Locus 137

Sequence ID Banth.0
Location 752,275 – 752,423
Length 148
Max. P 0.998276
window927 window928 window929 window930

overview

Window 7

Location 752,275 – 752,361
Length 86
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 76.64
Mean single sequence MFE -22.88
Consensus MFE -11.04
Energy contribution -11.04
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.48
SVM decision value 0.10
SVM RNA-class probability 0.584445
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 752275 86 + 5227293
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGUGUUAUAAGGGUUAAG--GAU--UAUUCCUCUCUCAGC--ACAACAAGCACCCCUAGUGG
..........((((((...(((((.....)))))......((((..((--((.--...))))......((--.......)))))))))))). ( -19.90)
>Bcere.0 828954 85 + 5224283
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGU-CUGUAAGGGUUAAG--GAU--UAUUCCUCUCUCAGC--ACAACAAGCACCCCUAGUGG
..........(((((((((.((((.....))))-..))).((((..((--((.--...))))......((--.......)))))))))))). ( -19.00)
>Bclau.0 2048189 82 + 4303871
CACUUCCCUUCGCUAGCAUUACCUAGAUCAGGU----AAAGGGUUAAG--GCU-AAACGCCUUUCUCAGC--AUAA-ACGCACCCCUAGUGG
..........((((((..((((((.....))))----)).((((.(((--((.-....))))).....((--....-..)))))))))))). ( -23.80)
>Bhalo.0 2798928 89 + 4202352
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGU-GAAUGAGGGUUAAGAUGCUAAAAAACAUCUCUCUCA--GCGGUUUGCACCCCUAGUGG
..........((((((..((((((.....))))-)).((((((...(((((........)))))))))))--..(((....))).)))))). ( -23.30)
>Blich.0 185419 87 - 4222334
CACUUCCCUACGCUAGUAUGAACUAGAUCAGGU--UCAAAGGGUCCAA--GAU-CGCUUCUUGUCUCAGCCGGCUUACGGCUCCCCUAGUGG
..........((((((..((((((......)))--)))..(((..(((--((.-....)))))....(((((.....)))))))))))))). ( -28.40)
>consensus
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGU__UAUAAGGGUUAAG__GAU__AAUUCCUCUCUCAGC__ACAACAAGCACCCCUAGUGG
((((..(((...((((......))))...))).......((((........................................)))))))). (-11.04 = -11.04 +   0.00)

alignment

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secondary structure

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Window 8

Location 752,275 – 752,361
Length 86
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 76.64
Mean single sequence MFE -22.88
Consensus MFE -11.04
Energy contribution -11.04
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.48
SVM decision value 0.10
SVM RNA-class probability 0.584445
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 752275 86 + 5227293/0-92
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGUGUUAUAAGGGUUAAG--GAU--UAUUCCUCUCUCAGC--ACAACAAGCACCCCUAGUGG
..........((((((...(((((.....)))))......((((..((--((.--...))))......((--.......)))))))))))). ( -19.90)
>Bcere.0 828954 85 + 5224283/0-92
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGU-CUGUAAGGGUUAAG--GAU--UAUUCCUCUCUCAGC--ACAACAAGCACCCCUAGUGG
..........(((((((((.((((.....))))-..))).((((..((--((.--...))))......((--.......)))))))))))). ( -19.00)
>Bclau.0 2048189 82 + 4303871/0-92
CACUUCCCUUCGCUAGCAUUACCUAGAUCAGGU----AAAGGGUUAAG--GCU-AAACGCCUUUCUCAGC--AUAA-ACGCACCCCUAGUGG
..........((((((..((((((.....))))----)).((((.(((--((.-....))))).....((--....-..)))))))))))). ( -23.80)
>Bhalo.0 2798928 89 + 4202352/0-92
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGU-GAAUGAGGGUUAAGAUGCUAAAAAACAUCUCUCUCA--GCGGUUUGCACCCCUAGUGG
..........((((((..((((((.....))))-)).((((((...(((((........)))))))))))--..(((....))).)))))). ( -23.30)
>Blich.0 185419 87 - 4222334/0-92
CACUUCCCUACGCUAGUAUGAACUAGAUCAGGU--UCAAAGGGUCCAA--GAU-CGCUUCUUGUCUCAGCCGGCUUACGGCUCCCCUAGUGG
..........((((((..((((((......)))--)))..(((..(((--((.-....)))))....(((((.....)))))))))))))). ( -28.40)
>consensus
CACUUCCCUUCGCUAGUAUUACCUAGAUCAGGU__UAUAAGGGUUAAG__GAU__AAUUCCUCUCUCAGC__ACAACAAGCACCCCUAGUGG
((((..(((...((((......))))...))).......((((........................................)))))))). (-11.04 = -11.04 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 752,361 – 752,423
Length 62
Sequences 4
Columns 63
Reading direction forward
Mean pairwise identity 59.84
Mean single sequence MFE -18.67
Consensus MFE -13.18
Energy contribution -12.30
Covariance contribution -0.88
Combinations/Pair 1.60
Mean z-score -4.36
Structure conservation index 0.71
SVM decision value 3.00
SVM RNA-class probability 0.998083
Prediction RNA
WARNING Sequence 1: Base composition out of range.

