Locus 138

Sequence ID Banth.0
Location 824,025 – 824,140
Length 115
Max. P 0.999924
window931 window932 window933 window934 window935 window936

overview

Window 1

Location 824,025 – 824,133
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.76
Mean single sequence MFE -43.78
Consensus MFE -35.96
Energy contribution -35.96
Covariance contribution 0.01
Combinations/Pair 1.08
Mean z-score -4.97
Structure conservation index 0.82
SVM decision value 1.99
SVM RNA-class probability 0.984915
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 824025 108 + 5227293/0-120
AAGGGGAGUAACUUAUUACAGUAAAGUCGUCAUUACAGGGA--------GAAACCCUCGGCUUUAUUGGCAACG----UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCC
..(((......((((((((((((((((((.......((((.--------....)))))))))))))))((((((----...))))))))))))).(((((((((....)))))))))))) ( -43.61)
>Bcere.0 926777 108 + 5224283/0-120
AAGGGGAGUAACUUAUUACAGUAAAGUCGUCAUUACAGGGA--------GAAACCCUCGGCUUUAUUGGCAACG----UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCC
..(((......((((((((((((((((((.......((((.--------....)))))))))))))))((((((----...))))))))))))).(((((((((....)))))))))))) ( -43.61)
>Bhalo.0 1524417 120 - 4202352/0-120
AAGGGGAGUAGCUAAUUACAAUAAAGUCGUCAUGACAGGGAUCUCCCAUAAAUCCCUCGGCUUUAUUGGCAACGGAUAUACGGUUGUUAGCAAGACCUUUACCAAAUGGGGUAAAGGUCU
..........((((....(((((((((((.......((((((.........)))))))))))))))))(((((.(.....).))))))))).(((((((((((......))))))))))) ( -44.11)
>consensus
AAGGGGAGUAACUUAUUACAGUAAAGUCGUCAUUACAGGGA________GAAACCCUCGGCUUUAUUGGCAACG____UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCC
..(((......((((((((((((((((((.......((((.............)))))))))))))))(((((.........)))))))))))).((((((((......))))))))))) (-35.96 = -35.96 +   0.01)

alignment

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secondary structure

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dotplot

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Window 2

Location 824,025 – 824,133
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.76
Mean single sequence MFE -31.57
Consensus MFE -26.71
Energy contribution -26.16
Covariance contribution -0.55
Combinations/Pair 1.09
Mean z-score -2.50
Structure conservation index 0.85
SVM decision value 1.74
SVM RNA-class probability 0.974947
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 824025 108 + 5227293/0-120
GGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA----CGUUGCCAAUAAAGCCGAGGGUUUC--------UCCCUGUAAUGACGACUUUACUGUAAUAAGUUACUCCCCUU
((((((((((((....))))))))))))......(((((...----)))))............((((....--------.))))(((((....((......)).....)))))....... ( -28.20)
>Bcere.0 926777 108 + 5224283/0-120
GGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA----CGUUGCCAAUAAAGCCGAGGGUUUC--------UCCCUGUAAUGACGACUUUACUGUAAUAAGUUACUCCCCUU
((((((((((((....))))))))))))......(((((...----)))))............((((....--------.))))(((((....((......)).....)))))....... ( -28.20)
>Bhalo.0 1524417 120 - 4202352/0-120
AGACCUUUACCCCAUUUGGUAAAGGUCUUGCUAACAACCGUAUAUCCGUUGCCAAUAAAGCCGAGGGAUUUAUGGGAGAUCCCUGUCAUGACGACUUUAUUGUAAUUAGCUACUCCCCUU
(((((((((((......))))))))))).(((((((((.(.....).)))).((((((((.(.((((((((.....))))))))((....))).))))))))...))))).......... ( -38.30)
>consensus
GGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA____CGUUGCCAAUAAAGCCGAGGGUUUC________UCCCUGUAAUGACGACUUUACUGUAAUAAGUUACUCCCCUU
(((((((((((......))))))))))).(((..(((((.......))))).((.(((((.((((((.............)))).......)).))))).)).....))).......... (-26.71 = -26.16 +  -0.55)

