Locus 102

Sequence ID Blich.0
Location 1,291,286 – 1,291,398
Length 112
Max. P 0.999979
window716 window717 window718 window719 window720 window721

overview

Window 6

Location 1,291,286 – 1,291,398
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 70.11
Mean single sequence MFE -40.55
Consensus MFE -32.46
Energy contribution -33.02
Covariance contribution 0.56
Combinations/Pair 1.33
Mean z-score -3.25
Structure conservation index 0.80
SVM decision value 5.21
SVM RNA-class probability 0.999979
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1291286 112 + 4222334/0-120
CUUAUCACGAGAGGUGGAGGGACUGGCCCUUUGAAACCUCAGCAACCGGUCUGCACUGACGACGUCAGUGCACCAAGGUGCUAAAUCCAGCAAGCGG-----AUGCUU---GGAAGAUAA
..((((....(((((.(((((.....)))))....)))))((((.((....(((((((((...)))))))))....))))))...(((((((.....-----.))).)---))).)))). ( -44.10)
>Bsubt.0 1257615 116 + 4214630/0-120
CUUAUCGUGAGAGGUGGAGGGACUGGCCCUUAGAAACCUCAGCAACCGGCUUGUUUUG-CAUUUGCAAAGCGCCAAGGUGCUAAAUCCAGCAAGCGUUUUUUAUGCUU---GGAAGAUAA
..(((((.(((((((.(((((.....)))))....)))))((((.(((((..((((((-(....))))))))))..))))))...)))..(((((((.....))))))---)...)))). ( -43.10)
>Banth.0 2459361 111 + 5227293/0-120
CUUAUCCAGAGAGGUGGAGGGAACGGCCCUAUGAAACCUCAGCAACCCCUAUGUAAAU---------GCAUAGGAAGGUGCUAAUUCCGCAGAGAACACGUUGUGUUUUUUGGAAGAUGA
.(((((....(((((..((((.....)))).....)))))((((.(((((((((....---------)))))))..))))))..(((((..((((((((...)))))))))))))))))) ( -38.80)
>Bcere.0 2536324 111 + 5224283/0-120
CUUAUCCAGAGAGGUGGAGGGAACGGCCCUAUGAAACCUCAGCAACCCCUAUAUAUAU---------UUAUAGGAAGGUGCUAAUUCCGCAGAGAACACGAUGUGUUUUUUGGAAGAUAA
..((((....(((((..((((.....)))).....)))))((((.((((((((.....---------.))))))..))))))..(((((..((((((((...))))))))))))))))). ( -36.20)
>consensus
CUUAUCCAGAGAGGUGGAGGGAACGGCCCUAUGAAACCUCAGCAACCCCUAUGUAUAG_________GUACACCAAGGUGCUAAAUCCACAAAGAACACGUUAUGCUU___GGAAGAUAA
.(((((....(((((.(((((.....)))))....)))))((((.(((((..(((((((.....))))))))))..))))))...((((.(((((((.....))))))).)))).))))) (-32.46 = -33.02 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,291,286 – 1,291,398
Length 112
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 70.11
Mean single sequence MFE -32.30
Consensus MFE -22.08
Energy contribution -24.20
Covariance contribution 2.12
Combinations/Pair 1.23
Mean z-score -1.79
Structure conservation index 0.68
SVM decision value 1.99
SVM RNA-class probability 0.985002
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1291286 112 + 4222334/0-120
UUAUCUUCC---AAGCAU-----CCGCUUGCUGGAUUUAGCACCUUGGUGCACUGACGUCGUCAGUGCAGACCGGUUGCUGAGGUUUCAAAGGGCCAGUCCCUCCACCUCUCGUGAUAAG
(((((.(((---(.(((.-----.....)))))))...((((((..(((((((((((...))))))))..))))).))))(((((.....((((.....))))..)))))....))))). ( -39.40)
>Bsubt.0 1257615 116 + 4214630/0-120
UUAUCUUCC---AAGCAUAAAAAACGCUUGCUGGAUUUAGCACCUUGGCGCUUUGCAAAUG-CAAAACAAGCCGGUUGCUGAGGUUUCUAAGGGCCAGUCCCUCCACCUCUCACGAUAAG