Download alignment: ClustalW | MAF

>Banth.0 752361 62 + 5227293
ACAACGAAUAAAUUAUAAUUUUAUU-UGCUGUAACCACUUCUUAUAUAAAGAAGUGGUUUUUU
(((.((((((((.......))))))-)).)))(((((((((((.....))))))))))).... ( -20.20)
>Bcere.0 829039 60 + 5224283
GCAACGAAUAAAUUAUAAUUUUAUU-UGCUGUAACCACUUCUUAUUU--AGAAGUGGUUUUUU
(((.((((((((.......))))))-)).)))((((((((((.....--)))))))))).... ( -19.90)
>Bhalo.0 2799043 59 + 4202352
GAACUGAUUGAAAUUGAACGAUGAU-UAC--AAGCCACUUCUUUUUUA-GACAGUGGCUUUUU
.........................-...--(((((((((((.....)-)).))))))))... ( -12.80)
>Blich.0 185506 59 - 4222334
GAGCCGGUGUCUUAAUGAUUUCAUCAUACUAAGGCCGCUCCAUUUU----GGGGCGGCUUUUU
(((((.(.(((((((((((...)))))..)))))))(((((.....----))))))))))... ( -21.80)
>consensus
GAAACGAAUAAAUUAUAAUUUUAUU_UACUGAAACCACUUCUUAUUU__AGAAGUGGCUUUUU
................................((((((((((.......)))))))))).... (-13.18 = -12.30 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 0

Location 752,361 – 752,423
Length 62
Sequences 4
Columns 63
Reading direction reverse
Mean pairwise identity 59.84
Mean single sequence MFE -16.80
Consensus MFE -11.19
Energy contribution -11.12
Covariance contribution -0.06
Combinations/Pair 1.40
Mean z-score -4.50
Structure conservation index 0.67
SVM decision value 3.05
SVM RNA-class probability 0.998276
Prediction RNA
WARNING Sequence 1: Base composition out of range.

Download alignment: ClustalW | MAF

>Banth.0 752361 62 + 5227293
AAAAAACCACUUCUUUAUAUAAGAAGUGGUUACAGCA-AAUAAAAUUAUAAUUUAUUCGUUGU
....(((((((((((.....)))))))))))(((((.-((((((.......)))))).))))) ( -20.30)
>Bcere.0 829039 60 + 5224283
AAAAAACCACUUCU--AAAUAAGAAGUGGUUACAGCA-AAUAAAAUUAUAAUUUAUUCGUUGC
....((((((((((--.....)))))))))).((((.-((((((.......)))))).)))). ( -18.10)
>Bhalo.0 2799043 59 + 4202352
AAAAAGCCACUGUC-UAAAAAAGAAGUGGCUU--GUA-AUCAUCGUUCAAUUUCAAUCAGUUC
...((((((((.((-(.....)))))))))))--...-......................... ( -13.10)
>Blich.0 185506 59 - 4222334
AAAAAGCCGCCCC----AAAAUGGAGCGGCCUUAGUAUGAUGAAAUCAUUAAGACACCGGCUC
.....(((((.((----.....)).)))))....((.(((((....)))))..))........ ( -15.70)
>consensus
AAAAAACCACUUCU__AAAAAAGAAGUGGCUACAGCA_AAUAAAAUUAUAAUUUAAUCGGUGC
....((((((((((.......))))))))))................................ (-11.19 = -11.12 +  -0.06)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:27:42 2006