Locus 50

Sequence ID Banth.0
Location 4,651,543 – 4,651,652
Length 109
Max. P 0.998448
window308 window309 window310 window311

overview

Window 8

Location 4,651,543 – 4,651,652
Length 109
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.52
Mean single sequence MFE -39.60
Consensus MFE -34.05
Energy contribution -32.83
Covariance contribution -1.22
Combinations/Pair 1.16
Mean z-score -2.96
Structure conservation index 0.86
SVM decision value 2.84
SVM RNA-class probability 0.997341
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4651543 109 + 5227293/0-120
GUUAUUUAA------UUAAAAGUGCGGGUGAAGGGAGUCGAACCCCCACGCCA---AAGGCGCCAGAUCCUAAGUCUGGUGCGUCUGCCAAUUCCGCCACACCCGCAUAUUAA--UUUAU
.......((------((((..(((((((((..(((.(.....).)))..(.((---.(.(((((((((.....))))))))).).)).)..........))))))))).))))--))... ( -38.90)
>Bcere.0 4650521 109 + 5224283/0-120
GUUAUUUAA------UUAAAAGUGCGGGUGAAGGGAGUCGAACCCCCACGCCA---AAGGCGCCAGAUCCUAAGUCUGGUGCGUCUGCCAAUUCCGCCACACCCGCAUAUUAA--UUUAU
.......((------((((..(((((((((..(((.(.....).)))..(.((---.(.(((((((((.....))))))))).).)).)..........))))))))).))))--))... ( -38.90)
>Bclau.0 2626639 120 + 4303871/0-120
GUUGCUUAAAGAGUUUUUGAAAUGCGGGUGAAGGGACUUGAACCCCCACGUCCGUUAGGACACUAGAGCCUGAUUCUAGCGCGUCUGCCAAUUCCGCCACACCCGCAUACCAAAGCUCAG
..........(((((((.(..(((((((((..((((.(((.........((((....))))..(((((((((....))).)).)))).))).))).)..)))))))))..)))))))).. ( -41.00)
>consensus
GUUAUUUAA______UUAAAAGUGCGGGUGAAGGGAGUCGAACCCCCACGCCA___AAGGCGCCAGAUCCUAAGUCUGGUGCGUCUGCCAAUUCCGCCACACCCGCAUAUUAA__UUUAU
.....................(((((((((..(((.........)))..(((......)))(((((((.....)))))))(((...........)))..)))))))))............ (-34.05 = -32.83 +  -1.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,651,543 – 4,651,652
Length 109
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.52
Mean single sequence MFE -42.90
Consensus MFE -38.74
Energy contribution -36.97
Covariance contribution -1.77
Combinations/Pair 1.16
Mean z-score -2.91
Structure conservation index 0.90
SVM decision value 3.00
SVM RNA-class probability 0.998093
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4651543 109 + 5227293/0-120
AUAAA--UUAAUAUGCGGGUGUGGCGGAAUUGGCAGACGCACCAGACUUAGGAUCUGGCGCCUU---UGGCGUGGGGGUUCGACUCCCUUCACCCGCACUUUUAA------UUAAAUAAC
...((--((((..((((((((..........(.((((.((.((((((....).))))).)).))---)).)..(((((.....)))))..))))))))...))))------))....... ( -40.20)
>Bcere.0 4650521 109 + 5224283/0-120
AUAAA--UUAAUAUGCGGGUGUGGCGGAAUUGGCAGACGCACCAGACUUAGGAUCUGGCGCCUU---UGGCGUGGGGGUUCGACUCCCUUCACCCGCACUUUUAA------UUAAAUAAC
...((--((((..((((((((..........(.((((.((.((((((....).))))).)).))---)).)..(((((.....)))))..))))))))...))))------))....... ( -40.20)
>Bclau.0 2626639 120 + 4303871/0-120
CUGAGCUUUGGUAUGCGGGUGUGGCGGAAUUGGCAGACGCGCUAGAAUCAGGCUCUAGUGUCCUAACGGACGUGGGGGUUCAAGUCCCUUCACCCGCAUUUCAAAAACUCUUUAAGCAAC
..(((.(((((.(((((((((.((.(((.(((((...(((((((((.......))))))((((....)))))))...).)))).))))).))))))))).)))))..))).......... ( -48.30)
>consensus
AUAAA__UUAAUAUGCGGGUGUGGCGGAAUUGGCAGACGCACCAGACUUAGGAUCUGGCGCCUU___UGGCGUGGGGGUUCGACUCCCUUCACCCGCACUUUUAA______UUAAAUAAC
.........((..((((((((.((.(((.(((((...(((.(((((.......))))).(((......))))))...).)))).))))).))))))))..)).................. (-38.74 = -36.97 +  -1.77)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,651,543 – 4,651,652
