Locus 10

Sequence ID	Banth.0
Location	4,652,088 – 4,652,208
Length	120
Max. P	0.996860

overview

Window 6

Location	4,652,088 – 4,652,205
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	79.05
Mean single sequence MFE	-29.03
Consensus MFE	-19.47
Energy contribution	-18.04
Covariance contribution	-1.44
Combinations/Pair	1.20
Mean z-score	-1.52
Structure conservation index	0.67
SVM decision value	0.02
SVM RNA-class probability	0.546127
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 117 + 5227293/0-120
AUGAUCAGGUUGAUAGGUUCGAGGUGGAAGCAUGGUGACAUGUGGAGCUGACGAAUACUAAUAGAUCGAGGACUUAACC--AUAUAAUAUGAAGC-AAUGUUAUCUAGUUUUGAAAGAAU
.(((((..((((....(((((.(((....(((((....)))))...)))..)))))..)))).)))))((((((.....--..(((((((.....-.)))))))..))))))........ ( -25.60)
>Bcere.0 4651066 118 + 5224283/0-120
AUGAUCAGGUUGAUAGGUUCGAGGUGGAAGCAUGGUGACAUGUGGAGCUGACGAAUACUAAUAGAUCGAGGACUUAACC--AUAUAAUAUGAAGCAAAUGUUAUCUAGUUUUGAAAGAAU
.(((((..((((....(((((.(((....(((((....)))))...)))..)))))..)))).)))))((((((.....--..(((((((.......)))))))..))))))........ ( -25.10)
>Bhalo.0 4174298 119 - 4202352/0-120
AUGAUGAGGUUGAUAGGUCUGGUGUGGAAGCGUGGCGACACGUGAAGCUGACAGAUACUAAUCGGUCGAGGACUUAUCCAAAAACAAAUCAAAAGCAACGUC-UCGAACUCGAGAAGCGU
.((((...((((((((((((...((....(((((....)))))...))((((.(((....))).)))).)))))))))....)))..))))...((....((-(((....))))).)).. ( -36.40)
>consensus
AUGAUCAGGUUGAUAGGUUCGAGGUGGAAGCAUGGUGACAUGUGGAGCUGACGAAUACUAAUAGAUCGAGGACUUAACC__AUAUAAUAUGAAGC_AAUGUUAUCUAGUUUUGAAAGAAU
..((((..((((....(((((..((....(((((....)))))...))...)))))..)))).))))((.(((..........................))).))............... (-19.47 = -18.04 +  -1.44)

alignment

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secondary structure

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dotplot

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Window 7

Location	4,652,088 – 4,652,206
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	87.15
Mean single sequence MFE	-35.67
Consensus MFE	-30.66
Energy contribution	-28.33
Covariance contribution	-2.33
Combinations/Pair	1.19
Mean z-score	-1.94
Structure conservation index	0.86
SVM decision value	0.51
SVM RNA-class probability	0.763243
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 118 + 5227293/40-160
GAGAUUUCCCAUAGCGUAAG-CUAGUAAGAUCCCUGAAAGAUGAUCAGGUUGAUAGGUUCGAGGUGGAAGCAUGGUGACAUGUGGAGCUGACGAAUACUAAUAGAUCGAGGACUUAACC-
......((((.((((....)-)))....(((((((((.......)))))....((((((((.(((....(((((....)))))...)))..))))).)))...))))).))).......- ( -35.50)
>Bcere.0 4651066 118 + 5224283/40-160
GAGAUUUCCCAUAGCGUAAG-CUAGUAAGAUCCCUGAAAGAUGAUCAGGUUGAUAGGUUCGAGGUGGAAGCAUGGUGACAUGUGGAGCUGACGAAUACUAAUAGAUCGAGGACUUAACC-
......((((.((((....)-)))....(((((((((.......)))))....((((((((.(((....(((((....)))))...)))..))))).)))...))))).))).......- ( -35.50)
>Bhalo.0 4174298 120 - 4202352/40-160
GAGAUUUCCCAUGGAGUAAAUCCAGUAAGACCCCUUAGAGAUGAUGAGGUUGAUAGGUCUGGUGUGGAAGCGUGGCGACACGUGAAGCUGACAGAUACUAAUCGGUCGAGGACUUAUCCA
(.(((.((((.((((.....))))....(((((((((.......)))))..((((((((((..((....(((((....)))))...))...))))).)).)))))))).)))...)))). ( -36.00)
>consensus
GAGAUUUCCCAUAGCGUAAG_CUAGUAAGAUCCCUGAAAGAUGAUCAGGUUGAUAGGUUCGAGGUGGAAGCAUGGUGACAUGUGGAGCUGACGAAUACUAAUAGAUCGAGGACUUAACC_
......((((.((((....).)))....(((((((((.......)))))....((((((((..((....(((((....)))))...))...))))).)))...))))).)))........ (-30.66 = -28.33 +  -2.33)

alignment

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secondary structure

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dotplot

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Window 8

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.56
Mean single sequence MFE	-44.77
Consensus MFE	-43.04
Energy contribution	-41.93
Covariance contribution	-1.11
Combinations/Pair	1.09
Mean z-score	-1.83
Structure conservation index	0.96
SVM decision value	0.64
SVM RNA-class probability	0.808793
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/160-280
AGAGGACCGGGAUGGACGCACCGCUGGUGUACCAGUUGUUCUGCCAAGGGCAUAGCUGGGUAGCUAUGUGCGGAAGGGAUAAGUGCUGAAAGCAUCUAAGCAUGAAGCCCCCCUCAAGAU
.((((.((((.(.(((((....(((((....))))))))))).))..(.((((((((....)))))))).)))..(((....(((((...........)))))....))).))))..... ( -44.20)
>Bcere.0 4651066 120 + 5224283/160-280
AGAGGACCGGGAUGGACGCACCGCUGGUGUACCAGUUGUUCUGCCAAGGGCAUAGCUGGGUAGCUAUGUGCGGAAGGGAUAAGUGCUGAAAGCAUCUAAGCAUGAAGCCCCCCUCAAGAU
.((((.((((.(.(((((....(((((....))))))))))).))..(.((((((((....)))))))).)))..(((....(((((...........)))))....))).))))..... ( -44.20)
>Bhalo.0 4174298 120 - 4202352/160-280
AGAGGACCGGGAUGGACACACCGCUGGUGUACCAGUUGUUCCGCCAGGAGCAUCGCUGGGUAGCUACGUGUGGACGGGAUAAGUGCUGAAAGCAUCUAAGCAUGAAGCCCCCCUCAAGAU
.((((........(..(((((.(.((((...(((((((((((....))))))..)))))...))))))))))..)(((....(((((...........)))))....))).))))..... ( -45.90)
>consensus
AGAGGACCGGGAUGGACGCACCGCUGGUGUACCAGUUGUUCUGCCAAGGGCAUAGCUGGGUAGCUAUGUGCGGAAGGGAUAAGUGCUGAAAGCAUCUAAGCAUGAAGCCCCCCUCAAGAU
.((((.((.....)).(((((...((((...(((((((((((....))))))..)))))...)))).)))))...(((....(((((...........)))))....))).))))..... (-43.04 = -41.93 +  -1.11)

alignment

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secondary structure

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dotplot

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Window 9

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.89
Mean single sequence MFE	-53.07
Consensus MFE	-52.40
Energy contribution	-52.73
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.37
Structure conservation index	0.99
SVM decision value	1.49
SVM RNA-class probability	0.958440
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/320-440
UCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGU
..((((.(((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....))))))((..(.(((((((....))).)))).)..))))))... ( -53.70)
>Bcere.0 4651066 120 + 5224283/320-440
UCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGU
..((((.(((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....))))))((..(.(((((((....))).)))).)..))))))... ( -53.70)
>Bhalo.0 4174298 120 - 4202352/320-440
UCGAUGUCGGCUCAUCGCAUCCUGGGGCUGAAGUAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGU
..((((.((((((((((((((((((((((......)))))).)))))(((((.....))))).....)))))....))))))((..(.(((((((....))).)))).)..))))))... ( -51.80)
>consensus
UCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGU
..((((.(((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....))))))((..(.(((((((....))).)))).)..))))))... (-52.40 = -52.73 +   0.33)

alignment

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secondary structure

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dotplot

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Window 0

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-50.83
Consensus MFE	-50.29
Energy contribution	-50.40
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.47
Structure conservation index	0.99
SVM decision value	0.15
SVM RNA-class probability	0.608048
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/360-480
UCUCCCCCAAGAGUCCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGC
.(((......(((((.(((((((.((............))))))))).)))))(((((((((((((((((....))))))).)))))(((((.....))))).....)))))....))). ( -51.90)
>Bcere.0 4651066 120 + 5224283/360-480
UCUCCCCCAAGAGUCCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGC
.(((......(((((.(((((((.((............))))))))).)))))(((((((((((((((((....))))))).)))))(((((.....))))).....)))))....))). ( -51.90)
>Bhalo.0 4174298 120 - 4202352/360-480
UCUCCCCCAAGAGUUCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGAAGUAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGC
............((((....(((((..(((((.....)))))..)))))((..((((((((((((((((......)))))).)))))(((((.....))))).....)))))..)))))) ( -48.70)
>consensus
UCUCCCCCAAGAGUCCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGC
.(((......(((((.(((((((.((............))))))))).)))))(((((((((((((((((....))))))).)))))(((((.....))))).....)))))....))). (-50.29 = -50.40 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.22
Mean single sequence MFE	-44.93
Consensus MFE	-44.93
Energy contribution	-44.27
Covariance contribution	-0.66
Combinations/Pair	1.09
Mean z-score	-1.91
Structure conservation index	1.00
SVM decision value	1.00
SVM RNA-class probability	0.898305
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/480-600
AGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAUCGCUCAACGGAUAAAAGCUACCCCGGGGAUAACAGGCUUA
((((((.((((..(((......)))..)))).(((....)))(((..((((.((((((((....)))......((((....))))..)))))....)))).)))........)))))).. ( -45.20)
>Bcere.0 4651066 120 + 5224283/480-600
AGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAUCGCUCAACGGAUAAAAGCUACCCCGGGGAUAACAGGCUUA
((((((.((((..(((......)))..)))).(((....)))(((..((((.((((((((....)))......((((....))))..)))))....)))).)))........)))))).. ( -45.20)
>Bhalo.0 4174298 120 - 4202352/480-600
AGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGCGGUGCCGUAUGGAAGGGCCGUCGCUCAACGGAUAAAAGCUACCCUGGGGAUAACAGGCUUA
((((((.((((..(((......)))..)))).(((....)))(((..((((.((((((((((.((........))))))))(.....)))))....))))))).........)))))).. ( -44.40)
>consensus
AGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAUCGCUCAACGGAUAAAAGCUACCCCGGGGAUAACAGGCUUA
((((((.((((..(((......)))..)))).(((....)))(((..((((.((((((((....)))......((((....))))..)))))....)))).)))........)))))).. (-44.93 = -44.27 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 2

