Locus 126

Sequence ID Banth.0
Location 537,268 – 537,384
Length 116
Max. P 0.999265
window875 window876 window877 window878

overview

Window 5

Location 537,268 – 537,384
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.62
Mean single sequence MFE -39.78
Consensus MFE -37.91
Energy contribution -36.97
Covariance contribution -0.94
Combinations/Pair 1.09
Mean z-score -2.20
Structure conservation index 0.95
SVM decision value 3.47
SVM RNA-class probability 0.999265
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 537268 116 + 5227293/0-120
CAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC----AAUGGCUCCGCAGGUAGGAAUCGAACCUACGACCGAUCGGUUAACAGCCGAUAGCUCUACCGCUGAGCUACUGCGGAAUA
................((((....(((......)))----..))))((((((((((((.......))))).....((((((.....))))))(((((.......))))).)))))))... ( -39.30)
>Bcere.0 609771 116 + 5224283/0-120
CAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC----AAUGGCUCCGCAGGUAGGAAUCGAACCUACGACCGAUCGGUUAACAGCCGAUAGCUCUACCGCUGAGCUACUGCGGAAUA
................((((....(((......)))----..))))((((((((((((.......))))).....((((((.....))))))(((((.......))))).)))))))... ( -39.30)
>Bhalo.0 1023793 115 + 4202352/0-120
CAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC-----GUGGCUCCACAGGUAGGACUCGAACCUACGACCGAUCGGUUAACAGCCGAUUGCUCUACCACUGAGCUACUGUGGAACA
.....((.........((((...((((......)))-----)))))((((((((((((.......)))))....(((((((.....)))))))((((.......))))..))))))))). ( -40.20)
>Bclau.0 1446200 117 + 4303871/0-120
CAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC---UAAUGGCUCCACAGGCAGGAUUCGAACCUGCGACCGAUCGGUUAACAGCCGAUAGCUCUACCACUGAGCUACUGUGGAACG
....(((.........((((....(((......)))---...))))((((((((((((.......))))).....((((((.....))))))(((((.......))))).)))))))))) ( -40.70)
>Bsubt.0 950912 118 + 4214630/0-120
CAAUCGUGCUCCUUCGACC-ACUCGGACAGCUCUCC-AAUAAUGGCUCCGCAGGUAGGAUUCGAACCUACGACCGAUCGGUUAACAGCCGAUAGCUCUACCACUGAGCUACUGCGGAAUG
.....(.(((..(((((..-..))))).))).).((-(....))).((((((((((((.......))))).....((((((.....))))))(((((.......))))).)))))))... ( -38.60)
>Blich.0 925432 119 + 4222334/0-120
CAAUCGUGCUCCUUCGACC-ACUCGGACAGCUCUCCAAUAAAUGGCUCCGCAGGCAGGAUUCGAACCUGCGACCGAUCGGUUAACAGCCGAUAGCUCUACCACUGAGCUACUGCGGAAUA
.....(.(((..(((((..-..))))).))).).(((.....))).((((((((((((.......))))).....((((((.....))))))(((((.......))))).)))))))... ( -40.60)
>consensus
CAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC____AAUGGCUCCGCAGGUAGGAUUCGAACCUACGACCGAUCGGUUAACAGCCGAUAGCUCUACCACUGAGCUACUGCGGAAUA
.....(.(((..(((((.....))))).))).).............((((((((((((.......))))).....((((((.....))))))(((((.......))))).)))))))... (-37.91 = -36.97 +  -0.94)