Length 109
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.52
Mean single sequence MFE -39.60
Consensus MFE -34.05
Energy contribution -32.83
Covariance contribution -1.22
Combinations/Pair 1.16
Mean z-score -3.31
Structure conservation index 0.86
SVM decision value 3.06
SVM RNA-class probability 0.998305
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4651543 109 + 5227293/2-122
UAUUUAA------UUAAAAGUGCGGGUGAAGGGAGUCGAACCCCCACGCCA---AAGGCGCCAGAUCCUAAGUCUGGUGCGUCUGCCAAUUCCGCCACACCCGCAUAUUAA--UUUAUUU
.....((------((((..(((((((((..(((.(.....).)))..(.((---.(.(((((((((.....))))))))).).)).)..........))))))))).))))--))..... ( -38.90)
>Bcere.0 4650521 109 + 5224283/2-122
UAUUUAA------UUAAAAGUGCGGGUGAAGGGAGUCGAACCCCCACGCCA---AAGGCGCCAGAUCCUAAGUCUGGUGCGUCUGCCAAUUCCGCCACACCCGCAUAUUAA--UUUAUUU
.....((------((((..(((((((((..(((.(.....).)))..(.((---.(.(((((((((.....))))))))).).)).)..........))))))))).))))--))..... ( -38.90)
>Bclau.0 2626639 120 + 4303871/2-122
UGCUUAAAGAGUUUUUGAAAUGCGGGUGAAGGGACUUGAACCCCCACGUCCGUUAGGACACUAGAGCCUGAUUCUAGCGCGUCUGCCAAUUCCGCCACACCCGCAUACCAAAGCUCAGUU
........(((((((.(..(((((((((..((((.(((.........((((....))))..(((((((((....))).)).)))).))).))).)..)))))))))..)))))))).... ( -41.00)
>consensus
UAUUUAA______UUAAAAGUGCGGGUGAAGGGAGUCGAACCCCCACGCCA___AAGGCGCCAGAUCCUAAGUCUGGUGCGUCUGCCAAUUCCGCCACACCCGCAUAUUAA__UUUAUUU
...................(((((((((..(((.........)))..(((......)))(((((((.....)))))))(((...........)))..))))))))).............. (-34.05 = -32.83 +  -1.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,651,543 – 4,651,652
Length 109
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.52
Mean single sequence MFE -42.90
Consensus MFE -38.74
Energy contribution -36.97
Covariance contribution -1.77
Combinations/Pair 1.16
Mean z-score -3.12
Structure conservation index 0.90
SVM decision value 3.10
SVM RNA-class probability 0.998448
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4651543 109 + 5227293/2-122
AAAUAAA--UUAAUAUGCGGGUGUGGCGGAAUUGGCAGACGCACCAGACUUAGGAUCUGGCGCCUU---UGGCGUGGGGGUUCGACUCCCUUCACCCGCACUUUUAA------UUAAAUA
.....((--((((..((((((((..........(.((((.((.((((((....).))))).)).))---)).)..(((((.....)))))..))))))))...))))------))..... ( -40.20)
>Bcere.0 4650521 109 + 5224283/2-122
AAAUAAA--UUAAUAUGCGGGUGUGGCGGAAUUGGCAGACGCACCAGACUUAGGAUCUGGCGCCUU---UGGCGUGGGGGUUCGACUCCCUUCACCCGCACUUUUAA------UUAAAUA
.....((--((((..((((((((..........(.((((.((.((((((....).))))).)).))---)).)..(((((.....)))))..))))))))...))))------))..... ( -40.20)
>Bclau.0 2626639 120 + 4303871/2-122
AACUGAGCUUUGGUAUGCGGGUGUGGCGGAAUUGGCAGACGCGCUAGAAUCAGGCUCUAGUGUCCUAACGGACGUGGGGGUUCAAGUCCCUUCACCCGCAUUUCAAAAACUCUUUAAGCA
....(((.(((((.(((((((((.((.(((.(((((...(((((((((.......))))))((((....)))))))...).)))).))))).))))))))).)))))..)))........ ( -48.30)
>consensus
AAAUAAA__UUAAUAUGCGGGUGUGGCGGAAUUGGCAGACGCACCAGACUUAGGAUCUGGCGCCUU___UGGCGUGGGGGUUCGACUCCCUUCACCCGCACUUUUAA______UUAAAUA
...........((..((((((((.((.(((.(((((...(((.(((((.......))))).(((......))))))...).)))).))))).))))))))..))................ (-38.74 = -36.97 +  -1.77)

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 17:19:44 2006