(((((.(((---(.(((...........)))))))...((((((..(((..(((((....)-))))....))))).))))(((((.....((((.....))))..)))))....))))). ( -33.10)
>Banth.0 2459361 111 + 5227293/0-120
UCAUCUUCCAAAAAACACAACGUGUUCUCUGCGGAAUUAGCACCUUCCUAUGC---------AUUUACAUAGGGGUUGCUGAGGUUUCAUAGGGCCGUUCCCUCCACCUCUCUGGAUAAG
..................((((.(((((.((..(..((((((((..((((((.---------.....)))))))).))))))..)..)).)))))))))...((((......)))).... ( -28.70)
>Bcere.0 2536324 111 + 5224283/0-120
UUAUCUUCCAAAAAACACAUCGUGUUCUCUGCGGAAUUAGCACCUUCCUAUAA---------AUAUAUAUAGGGGUUGCUGAGGUUUCAUAGGGCCGUUCCCUCCACCUCUCUGGAUAAG
(((((........(((((...))))).....((((...((((((..((((((.---------.....)))))))).))))(((((.....((((.....))))..)))))))))))))). ( -28.00)
>consensus
UUAUCUUCC___AAACACAACGUGCGCUCGCCGGAAUUAGCACCUUCCUACAC_________AAAUACAUACCGGUUGCUGAGGUUUCAAAGGGCCAGUCCCUCCACCUCUCUGGAUAAG
(((((.(((...((((((.....))))))...)))...((((((..((((((((((.....)))))))..))))).))))(((((.....((((.....))))..)))))....))))). (-22.08 = -24.20 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 1,291,286 – 1,291,392
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 60.71
Mean single sequence MFE -36.08
Consensus MFE -24.65
Energy contribution -24.21
Covariance contribution -0.44
Combinations/Pair 1.43
Mean z-score -3.83
Structure conservation index 0.68
SVM decision value 3.67
SVM RNA-class probability 0.999511
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1291286 106 + 4222334/40-160
AGCAACCGGUCUGCACUGACGACGUCAGUGCACCAAGGUGCUAAAUCCAGCAAGCGG-----AUGCUU---GGAAGAUAAGAAGA------AGCGAAUAAUCCCCCUUCUUCUUAUGAAG
((((.((....(((((((((...)))))))))....))))))...(((((((.....-----.))).)---)))..(((((((((------((.(........).))))))))))).... ( -39.80)
>Bsubt.0 1257615 108 + 4214630/40-160
AGCAACCGGCUUGUUUUG-CAUUUGCAAAGCGCCAAGGUGCUAAAUCCAGCAAGCGUUUUUUAUGCUU---GGAAGAUAAGAAGA------AGCGUUAAA--CCCCUUCUUCUUAUGAAG
((((.(((((..((((((-(....))))))))))..))))))........(((((((.....))))))---)....(((((((((------((.(.....--.).))))))))))).... ( -37.10)
>Banth.0 2459361 111 + 5227293/40-160
AGCAACCCCUAUGUAAAU---------GCAUAGGAAGGUGCUAAUUCCGCAGAGAACACGUUGUGUUUUUUGGAAGAUGAGAGGAUUCUUGAACGUGAAAGAAAAUGACCUCUUAUGUAA
((((.(((((((((....---------)))))))..))))))..(((((..((((((((...))))))))))))).((((((((.(((((........))))).....)))))))).... ( -35.00)
>Bcere.0 2536324 111 + 5224283/40-160
AGCAACCCCUAUAUAUAU---------UUAUAGGAAGGUGCUAAUUCCGCAGAGAACACGAUGUGUUUUUUGGAAGAUAAGAGGAUUCUUGAACGUGAAAGAAAAUGACCUCUUAUGUAA
((((.((((((((.....---------.))))))..))))))..(((((..((((((((...))))))))))))).((((((((.(((((........))))).....)))))))).... ( -32.40)
>consensus
AGCAACCCCUAUGUAUAG_________GUACACCAAGGUGCUAAAUCCACAAAGAACACGUUAUGCUU___GGAAGAUAAGAAGA______AACGUGAAAGAAAACGACCUCUUAUGAAA
