Locus 122

Sequence ID Bsubt.0
Location 26,692 – 697,803
Length 671111
Max. P 0.979774
window854 window855 window856 window857 window858 window859

overview

Window 4

Location 697,724 – 697,803
Length 79
Sequences 6
Columns 79
Reading direction forward
Mean pairwise identity 78.90
Mean single sequence MFE -23.00
Consensus MFE -23.66
Energy contribution -21.17
Covariance contribution -2.49
Combinations/Pair 1.68
Mean z-score -2.26
Structure conservation index 1.03
SVM decision value 1.85
SVM RNA-class probability 0.979774
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 697724 79 + 4214630
ACGACCUCAUAUAAUCUUGGGAAUAUGGCCCAUAAGUUUCUACCCGGCAACCGUAAAUUGCCGGACUAUGCAGGAAAGU
....(((((((......((((.......))))...........(((((((.......)))))))..)))).)))..... ( -21.10)
>Blich.0 697067 79 + 4222334
ACAUCCUCAUAUAAUCUUGGGAAUAUGGCCCAUAAGUCUCUACCCGAUGACCGUAAAUCAUCGGACUAUGCAGGAAAGU
...((((((((......((((.......))))...........(((((((.......)))))))..)))).)))).... ( -20.80)
>Bhalo.0 676488 79 + 4202352
AGUACCUCAUAUAAUCUUGGGAAUAUGGCCCAAAAGUUUCUACCUGCUGACCGUAAAUCGGCGGACUAUGGGGAAAGAU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -22.40)
>Bclau.0 1115678 79 + 4303871
AACACCUCAUAUAUACUCGGGAAUAUGGCUCGAACGUUUCUACCCGGCAACCGUAAAUUGCCGGACUAUGAGGGGAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -24.90)
>Banth.0 295344 79 + 5227293
AAGACCUCAUAUAAUCGCGGGGAUAUGGCCUGCAAGUCUCUACCUAACGACCGUUAUUCGUUAGACUAUGAGGGAAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -24.40)
>Bcere.0 336207 79 + 5224283
AAGACCUCAUAUAAUCGCGGGGAUAUGGCCUGCAAGUCUCUACCUAACGACCGUUAUUCGUUAGACUAUGAGGGAAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -24.40)
>consensus
AAGACCUCAUAUAAUCUCGGGAAUAUGGCCCAAAAGUCUCUACCCGACGACCGUAAAUCGUCGGACUAUGAGGGAAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... (-23.66 = -21.17 +  -2.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 697,724 – 697,803
Length 79
Sequences 6
Columns 79
Reading direction reverse
Mean pairwise identity 78.90
Mean single sequence MFE -21.15
Consensus MFE -19.17
Energy contribution -17.40
Covariance contribution -1.77
Combinations/Pair 1.45
Mean z-score -1.51
Structure conservation index 0.91
SVM decision value 0.87
SVM RNA-class probability 0.871829
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 697724 79 + 4214630
ACUUUCCUGCAUAGUCCGGCAAUUUACGGUUGCCGGGUAGAAACUUAUGGGCCAUAUUCCCAAGAUUAUAUGAGGUCGU
.....(((.((((.(((((((((.....)))))))))..........((((.......))))......))))))).... ( -22.70)
>Blich.0 697067 79 + 4222334
ACUUUCCUGCAUAGUCCGAUGAUUUACGGUCAUCGGGUAGAGACUUAUGGGCCAUAUUCCCAAGAUUAUAUGAGGAUGU
....((((.((((.(((((((((.....)))))))))..........((((.......))))......))))))))... ( -23.00)
>Bhalo.0 676488 79 + 4202352
AUCUUUCCCCAUAGUCCGCCGAUUUACGGUCAGCAGGUAGAAACUUUUGGGCCAUAUUCCCAAGAUUAUAUGAGGUACU
.......((((((((..((((.....))))..))..........(((((((.......)))))))...)))).)).... ( -16.30)
>Bclau.0 1115678 79 + 4303871
ACUUCCCCUCAUAGUCCGGCAAUUUACGGUUGCCGGGUAGAAACGUUCGAGCCAUAUUCCCGAGUAUAUAUGAGGUGUU
......(((((((.(((((((((.....))))))))).....(..((((...........))))..).))))))).... ( -23.50)
>Banth.0 295344 79 + 5227293
ACUUUCCCUCAUAGUCUAACGAAUAACGGUCGUUAGGUAGAGACUUGCAGGCCAUAUCCCCGCGAUUAUAUGAGGUCUU
......(((((((.((((((((.......)))))))).......((((.((.......)).))))...))))))).... ( -20.70)
>Bcere.0 336207 79 + 5224283
ACUUUCCCUCAUAGUCUAACGAAUAACGGUCGUUAGGUAGAGACUUGCAGGCCAUAUCCCCGCGAUUAUAUGAGGUCUU
......(((((((.((((((((.......)))))))).......((((.((.......)).))))...))))))).... ( -20.70)
>consensus
ACUUUCCCUCAUAGUCCGACGAUUUACGGUCGUCAGGUAGAAACUUACGGGCCAUAUUCCCAAGAUUAUAUGAGGUCUU
......((.((((.(((((((((.....))))))))).......(((((((.......)))))))...)))).)).... (-19.17 = -17.40 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 697,724 – 697,803
Length 79
Sequences 6
Columns 79
Reading direction forward
Mean pairwise identity 78.90
Mean single sequence MFE -23.00
Consensus MFE -23.66
Energy contribution -21.17
Covariance contribution -2.49
Combinations/Pair 1.68
