Locus 4026

Sequence ID X_DroMel_CAF1
Location 10,643,369 – 10,643,529
Length 160
Max. P 0.988047
window6616 window6617 window6618 window6619

overview

Window 6

Location 10,643,369 – 10,643,489
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.78
Mean single sequence MFE -51.93
Consensus MFE -43.86
Energy contribution -44.37
Covariance contribution 0.50
Combinations/Pair 1.18
Mean z-score -2.87
Structure conservation index 0.84
SVM decision value 1.77
SVM RNA-class probability 0.976489
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10643369 120 + 22224390
GGCACCACACUAGCCGGAGUCUUGGACAUGGCAAAGCUUUGACACGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCGUUGCCCGGUGUCGACAUCAUUGCCAUCGGAUGGAGACCG
(((.........))).(.(((((.(.((((((((.(..(((((((..(((.(((((((((.((........)).))))))))).))).)))))))...).))))))).)..).)))))). ( -52.20)
>DroVir_CAF1 890 120 + 1
GGCACCACGCUGGCCGGUGUCUUGGACAUGGCAAAGCUUUGACACGAGGGGAACGGCAUGCUCGUGUUGAAGACCAUGCCGUUGCCCGGUGUCGACAUCAUUGCCAUGGGAUGCAGACCG
.((((((((((....)))))......((((((((.(..(((((((..(((.(((((((((.((........)).))))))))).))).)))))))...).)))))))))).)))...... ( -56.20)
>DroPse_CAF1 718 120 + 1
GGAACUACGCUGGCCGGCGUCUUGGACAUGGCAAAGCUCUGACACGAUGGGAAUGGCAUGCUUGUGUUAAAGACCAUGCCAUUGCCGGGUGUCGACAUCAUUGCCAUGGGAUGAAGGCCG
...........((((..(((((....((((((((.(...((((((..(((.((((((((((((......)))..))))))))).))).))))))....).)))))))))))))..)))). ( -52.60)
>DroGri_CAF1 12163 120 + 1
GGCACCACGCUGGCCGGUGUUUUGGACAUGGCAAAGCUUUGACAGGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCAUUGCCCGGUGUCGACAUCAUUGCCAUUGGAUGCAGGCCG
(((.....)))((((.((((((.....(((((((.(..((((((...(((.((.((((((.((........)).)))))).)).)))..))))))...).))))))).)))))).)))). ( -47.20)
>DroWil_CAF1 544 120 + 1
GGCACAACGUUCGCCGGCGUCUUAGACAUGGCAAAGCCCUGACACGAGGGGAACGGCAUGCUUGUAUUAAAGACCAUGCCAUUGCCCGGUGUAGACAUCAUUGCCAUGGGAUGGAGGCCG
(((.........)))(((.(((....((((((((.......((((..(((.((.(((((((((......)))..)))))).)).))).))))........))))))))....))).))). ( -49.06)
>DroAna_CAF1 691 120 + 1
GGCACCACACUGGCCGGUGUUUUGGACAUGGCAAAACUUUGACACGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCGUUGCCCGGUGUCGACAUCAUUGCCAUUGGAUGGAGGCCG
(((.(((((((....)))))......((((((((....(((((((..(((.(((((((((.((........)).))))))))).))).))))))).....)))))).))...))..))). ( -54.30)
>consensus
GGCACCACGCUGGCCGGUGUCUUGGACAUGGCAAAGCUUUGACACGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCAUUGCCCGGUGUCGACAUCAUUGCCAUGGGAUGGAGGCCG
(((.........)))(((.(.(((..((((((((....(((((((..(((.(((((((((.((........)).))))))))).))).))))))).....))))))).)..)))).))). (-43.86 = -44.37 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 10,643,369 – 10,643,489
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.78
Mean single sequence MFE -46.40
Consensus MFE -40.39
Energy contribution -40.87
Covariance contribution 0.48
Combinations/Pair 1.15
Mean z-score -2.67
Structure conservation index 0.87
SVM decision value 2.10