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.22
Mean single sequence MFE	-39.60
Consensus MFE	-39.09
Energy contribution	-38.77
Covariance contribution	-0.33
Combinations/Pair	1.08
Mean z-score	-1.77
Structure conservation index	0.99
SVM decision value	0.66
SVM RNA-class probability	0.814932
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/520-640
AAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAU
.((((((.....(((((......((((....))))....((((((..((((..(((......)))..)))).(((....))))))))))))))(((((((....))).))))..)))))) ( -39.90)
>Bcere.0 4651066 120 + 5224283/520-640
AAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAU
.((((((.....(((((......((((....))))....((((((..((((..(((......)))..)))).(((....))))))))))))))(((((((....))).))))..)))))) ( -39.90)
>Bhalo.0 4174298 120 - 4202352/520-640
AAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAAAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGCGGUGCCGUAUGGAAGGGCCGU
....((((((..(((((.......(((....))).....((((((..((((..(((......)))..)))).(((....))))))))))))))))))))(((.((........))))).. ( -39.00)
>consensus
AAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAU
.((((((.....(((((......((((....))))....((((((..((((..(((......)))..)))).(((....))))))))))))))(((((((....))).))))..)))))) (-39.09 = -38.77 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 3

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-35.10
Consensus MFE	-34.67
Energy contribution	-35.00
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.60
Structure conservation index	0.99
SVM decision value	0.34
SVM RNA-class probability	0.697914
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/560-680
CUUUCGUCCCUGCUCGACUUGUAGGUCUCGCAGUCAAGCUCCCUUAUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGG
....(((((((((..((((....))))..))))......((((((((((....)))......(((((.........))))))))))))......)))))(((((...........))))) ( -35.60)
>Bcere.0 4651066 120 + 5224283/560-680
CUUUCGUCCCUGCUCGACUUGUAGGUCUCGCAGUCAAGCUCCCUUAUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGG
....(((((((((..((((....))))..))))......((((((((((....)))......(((((.........))))))))))))......)))))(((((...........))))) ( -35.60)
>Bhalo.0 4174298 120 - 4202352/560-680
CUUUCGUCCCUGCUCGACUUGUAGGUCUCGCAGUCAAGCUCCCUUUUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACUGUUUAGGAGG
....(((((((((..((((....))))..))))......((((((.(((....)))......(((((.........))))).))))))......)))))(((((...........))))) ( -34.10)
>consensus
CUUUCGUCCCUGCUCGACUUGUAGGUCUCGCAGUCAAGCUCCCUUAUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGG
....(((((((((..((((....))))..))))......((((((((((....)))......(((((.........))))))))))))......)))))(((((...........))))) (-34.67 = -35.00 +   0.33)

alignment

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secondary structure

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dotplot

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Window 4

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-41.73
Consensus MFE	-41.07
Energy contribution	-41.40
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.75
Structure conservation index	0.98
SVM decision value	1.90
SVM RNA-class probability	0.982010
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/560-680
CCUCCUAAAGUGUAACGGAGGCGCCCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAG
(((((...........)))))(((((..(((((((((..(((((((.....))))))).....((((....)))).)))))))))...(((..(((......)))..)))))).)).... ( -42.20)
>Bcere.0 4651066 120 + 5224283/560-680
CCUCCUAAAGUGUAACGGAGGCGCCCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAG
(((((...........)))))(((((..(((((((((..(((((((.....))))))).....((((....)))).)))))))))...(((..(((......)))..)))))).)).... ( -42.20)
>Bhalo.0 4174298 120 - 4202352/560-680
CCUCCUAAACAGUAACGGAGGCGCCCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAAAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAG
(((((...........)))))(((((..(((((((((..(((((((.....)))))))......(((....)))..)))))))))...(((..(((......)))..)))))).)).... ( -40.80)
>consensus
CCUCCUAAAGUGUAACGGAGGCGCCCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCGUAGAGUGCAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAG
(((((...........)))))(((((..(((((((((..(((((((.....))))))).....((((....)))).)))))))))...(((..(((......)))..)))))).)).... (-41.07 = -41.40 +   0.33)

alignment

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secondary structure

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dotplot

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Window 5

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-34.57
Consensus MFE	-34.07
Energy contribution	-34.40
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.34
Structure conservation index	0.99
SVM decision value	1.57
SVM RNA-class probability	0.964767
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/600-720
CCCUUAUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCC
(((((((((....)))......(((((.........)))))))))))......(((((((((((...........))))))(((.......))).....)))))...(((...))).... ( -35.10)
>Bcere.0 4651066 120 + 5224283/600-720
CCCUUAUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCC
(((((((((....)))......(((((.........)))))))))))......(((((((((((...........))))))(((.......))).....)))))...(((...))).... ( -35.10)
>Bhalo.0 4174298 120 - 4202352/600-720
CCCUUUUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACUGUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCCCUG
(((((.(((....)))......(((((.........))))).)))))......(((((((((((...........))))))(((.......))).....)))))................ ( -33.50)
>consensus
CCCUUAUGCCUUUGCACUCUACGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCC
(((((((((....)))......(((((.........)))))))))))......(((((((((((...........))))))(((.......))).....)))))................ (-34.07 = -34.40 +   0.33)