Mean z-score -2.26
Structure conservation index 1.03
SVM decision value 1.85
SVM RNA-class probability 0.979774
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 697724 79 + 4214630/0-79
ACGACCUCAUAUAAUCUUGGGAAUAUGGCCCAUAAGUUUCUACCCGGCAACCGUAAAUUGCCGGACUAUGCAGGAAAGU
....(((((((......((((.......))))...........(((((((.......)))))))..)))).)))..... ( -21.10)
>Blich.0 697067 79 + 4222334/0-79
ACAUCCUCAUAUAAUCUUGGGAAUAUGGCCCAUAAGUCUCUACCCGAUGACCGUAAAUCAUCGGACUAUGCAGGAAAGU
...((((((((......((((.......))))...........(((((((.......)))))))..)))).)))).... ( -20.80)
>Bhalo.0 676488 79 + 4202352/0-79
AGUACCUCAUAUAAUCUUGGGAAUAUGGCCCAAAAGUUUCUACCUGCUGACCGUAAAUCGGCGGACUAUGGGGAAAGAU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -22.40)
>Bclau.0 1115678 79 + 4303871/0-79
AACACCUCAUAUAUACUCGGGAAUAUGGCUCGAACGUUUCUACCCGGCAACCGUAAAUUGCCGGACUAUGAGGGGAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -24.90)
>Banth.0 295344 79 + 5227293/0-79
AAGACCUCAUAUAAUCGCGGGGAUAUGGCCUGCAAGUCUCUACCUAACGACCGUUAUUCGUUAGACUAUGAGGGAAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -24.40)
>Bcere.0 336207 79 + 5224283/0-79
AAGACCUCAUAUAAUCGCGGGGAUAUGGCCUGCAAGUCUCUACCUAACGACCGUUAUUCGUUAGACUAUGAGGGAAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... ( -24.40)
>consensus
AAGACCUCAUAUAAUCUCGGGAAUAUGGCCCAAAAGUCUCUACCCGACGACCGUAAAUCGUCGGACUAUGAGGGAAAGU
....(((((((.....(((((.......)))))..........(((((((.......)))))))..)))))))...... (-23.66 = -21.17 +  -2.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 697,724 – 697,803
Length 79
Sequences 6
Columns 79
Reading direction reverse
Mean pairwise identity 78.90
Mean single sequence MFE -21.15
Consensus MFE -19.17
Energy contribution -17.40
Covariance contribution -1.77
Combinations/Pair 1.45
Mean z-score -1.51
Structure conservation index 0.91
SVM decision value 0.87
SVM RNA-class probability 0.871829
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 697724 79 + 4214630/0-79
ACUUUCCUGCAUAGUCCGGCAAUUUACGGUUGCCGGGUAGAAACUUAUGGGCCAUAUUCCCAAGAUUAUAUGAGGUCGU
.....(((.((((.(((((((((.....)))))))))..........((((.......))))......))))))).... ( -22.70)
>Blich.0 697067 79 + 4222334/0-79
ACUUUCCUGCAUAGUCCGAUGAUUUACGGUCAUCGGGUAGAGACUUAUGGGCCAUAUUCCCAAGAUUAUAUGAGGAUGU
....((((.((((.(((((((((.....)))))))))..........((((.......))))......))))))))... ( -23.00)
>Bhalo.0 676488 79 + 4202352/0-79
AUCUUUCCCCAUAGUCCGCCGAUUUACGGUCAGCAGGUAGAAACUUUUGGGCCAUAUUCCCAAGAUUAUAUGAGGUACU
.......((((((((..((((.....))))..))..........(((((((.......)))))))...)))).)).... ( -16.30)
>Bclau.0 1115678 79 + 4303871/0-79
ACUUCCCCUCAUAGUCCGGCAAUUUACGGUUGCCGGGUAGAAACGUUCGAGCCAUAUUCCCGAGUAUAUAUGAGGUGUU
......(((((((.(((((((((.....))))))))).....(..((((...........))))..).))))))).... ( -23.50)
>Banth.0 295344 79 + 5227293/0-79
ACUUUCCCUCAUAGUCUAACGAAUAACGGUCGUUAGGUAGAGACUUGCAGGCCAUAUCCCCGCGAUUAUAUGAGGUCUU
......(((((((.((((((((.......)))))))).......((((.((.......)).))))...))))))).... ( -20.70)
>Bcere.0 336207 79 + 5224283/0-79
ACUUUCCCUCAUAGUCUAACGAAUAACGGUCGUUAGGUAGAGACUUGCAGGCCAUAUCCCCGCGAUUAUAUGAGGUCUU
......(((((((.((((((((.......)))))))).......((((.((.......)).))))...))))))).... ( -20.70)
>consensus
ACUUUCCCUCAUAGUCCGACGAUUUACGGUCGUCAGGUAGAAACUUACGGGCCAUAUUCCCAAGAUUAUAUGAGGUCUU
......((.((((.(((((((((.....))))))))).......(((((((.......)))))))...)))).)).... (-19.17 = -17.40 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 26,692 – 26,731
Length 39
Sequences 5
Columns 43
Reading direction forward
Mean pairwise identity 61.76
Mean single sequence MFE -15.16
Consensus MFE -16.62
Energy contribution -14.74
Covariance contribution -1.88
Combinations/Pair 1.77
Mean z-score -5.76
Structure conservation index 1.10
SVM decision value 1.11
SVM RNA-class probability 0.916338
Prediction RNA
WARNING Sequence 1 too short.
WARNING Sequence 2 too short.
WARNING Sequence 2: Base composition out of range.
WARNING Sequence 3 too short.
WARNING Sequence 4 too short.
WARNING Sequence 5 too short.