((((.(((((..(((((((.....))))))))))..))))))...((((.(((((((.....))))))).))))..((((((((........................)))))))).... (-24.65 = -24.21 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,291,286 – 1,291,392
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 60.71
Mean single sequence MFE -31.23
Consensus MFE -16.16
Energy contribution -17.79
Covariance contribution 1.63
Combinations/Pair 1.30
Mean z-score -3.10
Structure conservation index 0.52
SVM decision value 3.47
SVM RNA-class probability 0.999261
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1291286 106 + 4222334/40-160
CUUCAUAAGAAGAAGGGGGAUUAUUCGCU------UCUUCUUAUCUUCC---AAGCAU-----CCGCUUGCUGGAUUUAGCACCUUGGUGCACUGACGUCGUCAGUGCAGACCGGUUGCU
.....((((((((((.(((....))).))------))))))))(((..(---((((..-----..)))))..)))...((((((..(((((((((((...))))))))..))))).)))) ( -40.90)
>Bsubt.0 1257615 108 + 4214630/40-160
CUUCAUAAGAAGAAGGGG--UUUAACGCU------UCUUCUUAUCUUCC---AAGCAUAAAAAACGCUUGCUGGAUUUAGCACCUUGGCGCUUUGCAAAUG-CAAAACAAGCCGGUUGCU
.....((((((((((.(.--.....).))------))))))))(((..(---((((.........)))))..)))...((((((..(((..(((((....)-))))....))))).)))) ( -35.50)
>Banth.0 2459361 111 + 5227293/40-160
UUACAUAAGAGGUCAUUUUCUUUCACGUUCAAGAAUCCUCUCAUCUUCCAAAAAACACAACGUGUUCUCUGCGGAAUUAGCACCUUCCUAUGC---------AUUUACAUAGGGGUUGCU
.......(((((.....(((((........))))).)))))....((((....(((((...)))))......))))..((((((..((((((.---------.....)))))))).)))) ( -23.40)
>Bcere.0 2536324 111 + 5224283/40-160
UUACAUAAGAGGUCAUUUUCUUUCACGUUCAAGAAUCCUCUUAUCUUCCAAAAAACACAUCGUGUUCUCUGCGGAAUUAGCACCUUCCUAUAA---------AUAUAUAUAGGGGUUGCU
....((((((((.....(((((........))))).)))))))).((((....(((((...)))))......))))..((((((..((((((.---------.....)))))))).)))) ( -25.10)
>consensus
CUACAUAAGAAGAAAGGGUCUUUCACGCU______UCCUCUUAUCUUCC___AAACACAACGUGCGCUCGCCGGAAUUAGCACCUUCCUACAC_________AAAUACAUACCGGUUGCU
....((((((((........................))))))))..(((...((((((.....))))))...)))...((((((..((((((((((.....)))))))..))))).)))) (-16.16 = -17.79 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,291,286 – 1,291,392
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 61.29
Mean single sequence MFE -35.55
Consensus MFE -15.40
Energy contribution -14.46
Covariance contribution -0.94
Combinations/Pair 1.38
Mean z-score -3.81
Structure conservation index 0.43
SVM decision value 2.62
SVM RNA-class probability 0.995827
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1291286 106 + 4222334/57-177
GACGACGUCAGUGCACCAAGGUGCUAAAUCCAGCAAGCGG-----AUGCUU---GGAAGAUAAGAAGA------AGCGAAUAAUCCCCCUUCUUCUUAUGAAGAAGGGGUUUUUACUUUU
......(((...((((....))))....(((((((.....-----.))).)---))).)))....(((------((..((.....((((((((((....))))))))))..))..))))) ( -34.80)
>Bsubt.0 1257615 108 + 4214630/57-177
G-CAUUUGCAAAGCGCCAAGGUGCUAAAUCCAGCAAGCGUUUUUUAUGCUU---GGAAGAUAAGAAGA------AGCGUUAAA--CCCCUUCUUCUUAUGAAGAAGGGGUUUUUAUUUUG
.-.....((..(((((....)))))..(((...(((((((.....))))))---)...))).......------.))...(((--((((((((((....)))))))))))))........ ( -39.00)
