AUGAAAGAUGAGAUUUUUUAUAUUUUAAAACAUA
.......((........))..(((((((.....))))))).............................(((((((((((........)))))))))))..................... (-13.00 = -13.68 +   0.68)

alignment

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secondary structure

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dotplot

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Window 8

Location 370,947 – 371,067
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 66.52
Mean single sequence MFE -32.62
Consensus MFE -18.19
Energy contribution -17.71
Covariance contribution -0.48
Combinations/Pair 1.20
Mean z-score -1.84
Structure conservation index 0.56
SVM decision value 1.31
SVM RNA-class probability 0.940938
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 370947 120 + 5227293/40-160
GAAAGAUGAGUUUUGUACACAAUAGUUACGUUUUAUCUUUCAAAAUGCAAUGCAUUUUGCAGGAAUUAGCACCUAUUCAGUUUGUAUAAACUGAGGUUGCUGGGCUUCAAAGGGCCGGUC
((((((((((...((((.((....)))))).))))))))))....(((((......))))).....(((((((...(((((((....))))))))).)))))((((......)))).... ( -34.60)
>Bcere.0 470944 120 + 5224283/40-160
GAAAGAUGAGUUUUGCACACAAUAGUUACGUUUUAUCUUUCAAAAUGCAAUGCAUUUUGCAGGAAUUAGCACCUAUUCAGUUUGUAUAAACUGAGGUUGCUGGGCUUCAAAGGGCCGGUC
((((((((((....((........)).....))))))))))....(((((......))))).....(((((((...(((((((....))))))))).)))))((((......)))).... ( -32.70)
>Bsubt.0 2585051 106 - 4214630/40-160
GAAAGACAGGA-------ACAGCAUGCAGCCCUUAUCUUUCAAAAUGGAAUUCAUUUUGCUGGAAGUAGCACCU-UACAAACUAU------GCAGGUUGCCGGGCUUCAUAGGUCCAGUC
....(((.(((-------.(...(((.(((((...(((..(((((((.....)))))))..)))....((((((-..((.....)------).))).))).))))).)))..)))).))) ( -28.40)
>Blich.0 2487439 107 - 4222334/40-160
GAAAGACGAGG-------AACUCCGCUAUUCCUUAUCUCUCAAAAUGAGGG-CAUUUUGCUGGAAGUAGCACCU-UACGCUUCACA----CGCAGGUUGCCGGGUUUCAUCGGACCAGUC
((.(((..(((-------((........)))))..))).))........((-((.((((((((((((.......-...))))).))----.))))).)))).((((......)))).... ( -31.10)
>Bhalo.0 910027 105 + 4202352/40-160
AGAAGACGUGC-------GAUCCGUUCGCUUCUUAUCUUUCAGAACAUCAU--GUUCUGCUGGAAUUGGCACCU------UCUUUAAAAAAAGAGGUUGCCGGGCUUCACAGGGCCAGUC
(((((.((.((-------(...))).)))))))..(((..((((((.....--))))))..)))..(((((.((------(((((....))))))).)))))((((......)))).... ( -36.30)
>consensus
GAAAGACGAGU_______ACAACAGUUACGUCUUAUCUUUCAAAAUGCAAU_CAUUUUGCUGGAAUUAGCACCU_UACAGUUUAUA_AAACGGAGGUUGCCGGGCUUCAAAGGGCCAGUC
....(((............................(((..(((((((.....)))))))..)))..((((((((...................))).)))))((((......)))).))) (-18.19 = -17.71 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 370,947 – 371,067
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.98
Mean single sequence MFE -31.68
Consensus MFE -21.77
Energy contribution -20.49
Covariance contribution -1.28
Combinations/Pair 1.25
Mean z-score -1.92
Structure conservation index 0.69
SVM decision value 2.05
SVM RNA-class probability 0.986708
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 370947 120 + 5227293/68-188
CGUUUUAUCUUUCAAAAUGCAAUGCAUUUUGCAGGAAUUAGCACCUAUUCAGUUUGUAUAAACUGAGGUUGCUGGGCUUCAAAGGGCCGGUCCCUCUGCCUCUCUUGAUAAAGAAUUAUU
.......(((((((((((((...))))))))(((((..(((((((...(((((((....))))))))).)))))(((.....((((.....))))..)))..)))))..)))))...... ( -32.70)
>Bcere.0 470944 120 + 5224283/68-188
CGUUUUAUCUUUCAAAAUGCAAUGCAUUUUGCAGGAAUUAGCACCUAUUCAGUUUGUAUAAACUGAGGUUGCUGGGCUUCAAAGGGCCGGUCCCUCUGCCUCUCUUGAUAAAGGUAUAUU