alignment

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secondary structure

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dotplot

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Window 6

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	88.89
Mean single sequence MFE	-44.03
Consensus MFE	-43.06
Energy contribution	-40.73
Covariance contribution	-2.33
Combinations/Pair	1.20
Mean z-score	-2.48
Structure conservation index	0.98
SVM decision value	2.25
SVM RNA-class probability	0.991146
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/640-760
CUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCGGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCA
((((..(((....(((((((((((...........))))))(((.......))).....))))).(((((.(((.....((((((.....))))))))))))))...)))..).)))... ( -42.00)
>Bcere.0 4651066 120 + 5224283/640-760
CUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCGGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCA
((((..(((....(((((((((((...........))))))(((.......))).....))))).(((((.(((.....((((((.....))))))))))))))...)))..).)))... ( -42.00)
>Bhalo.0 4174298 120 - 4202352/640-760
CUGAGGGAACCUUUGGGCGCCUCCGUUACUGUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCCCUGAACCGGAUCACGGUUCGAGGUUAGAAUGUCAAUACCGUCA
..((.((......(((((((((((...........))))))(((.......))).....)))))..((((((((.((.(((((((.....))))))).)).)))..)))))...)).)). ( -48.10)
>consensus
CUGAGGGAACCUUUGGGCGCCUCCGUUACACUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCGGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCA
.(((((.(((((.(((((((((((...........))))))(((.......))).....)))))...............((((((.....)))))).)))))....)))))......... (-43.06 = -40.73 +  -2.33)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.89
Mean single sequence MFE	-44.90
Consensus MFE	-42.73
Energy contribution	-40.07
Covariance contribution	-2.66
Combinations/Pair	1.20
Mean z-score	-1.35
Structure conservation index	0.95
SVM decision value	0.37
SVM RNA-class probability	0.707172
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/640-760
UGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCCGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAGUGUAACGGAGGCGCCCAAAGGUUCCCUCAG
...(((....(((......((((.((((((.....))))))(....)......))))((((.....(((((...)))))((((((...........)))))))))).....)))...))) ( -43.10)
>Bcere.0 4651066 120 + 5224283/640-760
UGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCCGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAGUGUAACGGAGGCGCCCAAAGGUUCCCUCAG
...(((....(((......((((.((((((.....))))))(....)......))))((((.....(((((...)))))((((((...........)))))))))).....)))...))) ( -43.10)
>Bhalo.0 4174298 120 - 4202352/640-760
UGACGGUAUUGACAUUCUAACCUCGAACCGUGAUCCGGUUCAGGGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAACAGUAACGGAGGCGCCCAAAGGUUCCCUCAG
(((.((..((((((((....(((.((((((.....)))))))))...)))))))).(((((.....(((((...)))))((((((...........)))))))))))......)).))). ( -48.50)
>consensus
UGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCCGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAGUGUAACGGAGGCGCCCAAAGGUUCCCUCAG
..................(((((.((((((.....))))))...(((...)))...(((((.....(((((...)))))((((((...........))))))))))).)))))....... (-42.73 = -40.07 +  -2.66)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	88.89
Mean single sequence MFE	-37.24
Consensus MFE	-38.61
Energy contribution	-35.84
Covariance contribution	-2.77
Combinations/Pair	1.30
Mean z-score	-1.57
Structure conservation index	1.04
SVM decision value	1.86
SVM RNA-class probability	0.980172
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/680-800
CGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCGGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCAGGGCGGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUC
..(((((((..((((...........)))).(((.((..((((((.....))))))..)).)))................)))))))........(((((..............))))). ( -38.24)
>Bcere.0 4651066 120 + 5224283/680-800
CGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCGGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCAGGGCGGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUC
..(((((((..((((...........)))).(((.((..((((((.....))))))..)).)))................)))))))........(((((..............))))). ( -38.24)
>Bhalo.0 4174298 120 - 4202352/680-800
CGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCCCUGAACCGGAUCACGGUUCGAGGUUAGAAUGUCAAUACCGUCAGGGUAGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUC
.(((.......)))..(((((((((.((((((((.((.(((((((.....))))))).)).)))..))))).....))..)))))))........(((((..............))))). ( -35.24)
>consensus
CGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCGGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCAGGGCGGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUC
..(((((((..((((...........)))).(((.((..((((((.....))))))..)).)))................)))))))........(((((..............))))). (-38.61 = -35.84 +  -2.77)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.89
Mean single sequence MFE	-48.63
Consensus MFE	-48.89
Energy contribution	-45.57
Covariance contribution	-3.32
Combinations/Pair	1.23
Mean z-score	-1.27
Structure conservation index	1.01
SVM decision value	0.91
SVM RNA-class probability	0.880745
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/680-800
GAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACCGCCCUGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCCGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCG
((.((((.(((((....))))).(..((.((((.(((((.((((....................((((((.....))))))(....)...)))))))))...)))).))..))))).)). ( -49.40)
>Bcere.0 4651066 120 + 5224283/680-800
GAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACCGCCCUGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCCGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCG
((.((((.(((((....))))).(..((.((((.(((((.((((....................((((((.....))))))(....)...)))))))))...)))).))..))))).)). ( -49.40)
>Bhalo.0 4174298 120 - 4202352/680-800
GAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACUACCCUGACGGUAUUGACAUUCUAACCUCGAACCGUGAUCCGGUUCAGGGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCG
.((((((.((....))...))))))(((((....)))))..(((.((.((((((((....(((.((((((.....)))))))))...)))))))).....(((.....)))..)).))). ( -47.10)
>consensus
GAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACCGCCCUGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCCGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCG
((.((((.(((((....))))).(..((.((((.(((((.((((...((((....(((......((((((.....))))))..))))))))))))))))...)))).))..))))).)). (-48.89 = -45.57 +  -3.32)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	87.78
Mean single sequence MFE	-35.47
Consensus MFE	-35.41
Energy contribution	-32.20
Covariance contribution	-3.21
Combinations/Pair	1.26
Mean z-score	-0.95
Structure conservation index	1.00
SVM decision value	0.60
SVM RNA-class probability	0.794638
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/720-840
GGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCAGGGCGGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUCCGGUUUCAAAGGCUCCCGCCUAUCCUGUACAAACUGUACC
(((((.....)))))(((((((.(.....)..(((((...(((((((.....)))...((((..((((.(((....))).)))).....))))....))))...)))))..)))).))). ( -37.40)
>Bcere.0 4651066 120 + 5224283/720-840
GGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCAGGGCGGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUCCGGUUUCAAAGGCUCCCGCCUAUCCUGUACAAACUGUACC
(((((.....)))))(((((((.(.....)..(((((...(((((((.....)))...((((..((((.(((....))).)))).....))))....))))...)))))..)))).))). ( -37.40)
>Bhalo.0 4174298 120 - 4202352/720-840
AACCGGAUCACGGUUCGAGGUUAGAAUGUCAAUACCGUCAGGGUAGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUCCGGCUUCCAAGGCUCCUACCUAUCCUGUACAAACGGUACC
(((((.....))))).((.((....)).))..((((((((((((((.....(....).((((...(((.(((....))).)))......))))......)))))))).....)))))).. ( -31.60)
>consensus
GGGUCGAUAAGACCCGUAGGUUAGAAUUUCAAUACAGUCAGGGCGGUAUCCCACCAGCGCCUCCACCGAAGCUAGCGCUCCGGUUUCAAAGGCUCCCGCCUAUCCUGUACAAACUGUACC
(((((.....))))).................((((((((((((((..........(.((((..((((.(((....))).)))).....)))).)))))....)))).....)))))).. (-35.41 = -32.20 +  -3.21)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	87.78
Mean single sequence MFE	-46.80
Consensus MFE	-49.59
Energy contribution	-45.83
Covariance contribution	-3.76
Combinations/Pair	1.30
Mean z-score	-1.78
Structure conservation index	1.06
SVM decision value	2.76
SVM RNA-class probability	0.996860
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/720-840
GGUACAGUUUGUACAGGAUAGGCGGGAGCCUUUGAAACCGGAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACCGCCCUGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCC
(((..(((((((((((..(((((((..(((((....((((((((....)))))))).))))).)))((((....)))))))).))))))..)))))...)))...(((((.....))))) ( -48.40)
>Bcere.0 4651066 120 + 5224283/720-840
GGUACAGUUUGUACAGGAUAGGCGGGAGCCUUUGAAACCGGAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACCGCCCUGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCC
(((..(((((((((((..(((((((..(((((....((((((((....)))))))).))))).)))((((....)))))))).))))))..)))))...)))...(((((.....))))) ( -48.40)
>Bhalo.0 4174298 120 - 4202352/720-840
GGUACCGUUUGUACAGGAUAGGUAGGAGCCUUGGAAGCCGGAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACUACCCUGACGGUAUUGACAUUCUAACCUCGAACCGUGAUCCGGUU
.((((.....)))).((((.((((((.(((((....((((((((....)))))))).)))))((((..(((......)))...)))).............)))...)))...)))).... ( -43.60)
>consensus
GGUACAGUUUGUACAGGAUAGGCGGGAGCCUUUGAAACCGGAGCGCUAGCUUCGGUGGAGGCGCUGGUGGGAUACCGCCCUGACUGUAUUGAAAUUCUAACCUACGGGUCUUAUCGACCC
((((((((.....((((.....(((..(((((....((((((((....)))))))).))))).)))((((....))))))))))))))))...............(((((.....))))) (-49.59 = -45.83 +  -3.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-37.60