SVM RNA-class probability 0.988047
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10643369 120 - 22224390
CGGUCUCCAUCCGAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCGUGUCAAAGCUUUGCCAUGUCCAAGACUCCGGCUAGUGUGGUGCC
.(((..((((((((((((((.(.....(((((.(((.(((((((((.((........)).))))))))).)))..)))))....).)))))))(((...)))..))).....)))).))) ( -48.70)
>DroVir_CAF1 890 120 - 1
CGGUCUGCAUCCCAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAACACGAGCAUGCCGUUCCCCUCGUGUCAAAGCUUUGCCAUGUCCAAGACACCGGCCAGCGUGGUGCC
((((........((((((((.(.....(((((.(((.(((((((((.((........)).))))))))).)))..)))))....).))))))))........))))(((.....)))... ( -49.39)
>DroPse_CAF1 718 120 - 1
CGGCCUUCAUCCCAUGGCAAUGAUGUCGACACCCGGCAAUGGCAUGGUCUUUAACACAAGCAUGCCAUUCCCAUCGUGUCAGAGCUUUGCCAUGUCCAAGACGCCGGCCAGCGUAGUUCC
.((((..(.((.((((((((.(...(((((((..((.(((((((((..(((......)))))))))))).))...))))).)).).)))))))).....)).)..))))........... ( -40.50)
>DroGri_CAF1 12163 120 - 1
CGGCCUGCAUCCAAUGGCAAUGAUGUCGACACCGGGCAAUGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCCUGUCAAAGCUUUGCCAUGUCCAAAACACCGGCCAGCGUGGUGCC
.((((..(.......((((....))))((((..(((.(((((((((.((........)).))))))))).)))...))))...(((..(((.(((.....)))..))).))))..).))) ( -44.00)
>DroWil_CAF1 544 120 - 1
CGGCCUCCAUCCCAUGGCAAUGAUGUCUACACCGGGCAAUGGCAUGGUCUUUAAUACAAGCAUGCCGUUCCCCUCGUGUCAGGGCUUUGCCAUGUCUAAGACGCCGGCGAACGUUGUGCC
.(((.((.....((((((((....((((((((.(((.(((((((((..(((......)))))))))))).)))..))))..)))).)))))))).....)).)))((((.......)))) ( -45.70)
>DroAna_CAF1 691 120 - 1
CGGCCUCCAUCCAAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCGUGUCAAAGUUUUGCCAUGUCCAAAACACCGGCCAGUGUGGUGCC
.(((..((((....((((.........(((((.(((.(((((((((.((........)).))))))))).)))..)))))...((((((.......))))))....))))..)))).))) ( -50.10)
>consensus
CGGCCUCCAUCCCAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCGUGUCAAAGCUUUGCCAUGUCCAAGACACCGGCCAGCGUGGUGCC
.((((........(((((((.(.....(((((.(((.(((((((((.((........)).))))))))).)))..)))))....).)))))))(((...)))...))))........... (-40.39 = -40.87 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,643,409 – 10,643,529
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.22
Mean single sequence MFE -47.45
Consensus MFE -40.69
Energy contribution -40.87
Covariance contribution 0.17
Combinations/Pair 1.18
Mean z-score -1.57
Structure conservation index 0.86
SVM decision value 0.19
SVM RNA-class probability 0.626598
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10643409 120 + 22224390
GACACGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCGUUGCCCGGUGUCGACAUCAUUGCCAUCGGAUGGAGACCGGGGAACAUGAGGCUCUGCGGCGCCAUCGCCUGCAGAUCGU
(((((..(((.(((((((((.((........)).))))))))).))).)))))....((((..((.((((.......))))))...))))((.(((((((((....)))).))))))).. ( -54.70)
>DroVir_CAF1 930 120 + 1
GACACGAGGGGAACGGCAUGCUCGUGUUGAAGACCAUGCCGUUGCCCGGUGUCGACAUCAUUGCCAUGGGAUGCAGACCGGGGAACAUAAGGCUCUGAGGCGCCAUUGCCUGCAGAUCGU
