Locus 63

Sequence ID Bsubt.0
Location 528,637 – 528,756
Length 119
Max. P 0.999972
window393 window394 window395 window396 window397

overview

Window 3

Location 528,637 – 528,742
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.10
Mean single sequence MFE -36.53
Consensus MFE -32.33
Energy contribution -27.90
Covariance contribution -4.43
Combinations/Pair 1.48
Mean z-score -0.93
Structure conservation index 0.88
SVM decision value 1.96
SVM RNA-class probability 0.983906
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 528637 105 + 4214630/0-120
GAGCCAUUAGCUCAGUUGGU-AGAGCAUCUGACUUUUAAUCAGAGGGUCGAAGGUUCGAGUCCUUCAUGGCUCACCAUUUGUCUUU-------------U-UGCGGGUGUGGCGGAAUUG
..(((((..((((...((((-.((((....(((((((.....)))))))(((((.......)))))...))))))))...((....-------------.-.)))))))))))....... ( -33.80)
>Blich.0 572620 106 + 4222334/0-120
GAGCCAUUAGCUCAGUUGGU-AGAGCAUCUGACUUUUAAUCAGAGGGUCGAAGGUUCGAGUCCUUCAUGGCUCACCAUUGUUUUUU-------------CACGCGGGUGUGGCGGAAUUG
(((((((..((((.......-.))))....(((((((.....)))))))(((((.......))))))))))))......((((..(-------------((((....)))))..)))).. ( -34.50)
>Bclau.0 891348 120 + 4303871/0-120
GGUCCGGUAGUUCAGUUGGUUAGAAUGCCUGCCUGUCACGCAGGAGGUCGCGGGUUCGAGUCCCGUCCGGACCGCCAUCUAUAUGUACAAUUAAAAUUGCCAGCGGGUGUGGCGGAAUUG
(((((((...................((((.((((.....)))))))).(((((.......))))))))))))(((((((...((..((((....)))).))...)).)))))....... ( -41.30)
>consensus
GAGCCAUUAGCUCAGUUGGU_AGAGCAUCUGACUUUUAAUCAGAGGGUCGAAGGUUCGAGUCCUUCAUGGCUCACCAUUUAUAUUU_____________C_AGCGGGUGUGGCGGAAUUG
(((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))).............................((.......))....... (-32.33 = -27.90 +  -4.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 528,637 – 528,742
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 71.10
Mean single sequence MFE -31.86
Consensus MFE -29.19
Energy contribution -25.98
Covariance contribution -3.21
Combinations/Pair 1.38
Mean z-score -2.20
Structure conservation index 0.92
SVM decision value 5.08
SVM RNA-class probability 0.999972
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 528637 105 + 4214630/0-120
CAAUUCCGCCACACCCGCA-A-------------AAAGACAAAUGGUGAGCCAUGAAGGACUCGAACCUUCGACCCUCUGAUUAAAAGUCAGAUGCUCU-ACCAACUGAGCUAAUGGCUC
.......((((......(.-.-------------...).....))))((((((((((((.......))))).....((((((.....)))))).((((.-.......))))..))))))) ( -28.20)
>Blich.0 572620 106 + 4222334/0-120
CAAUUCCGCCACACCCGCGUG-------------AAAAAACAAUGGUGAGCCAUGAAGGACUCGAACCUUCGACCCUCUGAUUAAAAGUCAGAUGCUCU-ACCAACUGAGCUAAUGGCUC
...((((((.......))).)-------------))...........((((((((((((.......))))).....((((((.....)))))).((((.-.......))))..))))))) ( -30.80)
>Bclau.0 891348 120 + 4303871/0-120
CAAUUCCGCCACACCCGCUGGCAAUUUUAAUUGUACAUAUAGAUGGCGGUCCGGACGGGACUCGAACCCGCGACCUCCUGCGUGACAGGCAGGCAUUCUAACCAACUGAACUACCGGACC
.......((((.........(((((....))))).........))))(((((((.((((.......)))).(.(((((((.....)))).))))...................))))))) ( -36.57)
>consensus
CAAUUCCGCCACACCCGCA_G_____________AAAAAAAAAUGGUGAGCCAUGAAGGACUCGAACCUUCGACCCUCUGAUUAAAAGUCAGAUGCUCU_ACCAACUGAGCUAAUGGCUC
.......((((................................))))((((((((((((.......))))).....((((((.....)))))).((((.........))))..))))))) (-29.19 = -25.98 +  -3.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 528,637 – 528,742
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 76.56
Mean single sequence MFE -36.17
Consensus MFE -35.61
Energy contribution -35.17
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.63
Structure conservation index 0.98
SVM decision value 3.84
SVM RNA-class probability 0.999654
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 528637 105 + 4214630/80-200
GUCUUU-------------U-UGCGGGUGUGGCGGAAUUGGCAGACGCGCUAGACUUAGGAUCUAGUGUCUU-ACGACGUGGGGGUUCGAGUCCCUUCACCCGCACUUUAUUUACAAAGU
......-------------.-.(((((((.((.(((.(((((...((((((((((....).))))))(((..-..))))))...).)))).))))).)))))))(((((......))))) ( -35.70)
>Blich.0 572620 97 + 4222334/80-200