Consensus MFE	-36.71
Energy contribution	-36.27
Covariance contribution	-0.44
Combinations/Pair	1.07
Mean z-score	-1.47
Structure conservation index	0.98
SVM decision value	0.08
SVM RNA-class probability	0.575833
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/880-1000
UUCCGUCCUGUCGCGGGUAACCUGCAUCUUCACAGGUACUAUAAUUUCACCGAGUCUCUGGUUGAGACAGUGCCCAAAUCGUUACACCUUUCGUGCGGGUCGGAACUUACCCGACAAGGA
(((((.((((.(((((((((((((........)))))................(((((.....)))))..))))).....(.....).....))))))).))))).....((.....)). ( -37.20)
>Bcere.0 4651066 120 + 5224283/880-1000
UUCCGUCCUGUCGCGGGUAACCUGCAUCUUCACAGGUACUAUAAUUUCACCGAGUCUCUGGUUGAGACAGUGCCCAAAUCGUUACACCUUUCGUGCGGGUCGGAACUUACCCGACAAGGA
(((((.((((.(((((((((((((........)))))................(((((.....)))))..))))).....(.....).....))))))).))))).....((.....)). ( -37.20)
>Bhalo.0 4174298 120 - 4202352/880-1000
UUCCGUCCUGUCGCGGGUAACCUGCAUCUUCACAGGUACUAUAAUUUCACCGGGUCUCUCGUUGAGACAGUAUCCAAGUCGUUACACCAUUCGUGCGGGUCGGAACUUACCCGACAAGGA
(((((.((((.(((((((.(((((........)))))..............(((((((.....))))).(((..........))).))))))))))))).))))).....((.....)). ( -38.40)
>consensus
UUCCGUCCUGUCGCGGGUAACCUGCAUCUUCACAGGUACUAUAAUUUCACCGAGUCUCUGGUUGAGACAGUGCCCAAAUCGUUACACCUUUCGUGCGGGUCGGAACUUACCCGACAAGGA
(((((.((((.(((((((((((((........)))))................(((((.....)))))..))))).....(.....).....))))))).))))).....((.....)). (-36.71 = -36.27 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location	4,652,088 – 4,652,205
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	92.72
Mean single sequence MFE	-42.93
Consensus MFE	-38.12
Energy contribution	-37.23
Covariance contribution	-0.89
Combinations/Pair	1.06
Mean z-score	-1.96
Structure conservation index	0.89
SVM decision value	0.37
SVM RNA-class probability	0.709271
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 117 + 5227293/1000-1120
GGGGUGACACCUGCCCGGUGCUGGAAGGUUAAGGAGAGGGGUUAGC---GUAAGCGAAGCUCUGAACUGAAGCCCCAGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAU
..(....)(((((((...((((((..((((..((...((((((.((---....))..))))))...))..))))))))))...)))((((((.......))))))...))))........ ( -42.30)
>Bcere.0 4651066 117 + 5224283/1000-1120
GGGGUGACACCUGCCCGGUGCUGGAAGGUUAAGGAGAGGGGUUAGC---GUAAGCGAAGCUCUGAACUGAAGCCCCAGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAU
..(....)(((((((...((((((..((((..((...((((((.((---....))..))))))...))..))))))))))...)))((((((.......))))))...))))........ ( -42.30)
>Bhalo.0 4174298 120 - 4202352/1000-1120
GGGCUGACACCUGCCCGGUGCUGGAAGGUUAAGAGGAGGGGUUAUCCCUUCGGGAGAAGCUCUGAAUUGAAGCCCCAGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAU
..(((...(((((((...((((((..((((..((...((((((.((((....)).))))))))...))..))))))))))...)))((((((.......))))))...)))))))..... ( -44.20)
>consensus
GGGGUGACACCUGCCCGGUGCUGGAAGGUUAAGGAGAGGGGUUAGC___GUAAGCGAAGCUCUGAACUGAAGCCCCAGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAU
....((..(((((((...((((((..((((..((...((((((.((.......))..))))))...))..))))))))))...)))((((((.......))))))...))))..)).... (-38.12 = -37.23 +  -0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location	4,652,088 – 4,652,205
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	91.60
Mean single sequence MFE	-42.37
Consensus MFE	-37.93
Energy contribution	-36.60
Covariance contribution	-1.33
Combinations/Pair	1.09
Mean z-score	-2.20
Structure conservation index	0.90
SVM decision value	0.83
SVM RNA-class probability	0.861173
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 117 + 5227293/1040-1160
AAAAACACAGCUCUCUGCGAAGCCGUAAGGCGAAGUAUAGGGGGUGACACCUGCCCGGUGCUGGAAGGUUAAGGAGAGGGGUUAGC---GUAAGCGAAGCUCUGAACUGAAGCCCCAGUA
.....(((..((((.(((...(((....)))...))).)))).))).((((.....))))((((..((((..((...((((((.((---....))..))))))...))..)))))))).. ( -42.10)
>Bcere.0 4651066 117 + 5224283/1040-1160
AAAAACACAGCUCUCUGCGAAGCCGUAAGGCGAAGUAUAGGGGGUGACACCUGCCCGGUGCUGGAAGGUUAAGGAGAGGGGUUAGC---GUAAGCGAAGCUCUGAACUGAAGCCCCAGUA
.....(((..((((.(((...(((....)))...))).)))).))).((((.....))))((((..((((..((...((((((.((---....))..))))))...))..)))))))).. ( -42.10)
>Bhalo.0 4174298 120 - 4202352/1040-1160
AAAAACACAGGUCUCUGCGAAGCCGCAAGGCGAAGUAUAGGGGCUGACACCUGCCCGGUGCUGGAAGGUUAAGAGGAGGGGUUAUCCCUUCGGGAGAAGCUCUGAAUUGAAGCCCCAGUA
............((.(((...(((....)))...))).))((((........))))..((((((..((((..((...((((((.((((....)).))))))))...))..)))))))))) ( -42.90)
>consensus
AAAAACACAGCUCUCUGCGAAGCCGUAAGGCGAAGUAUAGGGGGUGACACCUGCCCGGUGCUGGAAGGUUAAGGAGAGGGGUUAGC___GUAAGCGAAGCUCUGAACUGAAGCCCCAGUA
.........(((((((((...(((....)))...))..)))))))..((((.....))))((((..((((..((...((((((.((.......))..))))))...))..)))))))).. (-37.93 = -36.60 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	88.33
Mean single sequence MFE	-23.03
Consensus MFE	-23.49
Energy contribution	-22.16
Covariance contribution	-1.33
Combinations/Pair	1.13
Mean z-score	-0.66
Structure conservation index	1.02
SVM decision value	0.34
SVM RNA-class probability	0.694043
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/1400-1520
CCAUCACAGCUCAGCCUUCACGAUAAGCGGAUUUGCCUACUUAUCAGCCUAACUGCUUGGACGUGCACAACCAAUCGCACGCUUCUUCUAUCCUUCUGCGUCCCUCCAUUGCUCAAACGA
.......(((...........((((((..(......)..))))))(((......))).((((((((..........))))((...............)))))).......)))....... ( -21.16)
>Bcere.0 4651066 120 + 5224283/1400-1520
CCAUCACAGCUCAGCCUUCACGAUAAGCGGAUUUGCCUACUUAUCAGCCUAACUGCUUGGACGUGCACAACCAAUCGCACGCUUCUUCUAUCCUUCUGCGUCCCUCCAUUGCUCAAACGA
.......(((...........((((((..(......)..))))))(((......))).((((((((..........))))((...............)))))).......)))....... ( -21.16)
>Bhalo.0 4174298 120 - 4202352/1400-1520
CCAUCACAGCUCAGCCUUUAUGGAAAGCGGAUUUGCCUACUUUCCAGCCUAACUGCUUGGACGCGCAUCUCCAUCAGCGCGCUUACCCUACCUUUCUGCGUCCCCCCAUUGCUCAAACGG
((.....(((.(((......(((((((..(......)..)))))))......)))...((((((((..........))))((...............)))))).......))).....)) ( -26.76)
>consensus
CCAUCACAGCUCAGCCUUCACGAUAAGCGGAUUUGCCUACUUAUCAGCCUAACUGCUUGGACGUGCACAACCAAUCGCACGCUUCUUCUAUCCUUCUGCGUCCCUCCAUUGCUCAAACGA
.......(((...........((((((..(......)..))))))(((......))).((((((((..........))))((...............)))))).......)))....... (-23.49 = -22.16 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	88.33
Mean single sequence MFE	-30.81
Consensus MFE	-29.77
Energy contribution	-28.99
Covariance contribution	-0.77
Combinations/Pair	1.11
Mean z-score	-1.38
Structure conservation index	0.97
SVM decision value	0.68
SVM RNA-class probability	0.821187
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/1440-1560
UUAUCAGCCUAACUGCUUGGACGUGCACAACCAAUCGCACGCUUCUUCUAUCCUUCUGCGUCCCUCCAUUGCUCAAACGAUAAAGAGGUGGUACAGGAAUAUCAACCUGUUGUCCAUCGC
((((((((......))).((((((((..........))))((...............))))))...............)))))...(((((.(((((........)))))...))))).. ( -28.86)
>Bcere.0 4651066 120 + 5224283/1440-1560
UUAUCAGCCUAACUGCUUGGACGUGCACAACCAAUCGCACGCUUCUUCUAUCCUUCUGCGUCCCUCCAUUGCUCAAACGAUAAAGAGGUGGUACAGGAAUAUCAACCUGUUGUCCAUCGC
((((((((......))).((((((((..........))))((...............))))))...............)))))...(((((.(((((........)))))...))))).. ( -28.86)
>Bhalo.0 4174298 120 - 4202352/1440-1560
UUUCCAGCCUAACUGCUUGGACGCGCAUCUCCAUCAGCGCGCUUACCCUACCUUUCUGCGUCCCCCCAUUGCUCAAACGGUGAGGAGGUGGUACAGGAAUUUCCACCUGUUGUCCAUCGC
..((((((......)).))))(((((..........)))))....((.(((((((..(((.........)))..))).)))).)).(((((.(((((........)))))...))))).. ( -34.70)
>consensus
UUAUCAGCCUAACUGCUUGGACGUGCACAACCAAUCGCACGCUUCUUCUAUCCUUCUGCGUCCCUCCAUUGCUCAAACGAUAAAGAGGUGGUACAGGAAUAUCAACCUGUUGUCCAUCGC
((((((((......))).((((((((..........))))((...............))))))...............)))))...(((((.(((((........)))))...))))).. (-29.77 = -28.99 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	94.99
Mean single sequence MFE	-41.50
Consensus MFE	-38.70
Energy contribution	-38.03
Covariance contribution	-0.66
Combinations/Pair	1.06
Mean z-score	-1.54
Structure conservation index	0.93
SVM decision value	-0.04
SVM RNA-class probability	0.511781
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1560-1680
CUACGCCUGUCGGCCUCGGCUUAGGUCCUGACUAACCCUGAGCGGACGAGCCUUCCUCAGGAAACCUUAGGCAUUCGGUGGACGGGAUUCUCACCCGUCUUU-CGCUACUCAUACCGGCA
....(((((((((((((.(((((((...........))))))).)).).)))((((...))))......))))..(((.(((((((.......))))))).)-))...........))). ( -41.50)
>Bcere.0 4651066 119 + 5224283/1560-1680
CUACGCCUGUCGGCCUCGGCUUAGGUCCUGACUAACCCUGAGCGGACGAGCCUUCCUCAGGAAACCUUAGGCAUUCGGUGGACGGGAUUCUCACCCGUCUUU-CGCUACUCAUACCGGCA
....(((((((((((((.(((((((...........))))))).)).).)))((((...))))......))))..(((.(((((((.......))))))).)-))...........))). ( -41.50)
>Bhalo.0 4174298 120 - 4202352/1560-1680
CUACGCCUUUCGGCCUCGGCUUAGGUCCCGACUAACCCUGAGCGGACGAGCCUUCCUCAGGAAACCUUGGGCUUUCGACGGAGGGGAUUCUCACCCCUCUUUUCGCUACUCAUACCGGCA
....(((....((((((.(((((((...........))))))).))((((..((((...))))..))))))))..(((.(((((((.......)))))))..)))...........))). ( -41.50)
>consensus
CUACGCCUGUCGGCCUCGGCUUAGGUCCUGACUAACCCUGAGCGGACGAGCCUUCCUCAGGAAACCUUAGGCAUUCGGUGGACGGGAUUCUCACCCGUCUUU_CGCUACUCAUACCGGCA
....(((....((((((.(((((((...........))))))).)).).)))..(((.(((...))).)))....((..(((((((.......)))))))...))...........))). (-38.70 = -38.03 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	91.09
Mean single sequence MFE	-24.49
Consensus MFE	-25.75
Energy contribution	-24.42
Covariance contribution	-1.33
Combinations/Pair	1.13
Mean z-score	-2.17
Structure conservation index	1.05
SVM decision value	2.55
SVM RNA-class probability	0.995167
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1640-1760
GACGGGAUUCUCACCCGUCUUU-CGCUACUCAUACCGGCAUUCUCACUUCUAAGCACUCCACCAGUCCUUCCGGUCUGACUUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU
((((((.......))))))...-.(((.........)))........(((((((.((.....(((.((....)).)))........)).)))))))........................ ( -22.72)
>Bcere.0 4651066 119 + 5224283/1640-1760