>Banth.0 2459361 111 + 5227293/57-177
U---------GCAUAGGAAGGUGCUAAUUCCGCAGAGAACACGUUGUGUUUUUUGGAAGAUGAGAGGAUUCUUGAACGUGAAAGAAAAUGACCUCUUAUGUAAGAGGUCAUUUUUUGUUG
.---------((((......))))...(((((((((((((((...))))))))))(((..(....)..))).....)).)))(((((((((((((((....))))))))))))))).... ( -35.00)
>Bcere.0 2536324 111 + 5224283/57-177
U---------UUAUAGGAAGGUGCUAAUUCCGCAGAGAACACGAUGUGUUUUUUGGAAGAUAAGAGGAUUCUUGAACGUGAAAGAAAAUGACCUCUUAUGUAAGAGGUCAUUUUUUGUUG
(---------((((.((((........)))).((((((((((...)))))))))).....((((......))))...)))))(((((((((((((((....))))))))))))))).... ( -33.40)
>consensus
G_________GUACACCAAGGUGCUAAAUCCACAAAGAACACGUUAUGCUU___GGAAGAUAAGAAGA______AACGUGAAAGAAAACGACCUCUUAUGAAAAAGGGCAUUUUAUGUUG
...............((...........((((.(((((((.....))))))).))))..((((((((........................))))))))........))........... (-15.40 = -14.46 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,291,286 – 1,291,392
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 61.29
Mean single sequence MFE -28.45
Consensus MFE -8.00
Energy contribution -11.00
Covariance contribution 3.00
Combinations/Pair 1.26
Mean z-score -4.15
Structure conservation index 0.28
SVM decision value 0.13
SVM RNA-class probability 0.600229
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1291286 106 + 4222334/57-177
AAAAGUAAAAACCCCUUCUUCAUAAGAAGAAGGGGGAUUAUUCGCU------UCUUCUUAUCUUCC---AAGCAU-----CCGCUUGCUGGAUUUAGCACCUUGGUGCACUGACGUCGUC
...(((((...((((((((((....))))))))))..)))))(((.------((.....((((..(---((((..-----..)))))..))))...((((....))))...)).).)).. ( -35.10)
>Bsubt.0 1257615 108 + 4214630/57-177
CAAAAUAAAAACCCCUUCUUCAUAAGAAGAAGGGG--UUUAACGCU------UCUUCUUAUCUUCC---AAGCAUAAAAAACGCUUGCUGGAUUUAGCACCUUGGCGCUUUGCAAAUG-C
((((....(((((((((((((....))))))))))--)))..((((------....((.((((..(---((((.........)))))..))))..))......)))).))))......-. ( -34.10)
>Banth.0 2459361 111 + 5227293/57-177
CAACAAAAAAUGACCUCUUACAUAAGAGGUCAUUUUCUUUCACGUUCAAGAAUCCUCUCAUCUUCCAAAAAACACAACGUGUUCUCUGCGGAAUUAGCACCUUCCUAUGC---------A
......(((((((((((((....)))))))))))))..(((.(((...((((..(.......................)..))))..))))))...(((........)))---------. ( -22.90)
>Bcere.0 2536324 111 + 5224283/57-177
CAACAAAAAAUGACCUCUUACAUAAGAGGUCAUUUUCUUUCACGUUCAAGAAUCCUCUUAUCUUCCAAAAAACACAUCGUGUUCUCUGCGGAAUUAGCACCUUCCUAUAA---------A
......(((((((((((((....)))))))))))))..(((.(((..((((....))))...........(((((...)))))....)))))).................---------. ( -21.70)
>consensus
CAAAAAAAAAACACCUCCUACAUAAGAAGAAAGGGUCUUUCACGCU______UCCUCUUAUCUUCC___AAACACAACGUGCGCUCGCCGGAAUUAGCACCUUCCUACAC_________A
...........((((((((((....))))))))))............................(((...((((((.....))))))...)))............................ ( -8.00 = -11.00 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:25:03 2006