alignment

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secondary structure

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Window 3

Location 824,025 – 824,133
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 75.86
Mean single sequence MFE -40.24
Consensus MFE -31.71
Energy contribution -30.83
Covariance contribution -0.88
Combinations/Pair 1.17
Mean z-score -4.55
Structure conservation index 0.79
SVM decision value 4.58
SVM RNA-class probability 0.999924
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 824025 108 + 5227293/40-160
A--------GAAACCCUCGGCUUUAUUGGCAACG----UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCCCUUAUUGUCUUUUUUAAGACCCUUACCAUAUUUGGUAGGG
.--------.........((((((((((((((((----...)))))))))))))..((((((((....))))))))))).......(((((....)))))((((((((....)))))))) ( -41.30)
>Bcere.0 926777 108 + 5224283/40-160
A--------GAAACCCUCGGCUUUAUUGGCAACG----UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCCCUUAUUGUCUUUUUUAGGACCCUUACCAUAUUUGGUAGGG
.--------.........((((((((((((((((----...)))))))))))))..((((((((....))))))))))).......(((((....)))))((((((((....)))))))) ( -41.00)
>Bhalo.0 1524417 119 - 4202352/40-160
AUCUCCCAUAAAUCCCUCGGCUUUAUUGGCAACGGAUAUACGGUUGUUAGCAAGACCUUUACCAAAUGGGGUAAAGGUCUUUUCCUAUGCUUUUUUAGACCUUUGCC-UAUGGGGCAAAG
...(((((((.((((....(((.....)))...))))....((((...(((((((((((((((......))))))))))).......))))......))))......-)))))))..... ( -38.41)
>consensus
A________GAAACCCUCGGCUUUAUUGGCAACG____UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCCCUUAUUGUCUUUUUUAAGACCCUUACCAUAUUUGGUAGGG
..................(((((((((((((((.........))))))))))))..(((((((......)))))))))).....................((((((((....)))))))) (-31.71 = -30.83 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 4

Location 824,025 – 824,133
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 75.86
Mean single sequence MFE -39.39
Consensus MFE -32.13
Energy contribution -30.70
Covariance contribution -1.43
Combinations/Pair 1.22
Mean z-score -4.83
Structure conservation index 0.82
SVM decision value 4.09
SVM RNA-class probability 0.999791
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 824025 108 + 5227293/40-160
CCCUACCAAAUAUGGUAAGGGUCUUAAAAAAGACAAUAAGGGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA----CGUUGCCAAUAAAGCCGAGGGUUUC--------U
((((........((((((.((((((....))))).....(((((((((((((....))))))))))))).............----).)))))).........))))....--------. ( -37.93)
>Bcere.0 926777 108 + 5224283/40-160
CCCUACCAAAUAUGGUAAGGGUCCUAAAAAAGACAAUAAGGGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA----CGUUGCCAAUAAAGCCGAGGGUUUC--------U
((((((((...((((((((((((((..............))))))))))))))...))))...(((........(((((...----)))))........))).))))....--------. ( -36.43)
>Bhalo.0 1524417 119 - 4202352/40-160
CUUUGCCCCAUA-GGCAAAGGUCUAAAAAAGCAUAGGAAAAGACCUUUACCCCAUUUGGUAAAGGUCUUGCUAACAACCGUAUAUCCGUUGCCAAUAAAGCCGAGGGAUUUAUGGGAGAU
(((((((.....-)))))))((((.........(((...((((((((((((......)))))))))))).)))....(((((.((((.(((.(......).))).)))).))))).)))) ( -43.80)
>consensus
CCCUACCAAAUAUGGUAAGGGUCUUAAAAAAGACAAUAAGGGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA____CGUUGCCAAUAAAGCCGAGGGUUUC________U
(((((((......)))...(((.................((((((((((((......)))))))))))).....(((((.......)))))........))).))))............. (-32.13 = -30.70 +  -1.43)