GACGGGAUUCUCACCCGUCUUU-CGCUACUCAUACCGGCAUUCUCACUUCUAAGCACUCCACCAGUCCUUCCGGUCUGACUUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU
((((((.......))))))...-.(((.........)))........(((((((.((.....(((.((....)).)))........)).)))))))........................ ( -22.72)
>Bhalo.0 4174298 120 - 4202352/1640-1760
GAGGGGAUUCUCACCCCUCUUUUCGCUACUCAUACCGGCAUUCUCACUUCUACGCGCUCCACCAGUCCUCUCGGUCUGACUUCGCUGCACGUAGAACGCUCCCCUACCACUCGCACCAAC
((((((.......)))))).................((.........(((((((.((.....(((.((....)).)))........)).))))))).((.............)).))... ( -28.04)
>consensus
GACGGGAUUCUCACCCGUCUUU_CGCUACUCAUACCGGCAUUCUCACUUCUAAGCACUCCACCAGUCCUUCCGGUCUGACUUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU
((((((.......)))))).....(((.........)))........(((((((.((.....(((.((....)).)))........)).)))))))........................ (-25.75 = -24.42 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	91.09
Mean single sequence MFE	-38.93
Consensus MFE	-37.10
Energy contribution	-35.33
Covariance contribution	-1.77
Combinations/Pair	1.15
Mean z-score	-2.83
Structure conservation index	0.95
SVM decision value	2.13
SVM RNA-class probability	0.988727
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1640-1760
AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAAGUCAGACCGGAAGGACUGGUGGAGUGCUUAGAAGUGAGAAUGCCGGUAUGAGUAGCG-AAAGACGGGUGAGAAUCCCGUC
..((.(((((.(((((.....((.(((((((.((......(((((.((....)).)))))...)).))))))))).....)))))...))).)).))-...((((((.......)))))) ( -35.70)
>Bcere.0 4651066 119 + 5224283/1640-1760
AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAAGUCAGACCGGAAGGACUGGUGGAGUGCUUAGAAGUGAGAAUGCCGGUAUGAGUAGCG-AAAGACGGGUGAGAAUCCCGUC
..((.(((((.(((((.....((.(((((((.((......(((((.((....)).)))))...)).))))))))).....)))))...))).)).))-...((((((.......)))))) ( -35.70)
>Bhalo.0 4174298 120 - 4202352/1640-1760
GUUGGUGCGAGUGGUAGGGGAGCGUUCUACGUGCAGCGAAGUCAGACCGAGAGGACUGGUGGAGCGCGUAGAAGUGAGAAUGCCGGUAUGAGUAGCGAAAAGAGGGGUGAGAAUCCCCUC
.(((.(((.(.(((((.....((.((((((((((..((...((((.((....)).))))))..)))))))))))).....))))).)....))).)))...((((((.......)))))) ( -45.40)
>consensus
AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAAGUCAGACCGGAAGGACUGGUGGAGUGCUUAGAAGUGAGAAUGCCGGUAUGAGUAGCG_AAAGACGGGUGAGAAUCCCGUC
...(.(((.(.(((((.....((.(((((((.((......(((((.((....)).)))))...)).))))))))).....))))).)....))).).....((((((.......)))))) (-37.10 = -35.33 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	87.19
Mean single sequence MFE	-29.47
Consensus MFE	-30.09
Energy contribution	-27.99
Covariance contribution	-2.10
Combinations/Pair	1.19
Mean z-score	-1.72
Structure conservation index	1.02
SVM decision value	2.19
SVM RNA-class probability	0.990021
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1680-1800
UUCUCACUUCUAAGCACUCCACCAGUCCUUCCGGUCUGACUUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU-GGUAUCAAUCCGCAGCUUCGGUGGUGUAUUUAGCCCCGG
.........(((((.((.(((((((.((....)).))(((......)))....(((.(((..........(((((((...-)))))))......))))))))))).)).)))))...... ( -27.79)
>Bcere.0 4651066 120 + 5224283/1680-1800
UUCUCACUUCUAAGCACUCCACCAGUCCUUCCGGUCUGACUUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUUCGGUAUCAAUCCGCAGCUUCGGUGGUGUAUUUAGCCCCGG
.........(((((.((.(((((((.((....)).))(((......)))....(((.(((..........(((((((....)))))))......))))))))))).)).)))))...... ( -29.39)
>Bhalo.0 4174298 119 - 4202352/1680-1800
UUCUCACUUCUACGCGCUCCACCAGUCCUCUCGGUCUGACUUCGCUGCACGUAGAACGCUCCCCUACCACUCGCACCAAC-GGUGCGAAUCCAUAGCUUCGGUGAUACGUUUAGCCCCGG
.......(((((((.((.....(((.((....)).)))........)).)))))))..........((..(((((((...-))))))).......(((.((......))...)))...)) ( -31.22)
>consensus
UUCUCACUUCUAAGCACUCCACCAGUCCUUCCGGUCUGACUUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU_GGUAUCAAUCCGCAGCUUCGGUGGUGUAUUUAGCCCCGG
.......(((((((.((.....(((.((....)).)))........)).))))))).(((....(((((((((((((....)))))))...(........))))))).....)))..... (-30.09 = -27.99 +  -2.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	87.19
Mean single sequence MFE	-38.83
Consensus MFE	-38.54
Energy contribution	-35.67
Covariance contribution	-2.88
Combinations/Pair	1.23
Mean z-score	-1.59
Structure conservation index	0.99
SVM decision value	1.56
SVM RNA-class probability	0.964056
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1680-1800
CCGGGGCUAAAUACACCACCGAAGCUGCGGAUUGAUACC-AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAAGUCAGACCGGAAGGACUGGUGGAGUGCUUAGAAGUGAGAA
(((.((((..............)))).)))(((((((((-...))))))))).........((.(((((((.((......(((((.((....)).)))))...)).)))))))))..... ( -35.54)
>Bcere.0 4651066 120 + 5224283/1680-1800
CCGGGGCUAAAUACACCACCGAAGCUGCGGAUUGAUACCGAAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAAGUCAGACCGGAAGGACUGGUGGAGUGCUUAGAAGUGAGAA
(((.((((..............)))).)))(((((((((....))))))))).........((.(((((((.((......(((((.((....)).)))))...)).)))))))))..... ( -36.74)
>Bhalo.0 4174298 119 - 4202352/1680-1800
CCGGGGCUAAACGUAUCACCGAAGCUAUGGAUUCGCACC-GUUGGUGCGAGUGGUAGGGGAGCGUUCUACGUGCAGCGAAGUCAGACCGAGAGGACUGGUGGAGCGCGUAGAAGUGAGAA
.....(((...(.((((.(((......)))(((((((((-...))))))))))))).)..))).((((((((((..((...((((.((....)).))))))..))))))))))....... ( -44.20)
>consensus
CCGGGGCUAAAUACACCACCGAAGCUGCGGAUUGAUACC_AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAAGUCAGACCGGAAGGACUGGUGGAGUGCUUAGAAGUGAGAA
.....(((...(..(((.(((......)))(((((((((....))))))))))))..)..))).(((((((.((......(((((.((....)).)))))...)).)))))))....... (-38.54 = -35.67 +  -2.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	88.86
Mean single sequence MFE	-33.13
Consensus MFE	-31.42
Energy contribution	-29.77
Covariance contribution	-1.66
Combinations/Pair	1.18
Mean z-score	-1.11
Structure conservation index	0.95
SVM decision value	-0.02
SVM RNA-class probability	0.523662
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1720-1840
UUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU-GGUAUCAAUCCGCAGCUUCGGUGGUGUAUUUAGCCCCGGUACAUUUUCGGCGCAGAGUCACUCGACUAGUGAGCUAUUA
(((((((((...((...((((...(((((((((((((...-)))))))...((......))))))))......((.((((.......)))).)).))))..)).))).))))))...... ( -32.40)
>Bcere.0 4651066 120 + 5224283/1720-1840
UUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUUCGGUAUCAAUCCGCAGCUUCGGUGGUGUAUUUAGCCCCGGUACAUUUUCGGCGCAGAGUCACUCGACUAGUGAGCUAUUA
(((((((((...((...((((...(((((((((((((....)))))))...((......))))))))......((.((((.......)))).)).))))..)).))).))))))...... ( -34.00)
>Bhalo.0 4174298 119 - 4202352/1720-1840
UUCGCUGCACGUAGAACGCUCCCCUACCACUCGCACCAAC-GGUGCGAAUCCAUAGCUUCGGUGAUACGUUUAGCCCCGGUACAUUUUCGGCGCAGAGUCACUCGACCAGUGAGCUAUUA
(((((((...((((.........))))...(((((((...-)))))))..........((((((((.(.....((.((((.......)))).)).).))))).))).)))))))...... ( -33.00)
>consensus
UUCACUGUCCUUAGAACGCUCCCCUACCACUGAUACCAUU_GGUAUCAAUCCGCAGCUUCGGUGGUGUAUUUAGCCCCGGUACAUUUUCGGCGCAGAGUCACUCGACUAGUGAGCUAUUA
(((((((......((..((((...(((((((((((((....)))))))...(........)))))))......((.((((.......)))).)).))))...))...)))))))...... (-31.42 = -29.77 +  -1.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.86
Mean single sequence MFE	-39.16
Consensus MFE	-37.31
Energy contribution	-36.21
Covariance contribution	-1.10
Combinations/Pair	1.14
Mean z-score	-1.37
Structure conservation index	0.95
SVM decision value	0.41
SVM RNA-class probability	0.726679
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/1720-1840
UAAUAGCUCACUAGUCGAGUGACUCUGCGCCGAAAAUGUACCGGGGCUAAAUACACCACCGAAGCUGCGGAUUGAUACC-AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAA
.......(((((.((((((((.((((.((((.........(((.((((..............)))).)))(((((((((-...)))))))))))).).)))))))))....)))))))). ( -38.14)
>Bcere.0 4651066 120 + 5224283/1720-1840
UAAUAGCUCACUAGUCGAGUGACUCUGCGCCGAAAAUGUACCGGGGCUAAAUACACCACCGAAGCUGCGGAUUGAUACCGAAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAA
.......(((((.((((((((.((((.((((.........(((.((((..............)))).)))(((((((((....)))))))))))).).)))))))))....)))))))). ( -39.34)
>Bhalo.0 4174298 119 - 4202352/1720-1840
UAAUAGCUCACUGGUCGAGUGACUCUGCGCCGAAAAUGUACCGGGGCUAAACGUAUCACCGAAGCUAUGGAUUCGCACC-GUUGGUGCGAGUGGUAGGGGAGCGUUCUACGUGCAGCGAA
.....(((((((((....((..((((((............(((.((((...((......)).)))).)))(((((((((-...))))))))).))))))..))...))).))).)))... ( -40.00)
>consensus
UAAUAGCUCACUAGUCGAGUGACUCUGCGCCGAAAAUGUACCGGGGCUAAAUACACCACCGAAGCUGCGGAUUGAUACC_AAUGGUAUCAGUGGUAGGGGAGCGUUCUAAGGACAGUGAA
.......(((((.((((((((.((((.((((.........(((.((((..............)))).)))(((((((((....)))))))))))).).)))))))))....)))))))). (-37.31 = -36.21 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.11
Mean single sequence MFE	-36.57
Consensus MFE	-36.12
Energy contribution	-36.23
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-2.21
Structure conservation index	0.99
SVM decision value	1.44
SVM RNA-class probability	0.954037
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/1800-1920
UGUAUUAAGUGGAAAAGGAUGUGGAGUUGCUUAGACAACUAGGAUGUUGGCUUAGAAGCAGCCACCAUUUAAAGAGUGCGUAAUAGCUCACUAGUCGAGUGACUCUGCGCCGAAAAUGUA
................((.((..((((..(((.(((.....(((((.(((((.......))))).)))))....((((.((....)).)))).))))))..))))..))))......... ( -37.10)
>Bcere.0 4651066 120 + 5224283/1800-1920
UGUAUUAAGUGGAAAAGGAUGUGGAGUUGCUUAGACAACUAGGAUGUUGGCUUAGAAGCAGCCACCAUUUAAAGAGUGCGUAAUAGCUCACUAGUCGAGUGACUCUGCGCCGAAAAUGUA
................((.((..((((..(((.(((.....(((((.(((((.......))))).)))))....((((.((....)).)))).))))))..))))..))))......... ( -37.10)
>Bhalo.0 4174298 120 - 4202352/1800-1920
UACGUUAAGUGGAAAAGGAUGUGGAGUUGCCCAGACAACCAGGAUGUUGGCUUAGAAGCAGCCACCAUUUAAAGAGUGCGUAAUAGCUCACUGGUCGAGUGACUCUGCGCCGAAAAUGUA
((((((...(....).((.((..((((..(...((...((((((((.(((((.......))))).))))....((((........)))).))))))..)..))))..))))...)))))) ( -35.50)
>consensus
UGUAUUAAGUGGAAAAGGAUGUGGAGUUGCUUAGACAACUAGGAUGUUGGCUUAGAAGCAGCCACCAUUUAAAGAGUGCGUAAUAGCUCACUAGUCGAGUGACUCUGCGCCGAAAAUGUA