.....(((((((((((((((...))))))))(((((..(((((((...(((((((....))))))))).)))))(((.....((((.....))))..)))..)))))..))))))).... ( -34.20)
>Bsubt.0 2585051 113 - 4214630/68-188
GCCCUUAUCUUUCAAAAUGGAAUUCAUUUUGCUGGAAGUAGCACCU-UACAAACUAU------GCAGGUUGCCGGGCUUCAUAGGUCCAGUCCCUCAGCCGCUCUUGAUAAGUUUUUAGA
...((((((...(((((((.....)))))))....(((.(((....-..((.....)------)..(((((..(((((..........)))))..)))))))))))))))))........ ( -24.20)
>Blich.0 2487439 114 - 4222334/68-188
UUCCUUAUCUCUCAAAAUGAGGG-CAUUUUGCUGGAAGUAGCACCU-UACGCUUCACA----CGCAGGUUGCCGGGUUUCAUCGGACCAGUCCCUCCACCGCUCUUGAUAAGUUUGCUUU
...((((((.(((.....)))((-((.((((((((((((.......-...))))).))----.))))).))))((((......(((....))).......))))..))))))........ ( -29.22)
>Bhalo.0 910027 112 + 4202352/68-188
CUUCUUAUCUUUCAGAACAUCAU--GUUCUGCUGGAAUUGGCACCU------UCUUUAAAAAAAGAGGUUGCCGGGCUUCACAGGGCCAGUCCCUCCACCACUCUGGAUAAGAAAAUAUG
.(((((((((..((((((.....--)))))).((((..(((((.((------(((((....))))))).)))))((((......))))......)))).......)))))))))...... ( -38.10)
>consensus
CGUCUUAUCUUUCAAAAUGCAAU_CAUUUUGCUGGAAUUAGCACCU_UACAGUUUAUA_AAACGGAGGUUGCCGGGCUUCAAAGGGCCAGUCCCUCCGCCGCUCUUGAUAAGGAUAUAUU
...((((((...(((((((.....))))))).(((...((((((((...................))).)))))((((......))))..........))).....))))))........ (-21.77 = -20.49 +  -1.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 370,947 – 371,067
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.98
Mean single sequence MFE -33.72
Consensus MFE -23.27
Energy contribution -21.83
Covariance contribution -1.44
Combinations/Pair 1.29
Mean z-score -2.36
Structure conservation index 0.69
SVM decision value 2.95
SVM RNA-class probability 0.997862
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 370947 120 + 5227293/68-188
AAUAAUUCUUUAUCAAGAGAGGCAGAGGGACCGGCCCUUUGAAGCCCAGCAACCUCAGUUUAUACAAACUGAAUAGGUGCUAAUUCCUGCAAAAUGCAUUGCAUUUUGAAAGAUAAAACG
........((((((.....((((((((((.....)))))))......((((.(((((((((....)))))))...))))))....))).((((((((...))))))))...))))))... ( -34.30)
>Bcere.0 470944 120 + 5224283/68-188
AAUAUACCUUUAUCAAGAGAGGCAGAGGGACCGGCCCUUUGAAGCCCAGCAACCUCAGUUUAUACAAACUGAAUAGGUGCUAAUUCCUGCAAAAUGCAUUGCAUUUUGAAAGAUAAAACG
........((((((.....((((((((((.....)))))))......((((.(((((((((....)))))))...))))))....))).((((((((...))))))))...))))))... ( -34.30)
>Bsubt.0 2585051 113 - 4214630/68-188
UCUAAAAACUUAUCAAGAGCGGCUGAGGGACUGGACCUAUGAAGCCCGGCAACCUGC------AUAGUUUGUA-AGGUGCUACUUCCAGCAAAAUGAAUUCCAUUUUGAAAGAUAAGGGC
........((((((((((((((((.(((.......)))....)))).....((((((------(.....))).-))))))).)))....(((((((.....)))))))...))))))... ( -30.90)
>Blich.0 2487439 114 - 4222334/68-188
AAAGCAAACUUAUCAAGAGCGGUGGAGGGACUGGUCCGAUGAAACCCGGCAACCUGCG----UGUGAAGCGUA-AGGUGCUACUUCCAGCAAAAUG-CCCUCAUUUUGAGAGAUAAGGAA
........((((((......(.((((((....(((........))).((((.((((((----(.....)))).-))))))).)))))).)......-..(((.....))).))))))... ( -32.30)
>Bhalo.0 910027 112 + 4202352/68-188
CAUAUUUUCUUAUCCAGAGUGGUGGAGGGACUGGCCCUGUGAAGCCCGGCAACCUCUUUUUUUAAAGA------AGGUGCCAAUUCCAGCAGAAC--AUGAUGUUCUGAAAGAUAAGAAG
......((((((((........(((((((.((..........)))))((((.(((((((....)))).------)))))))...)))).((((((--.....))))))...)))))))). ( -36.80)
>consensus
AAUAAAAACUUAUCAAGAGAGGCAGAGGGACUGGCCCUAUGAAGCCCGGCAACCUCAGUUU_UACAAACUGAA_AGGUGCUAAUUCCAGCAAAAUG_AUUGCAUUUUGAAAGAUAAGAAG
........((((((....(.(((..((((.....)))).....))))((((.(((...................)))))))........(((((((.....)))))))...))))))... (-23.27 = -21.83 +  -1.44)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:26:57 2006