alignment

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secondary structure

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dotplot

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Window 5

Location 824,025 – 824,140
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -45.67
Consensus MFE -36.50
Energy contribution -35.40
Covariance contribution -1.10
Combinations/Pair 1.18
Mean z-score -5.93
Structure conservation index 0.80
SVM decision value 1.81
SVM RNA-class probability 0.978331
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 824025 115 + 5227293/48-168
-GAAACCCUCGGCUUUAUUGGCAACG----UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCCCUUAUUGUCUUUUUUAAGACCCUUACCAUAUUUGGUAGGGGCCUUUUU
-.........((..((((((((((((----...))))))))))))..))(((((((....)))))))((((((.....(((((....)))))...(((((....)))))))))))..... ( -46.00)
>Bcere.0 926777 115 + 5224283/48-168
-GAAACCCUCGGCUUUAUUGGCAACG----UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCCCUUAUUGUCUUUUUUAGGACCCUUACCAUAUUUGGUAGGGGCCUUUUU
-.........((((((((((((((((----...))))))))))))).(((((((((....))))))))).........)))......(((.(((((((((....)))))))))))).... ( -45.80)
>Bhalo.0 1524417 119 - 4202352/48-168
UAAAUCCCUCGGCUUUAUUGGCAACGGAUAUACGGUUGUUAGCAAGACCUUUACCAAAUGGGGUAAAGGUCUUUUCCUAUGCUUUUUUAGACCUUUGCC-UAUGGGGCAAAGGUCUUUUU
..........(((....((((((((.(.....).)))))))).((((((((((((......)))))))))))).......))).....(((((((((((-.....))))))))))).... ( -45.20)
>consensus
_GAAACCCUCGGCUUUAUUGGCAACG____UUUCGUUGUUAGUGAGACCUUUACCAGCAAUGGUAAAGGCCCCUUAUUGUCUUUUUUAAGACCCUUACCAUAUUUGGUAGGGGCCUUUUU
..........(((((((((((((((.........))))))))))))..(((((((......)))))))))).................((.(((((((((....))))))))).)).... (-36.50 = -35.40 +  -1.10)

alignment

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secondary structure

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dotplot

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Window 6

Location 824,025 – 824,140
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.72
Mean single sequence MFE -41.23
Consensus MFE -37.09
Energy contribution -35.77
Covariance contribution -1.32
Combinations/Pair 1.19
Mean z-score -5.59
Structure conservation index 0.90
SVM decision value 1.79
SVM RNA-class probability 0.977484
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 824025 115 + 5227293/48-168
AAAAAGGCCCCUACCAAAUAUGGUAAGGGUCUUAAAAAAGACAAUAAGGGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA----CGUUGCCAAUAAAGCCGAGGGUUUC-
...(((((((.(((((....))))).)))))))..............(((((((((((((....))))))))))))).....(((((...----)))))......(((((...))))).- ( -41.20)
>Bcere.0 926777 115 + 5224283/48-168
AAAAAGGCCCCUACCAAAUAUGGUAAGGGUCCUAAAAAAGACAAUAAGGGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA----CGUUGCCAAUAAAGCCGAGGGUUUC-
....((((((.(((((....))))).))).)))..............(((((((((((((....))))))))))))).....(((((...----)))))......(((((...))))).- ( -39.20)
>Bhalo.0 1524417 119 - 4202352/48-168
AAAAAGACCUUUGCCCCAUA-GGCAAAGGUCUAAAAAAGCAUAGGAAAAGACCUUUACCCCAUUUGGUAAAGGUCUUGCUAACAACCGUAUAUCCGUUGCCAAUAAAGCCGAGGGAUUUA
....(((((((((((.....-))))))))))).........(((...((((((((((((......)))))))))))).)))..........((((.(((.(......).))).))))... ( -43.30)
>consensus
AAAAAGGCCCCUACCAAAUAUGGUAAGGGUCUUAAAAAAGACAAUAAGGGGCCUUUACCAUUGCUGGUAAAGGUCUCACUAACAACGAAA____CGUUGCCAAUAAAGCCGAGGGUUUC_
.....(((((.((((......)))).)))))................((((((((((((......)))))))))))).....(((((.......)))))......(((((...))))).. (-37.09 = -35.77 +  -1.32)

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 17:27:46 2006