................((.((..((((..(((.(((.....(((((.(((((.......))))).)))))....((((.((....)).)))).))))))..))))..))))......... (-36.12 = -36.23 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.22
Mean single sequence MFE	-37.03
Consensus MFE	-36.83
Energy contribution	-36.83
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.42
Structure conservation index	0.99
SVM decision value	0.11
SVM RNA-class probability	0.587497
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/1960-2080
UUGGAGGUAGAGCACUGAUUGGACUAGGGGUCCUCAUCGGAUUACCGAAUUCAGUCAAACUCCGAAUGCCAAUGACUUAUCCUUAGGAGUCAGACUGCGAGUGAUAAGAUCCGUAGUCAA
((((((.....(.(((((..((((.....))))...((((....))))..))))))...)))))).......((((((........))))))(((((((..(......)..))))))).. ( -37.30)
>Bcere.0 4651066 120 + 5224283/1960-2080
UUGGAGGUAGAGCACUGAUUGGACUAGGGGUCCUCAUCGGAUUACCGAAUUCAGUCAAACUCCGAAUGCCAAUGACUUAUCCUUAGGAGUCAGACUGCGAGUGAUAAGAUCCGUAGUCAA
((((((.....(.(((((..((((.....))))...((((....))))..))))))...)))))).......((((((........))))))(((((((..(......)..))))))).. ( -37.30)
>Bhalo.0 4174298 120 - 4202352/1960-2080
UUGGAGGUAGAGCACUGAUUGGACUAGGGGUCCCCACCGGAUUACCGAAUUCAGUCAAACUCCGAAUGCCAAUGACUUAUCCUCGGGAGUCAGACUGCGAGUGCUAAGAUCCGUAGUCAA
(((((((.....)..((((((((...(((((((.....))))).))...))))))))..)))))).......((((((........))))))(((((((..(......)..))))))).. ( -36.50)
>consensus
UUGGAGGUAGAGCACUGAUUGGACUAGGGGUCCUCAUCGGAUUACCGAAUUCAGUCAAACUCCGAAUGCCAAUGACUUAUCCUUAGGAGUCAGACUGCGAGUGAUAAGAUCCGUAGUCAA
(((((((.....)..((((((((...(((((((.....))))).))...))))))))..)))))).......((((((........))))))(((((((..(......)..))))))).. (-36.83 = -36.83 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-38.67
Consensus MFE	-38.88
Energy contribution	-37.33
Covariance contribution	-1.55
Combinations/Pair	1.15
Mean z-score	-1.37
Structure conservation index	1.01
SVM decision value	0.36
SVM RNA-class probability	0.704817
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2080-2200
AACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACCUGGAGAUAGCUGGUUCUCCCCGAAAUAGCUUUAGGGCUAGCCUUAAGUGUAAGAGUC
..(((.(((((........)))))))).((((((.((((....((((...))))....(((((.((......)))))))..))))...(((((....)))))))))))............ ( -38.40)
>Bcere.0 4651066 120 + 5224283/2080-2200
AACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACCUGGAGAUAGCUGGUUCUCCCCGAAAUAGCUUUAGGGCUAGCCUUAAGUGUAAGAGUC
..(((.(((((........)))))))).((((((.((((....((((...))))....(((((.((......)))))))..))))...(((((....)))))))))))............ ( -38.40)
>Bhalo.0 4174298 119 - 4202352/2080-2200
AACCCACGCAUGUUGAAAAAUGCGGGGAUGAGGUGUGGGUAGGGGUGAAAUGCCAAUCGAACUCGGAAAUAGCUGGUUCUCCCCGAAAUAGCUUUAGGGCUAGCCUCGAG-GGAAGAGUC
..(((.(((((........)))))))).((((((.......((((.(((..((...(((....))).....))...))).))))....(((((....)))))))))))..-......... ( -39.20)
>consensus
AACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACCUGGAGAUAGCUGGUUCUCCCCGAAAUAGCUUUAGGGCUAGCCUUAAGUGUAAGAGUC
..(((.(((((........)))))))).((((((.((((....(((.....)))....(((((.((......)))))))..))))...(((((....)))))))))))............ (-38.88 = -37.33 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.56
Mean single sequence MFE	-31.87
Consensus MFE	-30.03
Energy contribution	-30.03
Covariance contribution	0.00
Combinations/Pair	1.07
Mean z-score	-2.21
Structure conservation index	0.94
SVM decision value	1.07
SVM RNA-class probability	0.909533
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2120-2240
AGAACCAGCUAUCUCCAGGUUCGAUUGGAAUUUCUCCGCUACCCACACCUCAUCCCCGCACUUUUCAACGUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACA
....((((........((((((((..(((.....)))................((((((((........))))).))).))))))))...(((((......))))).......))))... ( -33.90)
>Bcere.0 4651066 120 + 5224283/2120-2240
AGAACCAGCUAUCUCCAGGUUCGAUUGGAAUUUCUCCGCUACCCACACCUCAUCCCCGCACUUUUCAACGUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACA
....((((........((((((((..(((.....)))................((((((((........))))).))).))))))))...(((((......))))).......))))... ( -33.90)
>Bhalo.0 4174298 120 - 4202352/2120-2240
AGAACCAGCUAUUUCCGAGUUCGAUUGGCAUUUCACCCCUACCCACACCUCAUCCCCGCAUUUUUCAACAUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACA
....((((........(((((((..(((((((...(((..((((((...........((((........))))))))))..))).........)))))))..)))))))....))))... ( -27.80)
>consensus
AGAACCAGCUAUCUCCAGGUUCGAUUGGAAUUUCUCCGCUACCCACACCUCAUCCCCGCACUUUUCAACGUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACA
....((((........((((((((..(((.....)))................((((((((........))))).))).))))))))...(((((......))))).......))))... (-30.03 = -30.03 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.56
Mean single sequence MFE	-40.17
Consensus MFE	-39.64
Energy contribution	-38.53
Covariance contribution	-1.11
Combinations/Pair	1.09
Mean z-score	-1.74
Structure conservation index	0.99
SVM decision value	0.69
SVM RNA-class probability	0.824861
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2120-2240
UGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACCUGGAGAUAGCUGGUUCU
..((((((.(((.((((((......))))))((((.((((.((((((((.(((........)))........))))))))..))).)...))))..)))..))))))............. ( -40.90)
>Bcere.0 4651066 120 + 5224283/2120-2240
UGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACCUGGAGAUAGCUGGUUCU
..((((((.(((.((((((......))))))((((.((((.((((((((.(((........)))........))))))))..))).)...))))..)))..))))))............. ( -40.90)
>Bhalo.0 4174298 120 - 4202352/2120-2240
UGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCAUGUUGAAAAAUGCGGGGAUGAGGUGUGGGUAGGGGUGAAAUGCCAAUCGAACUCGGAAAUAGCUGGUUCU
(..(((((((...((((((......))))))....))))...(((.(((((........))))))))........)))..)..(((.....)))....((((.(((......))))))). ( -38.70)
>consensus
UGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACCUGGAGAUAGCUGGUUCU
(..(((((((...((((((......))))))....))))...(((.(((((........))))))))........)))..)..(((.....)))....(((((.((......))))))). (-39.64 = -38.53 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-36.23
Consensus MFE	-35.21
Energy contribution	-34.77
Covariance contribution	-0.44
Combinations/Pair	1.03
Mean z-score	-1.62
Structure conservation index	0.97
SVM decision value	0.31
SVM RNA-class probability	0.682275
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2160-2280
ACCCACACCUCAUCCCCGCACUUUUCAACGUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACAUGGGUAGAUCACCUGGUUUCGGGUCUACGACCACGUACUA
(((((.........(((((((........))))).))(((((((......(((((......)))))......))))))).)))))........((((..((((((...)))).)).)))) ( -37.30)
>Bcere.0 4651066 120 + 5224283/2160-2280
ACCCACACCUCAUCCCCGCACUUUUCAACGUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACAUGGGUAGAUCACCUGGUUUCGGGUCUACGACCACGUACUA
(((((.........(((((((........))))).))(((((((......(((((......)))))......))))))).)))))........((((..((((((...)))).)).)))) ( -37.30)
>Bhalo.0 4174298 120 - 4202352/2160-2280
ACCCACACCUCAUCCCCGCAUUUUUCAACAUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACAUGGGUAGAUCACACGGUUUCGGGUCUACGACGGCGUACUA
(((((.........(((((((........))))).))(((((((......(((((......)))))......))))))).))))).......(((.(.(((......))).).))).... ( -34.10)
>consensus
ACCCACACCUCAUCCCCGCACUUUUCAACGUGCGUGGGUUCGGGCCUCCAUUCAGUGUUACCUGAACUUCACCCUGGACAUGGGUAGAUCACCUGGUUUCGGGUCUACGACCACGUACUA
((((..(((.(((.(((((((........))))).))(((((((......(((((......)))))......)))))))))))))(((((....))))).)))).((((....))))... (-35.21 = -34.77 +  -0.44)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-46.07
Consensus MFE	-44.95
Energy contribution	-44.40
Covariance contribution	-0.55
Combinations/Pair	1.06
Mean z-score	-2.45
Structure conservation index	0.98
SVM decision value	1.63
SVM RNA-class probability	0.968598
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2160-2280
UAGUACGUGGUCGUAGACCCGAAACCAGGUGAUCUACCCAUGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGU
...(((.((((((......)))..))).)))....((((((..(((((((...((((((......))))))....))))...(((.(((((........)))))))).)).)..)))))) ( -47.30)
>Bcere.0 4651066 120 + 5224283/2160-2280
UAGUACGUGGUCGUAGACCCGAAACCAGGUGAUCUACCCAUGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGU
...(((.((((((......)))..))).)))....((((((..(((((((...((((((......))))))....))))...(((.(((((........)))))))).)).)..)))))) ( -47.30)
>Bhalo.0 4174298 120 - 4202352/2160-2280
UAGUACGCCGUCGUAGACCCGAAACCGUGUGAUCUACCCAUGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCAUGUUGAAAAAUGCGGGGAUGAGGUGUGGGU
...(((((..(((......)))....)))))....((((((..(((((((...((((((......))))))....))))...(((.(((((........)))))))).)).)..)))))) ( -43.60)
>consensus
UAGUACGUGGUCGUAGACCCGAAACCAGGUGAUCUACCCAUGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGU
...(((.((((((......)))..))).)))....((((((..(((((((...((((((......))))))....))))...(((.(((((........)))))))).)).)..)))))) (-44.95 = -44.40 +  -0.55)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.11
Mean single sequence MFE	-40.60
Consensus MFE	-40.49
Energy contribution	-40.27
Covariance contribution	-0.22
Combinations/Pair	1.06
Mean z-score	-2.37
Structure conservation index	1.00
SVM decision value	1.76
SVM RNA-class probability	0.975867
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2360-2480
ACCAGUACCGUGAGGGAAAGGUGAAAAGCACCCCGGAAGGGGAGUGAAAGAGAUCCUGAAACCGUGUGCCUACAAAUAGUCAGAGCCCGUUAACGGGUGAUGGCGUGCCUUUUGUAGAAU
....((((((...((((..(.(....).).((((....))))...........)))).....)).))))(((((((..((((..(((((....)))))..))))......)))))))... ( -41.90)
>Bcere.0 4651066 120 + 5224283/2360-2480
ACCAGUACCGUGAGGGAAAGGUGAAAAGCACCCCGGAAGGGGAGUGAAAGAGAUCCUGAAACCGUGUGCCUACAAAUAGUCAGAGCCCGUUAACGGGUGAUGGCGUGCCUUUUGUAGAAU
....((((((...((((..(.(....).).((((....))))...........)))).....)).))))(((((((..((((..(((((....)))))..))))......)))))))... ( -41.90)
>Bhalo.0 4174298 120 - 4202352/2360-2480