Download alignment: ClustalW | MAF

>Bsubt.0 26692 39 + 4214630
AUCAAAUUUUCAGACUCACCUAAU---AU-UAGGUGAGUUUUU
...........(((((((((((..---..-))))))))))).. ( -14.20)
>Blich.0 30958 42 + 4222334
AUCAAAUUAAGA-ACUCAUCUAUUUGAAUAUAGAUGAGUUUUU
........((((-((((((((((......)))))))))))))) ( -15.60)
>Banth.0 25384 41 + 5227293
AUAUGUAUACAAAACUCACCUUAAU--ACUAAGGUGGGUUUUU
..........(((((((((((((..--..))))))))))))). ( -15.20)
>Bcere.0 25385 41 + 5224283
AUAUGUAUACAAAACUCACCUUAAU--ACUAAGGUGGGUUUUU
..........(((((((((((((..--..))))))))))))). ( -15.20)
>Bhalo.0 46755 42 + 4202352
ACUUAACCAUAAAAAGCAACUACAUU-CCGUAGUUGCUUUUUU
..........(((((((((((((...-..))))))))))))). ( -15.60)
>consensus
AUAUAAAUACAAAACUCACCUAAAU__ACUUAGGUGAGUUUUU
..........(((((((((((((......))))))))))))). (-16.62 = -14.74 +  -1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 26,692 – 26,731
Length 39
Sequences 5
Columns 43
Reading direction reverse
Mean pairwise identity 61.76
Mean single sequence MFE -12.66
Consensus MFE -13.06
Energy contribution -12.54
Covariance contribution -0.52
Combinations/Pair 1.54
Mean z-score -4.21
Structure conservation index 1.03
SVM decision value 1.02
SVM RNA-class probability 0.901925
Prediction RNA
WARNING Sequence 1 too short.
WARNING Sequence 2 too short.
WARNING Sequence 2: Base composition out of range.
WARNING Sequence 3 too short.
WARNING Sequence 4 too short.
WARNING Sequence 5 too short.

Download alignment: ClustalW | MAF

>Bsubt.0 26692 39 + 4214630
AAAAACUCACCUA-AU---AUUAGGUGAGUCUGAAAAUUUGAU
....(((((((((-..---..)))))))))............. ( -12.30)
>Blich.0 30958 42 + 4222334
AAAAACUCAUCUAUAUUCAAAUAGAUGAGU-UCUUAAUUUGAU
...(((((((((((......))))))))))-)........... ( -12.70)
>Banth.0 25384 41 + 5227293
AAAAACCCACCUUAGU--AUUAAGGUGAGUUUUGUAUACAUAU
.(((((.(((((((..--..))))))).))))).......... ( -11.20)
>Bcere.0 25385 41 + 5224283
AAAAACCCACCUUAGU--AUUAAGGUGAGUUUUGUAUACAUAU
.(((((.(((((((..--..))))))).))))).......... ( -11.20)
>Bhalo.0 46755 42 + 4202352
AAAAAAGCAACUACGG-AAUGUAGUUGCUUUUUAUGGUUAAGU
.(((((((((((((..-...))))))))))))).......... ( -15.90)
>consensus
AAAAACCCACCUAAGU__AUUUAGGUGAGUUUUAUAAUUAGAU
.(((((((((((((......))))))))))))).......... (-13.06 = -12.54 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:26:49 2006