UUUUUU-------------CACGCGGGUGUGGCGGAAUUGGCAGACGCGCUAGACUUAGGAUCUAGUGUCUUUACGGCGUGGGGGUUCGAGUCCCUUCACCCGCACUUAA----------
......-------------...(((((((.((.(((.(((((...((((((((((((((...)))).))))....))))))...).)))).))))).)))))))......---------- ( -36.80)
>Bclau.0 891348 106 + 4303871/80-200
AUAUGUACAAUUAAAAUUGCCAGCGGGUGUGGCGGAAUUGGCAGACGCGCUAGACUUAGGAUCUAGUGUCUUUAUGACGUGGGGGUUCAAGUCCCUUCACCCGCAC--------------
......................(((((((.((.(((.(((((...((((((((((....).))))))(((.....))))))...).)))).))))).)))))))..-------------- ( -36.00)
>consensus
AUAUUU_____________C_AGCGGGUGUGGCGGAAUUGGCAGACGCGCUAGACUUAGGAUCUAGUGUCUUUACGACGUGGGGGUUCGAGUCCCUUCACCCGCACUU_A__________
......................(((((((.((.(((.(((((...((((((((((....).))))))(((.....))))))...).)))).))))).)))))))................ (-35.61 = -35.17 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 528,637 – 528,742
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 76.56
Mean single sequence MFE -30.13
Consensus MFE -27.25
Energy contribution -27.03
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.90
SVM decision value 2.74
SVM RNA-class probability 0.996705
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 528637 105 + 4214630/80-200
ACUUUGUAAAUAAAGUGCGGGUGAAGGGACUCGAACCCCCACGUCGU-AAGACACUAGAUCCUAAGUCUAGCGCGUCUGCCAAUUCCGCCACACCCGCA-A-------------AAAGAC
((((((....))))))(((((((...((((.((.........(((..-..))).((((((.....)))))))).))))((.......))..))))))).-.-------------...... ( -33.00)
>Blich.0 572620 97 + 4222334/80-200
----------UUAAGUGCGGGUGAAGGGACUCGAACCCCCACGCCGUAAAGACACUAGAUCCUAAGUCUAGCGCGUCUGCCAAUUCCGCCACACCCGCGUG-------------AAAAAA
----------......(((((((..(((.........)))..((.(...((((.((((((.....))))))...)))).......).))..)))))))...-------------...... ( -27.60)
>Bclau.0 891348 106 + 4303871/80-200
--------------GUGCGGGUGAAGGGACUUGAACCCCCACGUCAUAAAGACACUAGAUCCUAAGUCUAGCGCGUCUGCCAAUUCCGCCACACCCGCUGGCAAUUUUAAUUGUACAUAU
--------------..(((((((..(((((.((......)).)))....((((.((((((.....))))))...)))).......))....)))))))..(((((....)))))...... ( -29.80)
>consensus
__________U_AAGUGCGGGUGAAGGGACUCGAACCCCCACGUCGUAAAGACACUAGAUCCUAAGUCUAGCGCGUCUGCCAAUUCCGCCACACCCGCA_G_____________AAAAAA
................(((((((..(((.........))).((..((..((((.((((((.....))))))...))))....))..))...)))))))...................... (-27.25 = -27.03 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 528,637 – 528,756
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 76.47
Mean single sequence MFE -40.07
Consensus MFE -37.83
Energy contribution -37.17
Covariance contribution -0.66
Combinations/Pair 1.07
Mean z-score -2.06
Structure conservation index 0.94
SVM decision value 3.70
SVM RNA-class probability 0.999543
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 528637 119 + 4214630/231-351
CUACUAAACCAGCACAACACAAUUUAAUGAUCACGCGGUCGUGGCGGAAUGGCAGACGCGCUAGGUUGAGGGCCUAGUGGGUGAAUAA-CCCGUGGAGGUUCAAGUCCUCUCGGCCGCAU
..................................(((((((.((.(((..(((...((((((((((.....)))))))((((.....)-))))))...)))....))))).))))))).. ( -40.10)
>Blich.0 572620 100 + 4222334/231-351
----------AAAACAACAUA---------UCAUGCGGUCGUGGCGGAAUGGCAGACGCGCUAGGUUGAGGGCCUAGUGGGUGAAUAA-CCCGUGGAGGUUCAAGUCCUCUCGGCCGCAU
----------...........---------..(((((((((.((.(((..(((...((((((((((.....)))))))((((.....)-))))))...)))....))))).))))))))) ( -41.10)
>Bclau.0 891348 94 + 4303871/231-351
--------------CAGAAUA------------CGCGGUUGUGGCGGAAUGGCAGACGCGCUAGGUUGAGGGCCUAGUGGGAGUUAAAUCCCGUGGAGGUUCGAGUCCUCUCAACCGCAU
--------------.......------------.(((((((.((.(((..(((...((((((((((.....)))))))((((......)))))))...)))....))))).))))))).. ( -39.00)
>consensus
__________A__ACAACAUA_________UCACGCGGUCGUGGCGGAAUGGCAGACGCGCUAGGUUGAGGGCCUAGUGGGUGAAUAA_CCCGUGGAGGUUCAAGUCCUCUCGGCCGCAU
..................................(((((((.((.(((..(((...((((((((((.....)))))))(((........))))))...)))....))))).))))))).. (-37.83 = -37.17 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:20:49 2006