ACCAGUACCGUGAGGGAAAGGUGAAAAGCACCCCGGAAGGGGAGUGAAAAAGAUCCUGAAACCGUGUGCCUACAACUAGUUGGAGCCCAUUAACGGGUGACAGCGUGCCUUUUGUAGAAU
.......((....))(((((((.....(((((((....))))((.((......)))).........))).........((((..((((......))))..))))..)))))))....... ( -38.00)
>consensus
ACCAGUACCGUGAGGGAAAGGUGAAAAGCACCCCGGAAGGGGAGUGAAAGAGAUCCUGAAACCGUGUGCCUACAAAUAGUCAGAGCCCGUUAACGGGUGAUGGCGUGCCUUUUGUAGAAU
....((((((...((((..(.(....).).((((....))))...........)))).....)).))))(((((((..((((..(((((....)))))..))))......)))))))... (-40.49 = -40.27 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	90.00
Mean single sequence MFE	-36.90
Consensus MFE	-33.43
Energy contribution	-31.00
Covariance contribution	-2.43
Combinations/Pair	1.18
Mean z-score	-2.34
Structure conservation index	0.91
SVM decision value	1.20
SVM RNA-class probability	0.929318
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2560-2680
ACUCAGGAUACAUUCAAGAGAGAACGAAGUUUCGACUACGGGGUUGUUACCCUCUACGACGGACCUUUCCAGGUCGCUUCGUCUACCUCGUUCCUUUGUAACUCCGUAUAGAAUGUCCUA
....((((..(((((.((((.((((((.((...(((...(((((....)))))....((.((((((....))))).).))))).)).))))))))))(((......))).))))))))). ( -34.30)
>Bcere.0 4651066 120 + 5224283/2560-2680
ACUCAGGAUACAUUCAAGAGAGAACGAAGUUUCGACUACGGGGUUGUUACCCUCUACGACGGACCUUUCCAGGUCGCUUCGUCUACCUCGUUCCUUUGUAACUCCGUAUAGAAUGUCCUA
....((((..(((((.((((.((((((.((...(((...(((((....)))))....((.((((((....))))).).))))).)).))))))))))(((......))).))))))))). ( -34.30)
>Bhalo.0 4174298 120 - 4202352/2560-2680
ACUCAGGAUCCACUCUGGAGGAAACGAAGUUUCGGCUACAGGGUUGUUACCUUCUGUGACGGACCUUUCCAGGUCGCUUCACCUACUUCGUUUCUUUCUGACUCCGUAUAGAGUGUCCUA
....((((..((((((((((((((((((((...(((((((((((....)))..)))))...(((((....))))))))......)))))))))))))).(....)....)))))))))). ( -42.10)
>consensus
ACUCAGGAUACAUUCAAGAGAGAACGAAGUUUCGACUACGGGGUUGUUACCCUCUACGACGGACCUUUCCAGGUCGCUUCGUCUACCUCGUUCCUUUGUAACUCCGUAUAGAAUGUCCUA
....((((..(((((.((((.((((((.((.........(((((....)))))..((((.((((((....))))).).))))..)).))))))))))...((...))...))))))))). (-33.43 = -31.00 +  -2.43)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	90.00
Mean single sequence MFE	-43.74
Consensus MFE	-43.22
Energy contribution	-40.34
Covariance contribution	-2.88
Combinations/Pair	1.22
Mean z-score	-3.56
Structure conservation index	0.99
SVM decision value	2.74
SVM RNA-class probability	0.996721
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2560-2680
UAGGACAUUCUAUACGGAGUUACAAAGGAACGAGGUAGACGAAGCGACCUGGAAAGGUCCGUCGUAGAGGGUAACAACCCCGUAGUCGAAACUUCGUUCUCUCUUGAAUGUAUCCUGAGU
((((((((((.....((((.......((((((((((.(((((.(.(((((....)))))).))...(.((((....)))))...)))...)))))))))))))).)))))..)))))... ( -41.91)
>Bcere.0 4651066 120 + 5224283/2560-2680
UAGGACAUUCUAUACGGAGUUACAAAGGAACGAGGUAGACGAAGCGACCUGGAAAGGUCCGUCGUAGAGGGUAACAACCCCGUAGUCGAAACUUCGUUCUCUCUUGAAUGUAUCCUGAGU
((((((((((.....((((.......((((((((((.(((((.(.(((((....)))))).))...(.((((....)))))...)))...)))))))))))))).)))))..)))))... ( -41.91)
>Bhalo.0 4174298 120 - 4202352/2560-2680
UAGGACACUCUAUACGGAGUCAGAAAGAAACGAAGUAGGUGAAGCGACCUGGAAAGGUCCGUCACAGAAGGUAACAACCCUGUAGCCGAAACUUCGUUUCCUCCAGAGUGGAUCCUGAGU
(((((((((((....((((.......((((((((((..((((.(.(((((....)))))).))))....(((.(((....))).)))...))))))))))))))))))))..)))))... ( -47.41)
>consensus
UAGGACAUUCUAUACGGAGUUACAAAGGAACGAGGUAGACGAAGCGACCUGGAAAGGUCCGUCGUAGAGGGUAACAACCCCGUAGUCGAAACUUCGUUCUCUCUUGAAUGUAUCCUGAGU
((((((((((.....((((.......((((((((((..((((.(.(((((....)))))).))))...(((.......))).........)))))))))))))).)))))..)))))... (-43.22 = -40.34 +  -2.88)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-34.77
Consensus MFE	-33.74
Energy contribution	-32.63
Covariance contribution	-1.11
Combinations/Pair	1.09
Mean z-score	-1.55
Structure conservation index	0.97
SVM decision value	0.36
SVM RNA-class probability	0.705789
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2600-2720
GGGUUGUUACCCUCUACGACGGACCUUUCCAGGUCGCUUCGUCUACCUCGUUCCUUUGUAACUCCGUAUAGAAUGUCCUACAACCCCAAGAGGCAAGCCUCUUGGUUUGGGCUAUGUUCC
((((....))))...((((.((((((....))))).).))))............((((((......))))))..((((.......((((((((....))))))))...))))........ ( -33.50)
>Bcere.0 4651066 120 + 5224283/2600-2720
GGGUUGUUACCCUCUACGACGGACCUUUCCAGGUCGCUUCGUCUACCUCGUUCCUUUGUAACUCCGUAUAGAAUGUCCUACAACCCCAAGAGGCAAGCCUCUUGGUUUGGGCUAUGUUCC
((((....))))...((((.((((((....))))).).))))............((((((......))))))..((((.......((((((((....))))))))...))))........ ( -33.50)
>Bhalo.0 4174298 119 - 4202352/2600-2720
GGGUUGUUACCUUCUGUGACGGACCUUUCCAGGUCGCUUCACCUACUUCGUUUCUUUCUGACUCCGUAUAGAGUGUCCUACAACCCCAAGAGGCAAGCCUCUUGGUUUGGGCUGU-UUCC
(((((((.((.(((((((.((((.......((((......)))).....(((.......)))))))))))))).))...)))))))(((((((....)))))))...........-.... ( -37.30)
>consensus
GGGUUGUUACCCUCUACGACGGACCUUUCCAGGUCGCUUCGUCUACCUCGUUCCUUUGUAACUCCGUAUAGAAUGUCCUACAACCCCAAGAGGCAAGCCUCUUGGUUUGGGCUAUGUUCC
(((((((.((..(((((((.((((((....))))).).)))).(((...(((.......)))...))).)))..))...)))))))(((((((....)))))))................ (-33.74 = -32.63 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location	4,652,088 – 4,652,208
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-41.57
Consensus MFE	-40.69
Energy contribution	-40.47
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-2.83
Structure conservation index	0.98
SVM decision value	2.28
SVM RNA-class probability	0.991722
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 120 + 5227293/2600-2720
GGAACAUAGCCCAAACCAAGAGGCUUGCCUCUUGGGGUUGUAGGACAUUCUAUACGGAGUUACAAAGGAACGAGGUAGACGAAGCGACCUGGAAAGGUCCGUCGUAGAGGGUAACAACCC
((........))...((((((((....))))))))((((((...((.((((((.....(((.......)))......((((....(((((....))))))))))))))).)).)))))). ( -41.30)
>Bcere.0 4651066 120 + 5224283/2600-2720
GGAACAUAGCCCAAACCAAGAGGCUUGCCUCUUGGGGUUGUAGGACAUUCUAUACGGAGUUACAAAGGAACGAGGUAGACGAAGCGACCUGGAAAGGUCCGUCGUAGAGGGUAACAACCC
((........))...((((((((....))))))))((((((...((.((((((.....(((.......)))......((((....(((((....))))))))))))))).)).)))))). ( -41.30)
>Bhalo.0 4174298 119 - 4202352/2600-2720
GGAA-ACAGCCCAAACCAAGAGGCUUGCCUCUUGGGGUUGUAGGACACUCUAUACGGAGUCAGAAAGAAACGAAGUAGGUGAAGCGACCUGGAAAGGUCCGUCACAGAAGGUAACAACCC
(...-.)........((((((((....))))))))((((((...((..(((...((...((.....))..))......((((.(.(((((....)))))).)))))))..)).)))))). ( -42.10)
>consensus
GGAACAUAGCCCAAACCAAGAGGCUUGCCUCUUGGGGUUGUAGGACAUUCUAUACGGAGUUACAAAGGAACGAGGUAGACGAAGCGACCUGGAAAGGUCCGUCGUAGAGGGUAACAACCC
((........))...((((((((....))))))))((((((...((.((((.(((...(((.......)))...))).((((.(.(((((....)))))).)))))))).)).)))))). (-40.69 = -40.47 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	88.86
Mean single sequence MFE	-34.27
Consensus MFE	-31.65
Energy contribution	-30.10
Covariance contribution	-1.55
Combinations/Pair	1.12
Mean z-score	-2.41
Structure conservation index	0.92
SVM decision value	1.55
SVM RNA-class probability	0.962858
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/2760-2880
CUUCCUCCAGGUACUUAGAUGUUUCAGUUCCCUGGGUCUGUCUUCCU-UACCCUAUGUAUUCAGAUAAGGAUACCAUACCAUUACGUAUGGUGGGUUUCCCCAUUCGGAAAUCUUCGGAU
......(((((.(((..((....)))))..)))))(((((...((((-((..((........)).))))))((((((((......))))))))(((((((......)))))))..))))) ( -32.50)
>Bcere.0 4651066 119 + 5224283/2760-2880
CUUCCUCCAGGUACUUAGAUGUUUCAGUUCCCUGGGUCUGUCUUCCU-UACCCUAUGUAUUCAGAUAAGGAUACCAUACCAUUACGUAUGGUGGGUUUCCCCAUUCGGAAAUCUUCGGAU
......(((((.(((..((....)))))..)))))(((((...((((-((..((........)).))))))((((((((......))))))))(((((((......)))))))..))))) ( -32.50)
>Bhalo.0 4174298 120 - 4202352/2760-2880
CUUCCUCUGGGUACUUAGAUGUUUCAGUUCCCCAGGUCUGCCUCCUCAUACCCUAUAGAUUCAGGUAUGGGUACCAUCCCAUUACGGAUGGUGGGUUCCCCCAUUCGGAUAUCCCCGGAU
..(((.(((((.(((..((....)))))..)))))(((((....((((((((...........)))))))).(((((((......)))))))(((....)))...)))))......))). ( -37.80)
>consensus
CUUCCUCCAGGUACUUAGAUGUUUCAGUUCCCUGGGUCUGUCUUCCU_UACCCUAUGUAUUCAGAUAAGGAUACCAUACCAUUACGUAUGGUGGGUUUCCCCAUUCGGAAAUCUUCGGAU
..(((((((((.(((..((....)))))..))))))((((.........((((.....((((......))))(((((((......))))))))))).........)))).......))). (-31.65 = -30.10 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.86
Mean single sequence MFE	-41.10
Consensus MFE	-36.56
Energy contribution	-35.23
Covariance contribution	-1.33
Combinations/Pair	1.17
Mean z-score	-3.74
Structure conservation index	0.89
SVM decision value	1.93
SVM RNA-class probability	0.982926
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/2760-2880
AUCCGAAGAUUUCCGAAUGGGGAAACCCACCAUACGUAAUGGUAUGGUAUCCUUAUCUGAAUACAUAGGGUA-AGGAAGACAGACCCAGGGAACUGAAACAUCUAAGUACCUGGAGGAAG
..........((((....(((....)))(((((((......))))))).(((((((((.........)))))-))))........(((((..(((..........))).))))).)))). ( -40.20)
>Bcere.0 4651066 119 + 5224283/2760-2880
AUCCGAAGAUUUCCGAAUGGGGAAACCCACCAUACGUAAUGGUAUGGUAUCCUUAUCUGAAUACAUAGGGUA-AGGAAGACAGACCCAGGGAACUGAAACAUCUAAGUACCUGGAGGAAG
..........((((....(((....)))(((((((......))))))).(((((((((.........)))))-))))........(((((..(((..........))).))))).)))). ( -40.20)
>Bhalo.0 4174298 120 - 4202352/2760-2880
AUCCGGGGAUAUCCGAAUGGGGGAACCCACCAUCCGUAAUGGGAUGGUACCCAUACCUGAAUCUAUAGGGUAUGAGGAGGCAGACCUGGGGAACUGAAACAUCUAAGUACCCAGAGGAAG
.((((((.....((....(((....)))(((((((......))))))).(((((((((.........))))))).)).))....))).(((.(((..........))).)))...))).. ( -42.90)
>consensus
AUCCGAAGAUUUCCGAAUGGGGAAACCCACCAUACGUAAUGGUAUGGUAUCCUUAUCUGAAUACAUAGGGUA_AGGAAGACAGACCCAGGGAACUGAAACAUCUAAGUACCUGGAGGAAG
.(((..............(((....)))(((((((......))))))).(((((((((.........))))).))))........(((((..(((..........))).))))).))).. (-36.56 = -35.23 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location	4,652,088 – 4,652,207
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.30
Mean single sequence MFE	-43.87
Consensus MFE	-39.60
Energy contribution	-38.50
Covariance contribution	-1.10
Combinations/Pair	1.15
Mean z-score	-3.53
Structure conservation index	0.90
SVM decision value	2.06
SVM RNA-class probability	0.986875
Prediction	RNA