alignment

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secondary structure

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dotplot

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Window 6

Location 537,268 – 537,374
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.31
Mean single sequence MFE -39.17
Consensus MFE -37.56
Energy contribution -35.78
Covariance contribution -1.77
Combinations/Pair 1.19
Mean z-score -2.30
Structure conservation index 0.96
SVM decision value 1.76
SVM RNA-class probability 0.975856
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 537268 106 + 5227293/80-200
----GGAGAGCUGUCCGAGUUGGCCGAAGGAGCACGAUUGGAAAUCGUGUAUACGUCAC--AAGCGUAUCAAGGGUUCGAAUCCCUUGCUCUCCGCCAUAGG-----AUUUAUAAUA---
----(((((((..(((.((((((((....).)).))))))))......(.((((((...--..)))))))(((((.......))))))))))))........-----..........--- ( -33.80)
>Bcere.0 609771 106 + 5224283/80-200
----GGAGAGCUGUCCGAGUUGGCCGAAGGAGCACGAUUGGAAAUCGUGUAUACGUCAC--AAGCGUAUCAAGGGUUCGAAUCCCUUGCUCUCCGCCAUAGG-----AUUUAUAAUA---
----(((((((..(((.((((((((....).)).))))))))......(.((((((...--..)))))))(((((.......))))))))))))........-----..........--- ( -33.80)
>Bhalo.0 1023793 104 + 4202352/80-200
----GGAGAGCUGUCCGAGUUGGCCGAAGGAGCACGAUUGGAAAUCGUGUAGGCGGUGACAAACCGUCUCGAGGGUUCGAAUCCCUCGCUCUCCGCCAG--------AUAAAUUAC----
----(((((((..(((.((((((((....).)).))))))))......(.(((((((.....))))))))(((((.......)))))))))))).....--------.........---- ( -42.80)
>Bclau.0 1446200 105 + 4303871/80-200
A---GGAGAGCUGUCCGAGUUGGCCGAAGGAGCACGAUUGGAAAUCGUGUAGGCGGUGUAAAACCGUCUCGAGGGUUCGAAUCCCUCGCUCUCCGCCAUC-------AUACAUAA-----
.---(((((((..(((.((((((((....).)).))))))))......(.(((((((.....))))))))(((((.......))))))))))))......-------........----- ( -43.00)
>Bsubt.0 950912 117 + 4214630/80-200
AUU-GGAGAGCUGUCCGAGU-GGUCGAAGGAGCACGAUUGGAAAUCGUGUAGGCGGUCA-ACUCCGUCUCAAGGGUUCGAAUCCCUUGCUCUCCGCCACUGAUACUUAUACAUAAUUACA
...-(((((((.......((-(.((....)).)))((((.(((..(.((.((((((...-...)))))))).)..))).))))....))))))).......................... ( -39.50)
>Blich.0 925432 108 + 4222334/80-200
UAUUGGAGAGCUGUCCGAGU-GGUCGAAGGAGCACGAUUGGAAAUCGUGUAGGCGGCCA-ACGCCGUCUCAAGGGUUCGAAUCCCUUGCUCUCCGCCACU-------UUAAAUACAU---
....(((((((.......((-(.((....)).)))((((.(((..(.((.(((((((..-..))))))))).)..))).))))....)))))))......-------..........--- ( -42.10)
>consensus
____GGAGAGCUGUCCGAGUUGGCCGAAGGAGCACGAUUGGAAAUCGUGUAGGCGGCAA_AAACCGUCUCAAGGGUUCGAAUCCCUUGCUCUCCGCCAUA_______AUAAAUAAU____
....(((((((..(((((....(((....).))....)))))......(.((((((.......)))))))(((((.......)))))))))))).......................... (-37.56 = -35.78 +  -1.77)

alignment

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secondary structure

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dotplot

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Window 7

Location 537,268 – 537,374
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.31
Mean single sequence MFE -33.25
Consensus MFE -30.07
Energy contribution -29.18
Covariance contribution -0.88
Combinations/Pair 1.17
Mean z-score -1.39
Structure conservation index 0.90
SVM decision value 0.38
SVM RNA-class probability 0.713355
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 537268 106 + 5227293/80-200
---UAUUAUAAAU-----CCUAUGGCGGAGAGCAAGGGAUUCGAACCCUUGAUACGCUU--GUGACGUAUACACGAUUUCCAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC----
---.........(-----((..((((.(((((((((((.......))))))((((((..--..).))))).((((((.....)))))))))..)).))))....))).........---- ( -29.30)
>Bcere.0 609771 106 + 5224283/80-200
---UAUUAUAAAU-----CCUAUGGCGGAGAGCAAGGGAUUCGAACCCUUGAUACGCUU--GUGACGUAUACACGAUUUCCAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC----
---.........(-----((..((((.(((((((((((.......))))))((((((..--..).))))).((((((.....)))))))))..)).))))....))).........---- ( -29.30)
>Bhalo.0 1023793 104 + 4202352/80-200
----GUAAUUUAU--------CUGGCGGAGAGCGAGGGAUUCGAACCCUCGAGACGGUUUGUCACCGCCUACACGAUUUCCAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC----
----.........--------.....((((((((((((.......)))))(((..(((.....)))(((..((((((.....)))))).......)))...))).....)))))))---- ( -34.90)
>Bclau.0 1446200 105 + 4303871/80-200
-----UUAUGUAU-------GAUGGCGGAGAGCGAGGGAUUCGAACCCUCGAGACGGUUUUACACCGCCUACACGAUUUCCAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC---U
-----........-------......((((((((((((.......)))))(((..(((.....)))(((..((((((.....)))))).......)))...))).....)))))))---. ( -36.10)
>Bsubt.0 950912 117 + 4214630/80-200
UGUAAUUAUGUAUAAGUAUCAGUGGCGGAGAGCAAGGGAUUCGAACCCUUGAGACGGAGU-UGACCGCCUACACGAUUUCCAAUCGUGCUCCUUCGACC-ACUCGGACAGCUCUCC-AAU
....................((((((((((..((((((.......))))))((.(((...-...))).)).((((((.....))))))...))))).))-))).(((......)))-... ( -33.10)
>Blich.0 925432 108 + 4222334/80-200
---AUGUAUUUAA-------AGUGGCGGAGAGCAAGGGAUUCGAACCCUUGAGACGGCGU-UGGCCGCCUACACGAUUUCCAAUCGUGCUCCUUCGACC-ACUCGGACAGCUCUCCAAUA
---..........-------((((((((((..((((((.......))))))((.((((..-..)))).)).((((((.....))))))...))))).))-))).(((......))).... ( -36.80)
>consensus
____AUUAUAUAU_______AAUGGCGGAGAGCAAGGGAUUCGAACCCUUGAGACGGUUU_UCACCGCCUACACGAUUUCCAAUCGUGCUCCUUCGGCCAACUCGGACAGCUCUCC____
..........................((((((((((((.......))))).((.((((.....)))).)).((((((.....))))))....(((((.....)))))..))))))).... (-30.07 = -29.18 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 8