Download alignment: ClustalW | MAF

>Banth.0 4652088 119 + 5227293/2800-2920
CUAACGCCGAUAUGCUUCGGGGAGCUGUAAGUAAGCUUUGAUCCGAAGAUUUCCGAAUGGGGAAACCCACCAUACGUAAUGGUAUGGUAUCCUUAUCUGAAUACAUAGGGUA-AGGAAGA
.......((.....((((((((((((.......)))))...))))))).....))...(((....)))(((((((......))))))).(((((((((.........)))))-))))... ( -42.20)
>Bcere.0 4651066 119 + 5224283/2800-2920
CUAACGCCGAUAUGCUUCGGGGAGCUGUAAGUAAGCUUUGAUCCGAAGAUUUCCGAAUGGGGAAACCCACCAUACGUAAUGGUAUGGUAUCCUUAUCUGAAUACAUAGGGUA-AGGAAGA
.......((.....((((((((((((.......)))))...))))))).....))...(((....)))(((((((......))))))).(((((((((.........)))))-))))... ( -42.20)
>Bhalo.0 4174298 120 - 4202352/2800-2920
CGAACGGCGAAACGCCUCGGGGAGCUGUAAGUAAGCUUUGAUCCGGGGAUAUCCGAAUGGGGGAACCCACCAUCCGUAAUGGGAUGGUACCCAUACCUGAAUCUAUAGGGUAUGAGGAGG
....(((.......((((((((((((.......)))))...)))))))....)))...(((....)))(((((((......))))))).(((((((((.........))))))).))... ( -47.20)
>consensus
CUAACGCCGAUAUGCUUCGGGGAGCUGUAAGUAAGCUUUGAUCCGAAGAUUUCCGAAUGGGGAAACCCACCAUACGUAAUGGUAUGGUAUCCUUAUCUGAAUACAUAGGGUA_AGGAAGA
.......((.....((((((((((((.......)))))...))))))).....))...(((....)))(((((((......))))))).(((((((((.........))))).))))... (-39.60 = -38.50 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:15:56 2006