Location 537,268 – 537,369
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.27
Mean single sequence MFE -30.34
Consensus MFE -24.32
Energy contribution -22.72
Covariance contribution -1.61
Combinations/Pair 1.19
Mean z-score -1.10
Structure conservation index 0.80
SVM decision value 0.41
SVM RNA-class probability 0.725184
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 537268 101 + 5227293/120-240
GAAAUCGUGUAUACGUCAC--AAGCGUAUCAAGGGUUCGAAUCCCUUGCUCUCCGCCAUAGG-----AUUUAUAAUA------------UUUGGCCCGUUGGUCAAGUGGUUAAGACACC
......((((((((((...--..))))))((((((.......))))))...(((......))-----)((((...((------------(((((((....)))))))))..)))))))). ( -27.20)
>Bcere.0 609771 101 + 5224283/120-240
GAAAUCGUGUAUACGUCAC--AAGCGUAUCAAGGGUUCGAAUCCCUUGCUCUCCGCCAUAGG-----AUUUAUAAUA------------UUUGGCCCGUUGGUCAAGUGGUUAAGACACC
......((((((((((...--..))))))((((((.......))))))...(((......))-----)((((...((------------(((((((....)))))))))..)))))))). ( -27.20)
>Bhalo.0 1023793 99 + 4202352/120-240
GAAAUCGUGUAGGCGGUGACAAACCGUCUCGAGGGUUCGAAUCCCUCGCUCUCCGCCAG--------AUAAAUUAC-------------CGUGGCCCGUUGGUCAAGUGGUUAAGACACC
......((((.(((((.(((.....))).((((((.......))))))....)))))..--------...((((((-------------..(((((....))))).))))))...)))). ( -34.00)
>Bclau.0 1446200 98 + 4303871/120-240
GAAAUCGUGUAGGCGGUGUAAAACCGUCUCGAGGGUUCGAAUCCCUCGCUCUCCGCCAUC-------AUACAUAA---------------AAGGCCCGUUGGUCAAGCGGUUAAGACACC
......(((((((((((.....)))))))((((((.......))))))......(((...-------........---------------..)))(((((.....))))).....)))). ( -30.02)
>Bsubt.0 950912 119 + 4214630/120-240
GAAAUCGUGUAGGCGGUCA-ACUCCGUCUCAAGGGUUCGAAUCCCUUGCUCUCCGCCACUGAUACUUAUACAUAAUUACAAUUGAAAGUCUGGGCCCGUUGGUCAAGCGGUUAAGACACC
(.(((..(((((((((...-...))))).((((((.......))))))....................))))..))).)........((((..(((.(((.....))))))..))))... ( -30.50)
>Blich.0 925432 99 + 4222334/120-240
GAAAUCGUGUAGGCGGCCA-ACGCCGUCUCAAGGGUUCGAAUCCCUUGCUCUCCGCCACU-------UUAAAUACAU-------------CUGGCCCGUUGGUCAAGUGGUUAAGACACC
......(((((((((((..-..)))))))((((((.......))))))..((..((((((-------..........-------------.(((((....)))))))))))..)))))). ( -33.10)
>consensus
GAAAUCGUGUAGGCGGCAA_AAACCGUCUCAAGGGUUCGAAUCCCUUGCUCUCCGCCAUA_______AUAAAUAAU______________UUGGCCCGUUGGUCAAGUGGUUAAGACACC
......((((((((((.......))))))((((((.......))))))((..((((............(....)..................((((....))))..))))...)))))). (-24.32 = -22.72 +  -1.61)

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 17:27:04 2006