(((((..(((.(((((((((.((........)).))))))))).))).)))))((.......(((.(((........)))(....)....)))(((((((((....))))).)))))).. ( -50.40)
>DroPse_CAF1 758 120 + 1
GACACGAUGGGAAUGGCAUGCUUGUGUUAAAGACCAUGCCAUUGCCGGGUGUCGACAUCAUUGCCAUGGGAUGAAGGCCGGGGAACAUGAGGCUCUGCGGUGCCAUCGCCUGUAGGUCAU
(((((..(((.((((((((((((......)))..))))))))).))).)))))(((.(((((.(...).))))).((((.(....)....))))((((((.((....))))))))))).. ( -47.70)
>DroGri_CAF1 12203 120 + 1
GACAGGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCAUUGCCCGGUGUCGACAUCAUUGCCAUUGGAUGCAGGCCGGGGAACAUGAGGCUCUGUGGCGCAAUUGCCUGCAGAUCGU
....((.(((.((.((((((.((........)).)))))).)).)))((((....))))....))...((.(((((((((.(((.(.....).))).))))((....)))))))..)).. ( -41.90)
>DroWil_CAF1 584 120 + 1
GACACGAGGGGAACGGCAUGCUUGUAUUAAAGACCAUGCCAUUGCCCGGUGUAGACAUCAUUGCCAUGGGAUGGAGGCCGGGGAACAUGAGGCUCUGUGGAGCCAUUGCCUGAAGAUCGU
...(((((((.((.(((((((((......)))..)))))).((.((((((.(...((((..........)))).).)))))).)).....(((((....))))).)).))).....)))) ( -40.60)
>DroAna_CAF1 731 120 + 1
GACACGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCGUUGCCCGGUGUCGACAUCAUUGCCAUUGGAUGGAGGCCGGGGAACAUGAGACUCUGGGGUGCCAUCGCCUGCAGAUCAU
(((((..(((.(((((((((.((........)).))))))))).))).)))))....((((..((.((((.......))))))...))))((.(((((((((....))))).)))))).. ( -49.40)
>consensus
GACACGAGGGGAACGGCAUGCUCGUAUUGAAGACCAUGCCAUUGCCCGGUGUCGACAUCAUUGCCAUGGGAUGGAGGCCGGGGAACAUGAGGCUCUGCGGCGCCAUCGCCUGCAGAUCGU
(((((..(((.(((((((((.((........)).))))))))).))).)))))....((((..((...((.......))..))...))))((.(((((((.((....))))))))))).. (-40.69 = -40.87 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,643,409 – 10,643,529
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.22
Mean single sequence MFE -42.40
Consensus MFE -34.60
Energy contribution -34.72
Covariance contribution 0.11
Combinations/Pair 1.16
Mean z-score -1.97
Structure conservation index 0.82
SVM decision value 0.07
SVM RNA-class probability 0.571053
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10643409 120 - 22224390
ACGAUCUGCAGGCGAUGGCGCCGCAGAGCCUCAUGUUCCCCGGUCUCCAUCCGAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCGUGUC
....(((((.((((....)))))))))((.((((...((.(((.......)))..))..)))).)).(((((.(((.(((((((((.((........)).))))))))).)))..))))) ( -50.90)
>DroVir_CAF1 930 120 - 1
ACGAUCUGCAGGCAAUGGCGCCUCAGAGCCUUAUGUUCCCCGGUCUGCAUCCCAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAACACGAGCAUGCCGUUCCCCUCGUGUC
..((((((.((((......))))))))(((..((((.(....)...)))).....))).......))(((((.(((.(((((((((.((........)).))))))))).)))..))))) ( -46.20)
>DroPse_CAF1 758 120 - 1
AUGACCUACAGGCGAUGGCACCGCAGAGCCUCAUGUUCCCCGGCCUUCAUCCCAUGGCAAUGAUGUCGACACCCGGCAAUGGCAUGGUCUUUAACACAAGCAUGCCAUUCCCAUCGUGUC
..........((.(((((..(((..((((.....))))..)))...)))))))..((((....))))(((((..((.(((((((((..(((......)))))))))))).))...))))) ( -36.80)
>DroGri_CAF1 12203 120 - 1
ACGAUCUGCAGGCAAUUGCGCCACAGAGCCUCAUGUUCCCCGGCCUGCAUCCAAUGGCAAUGAUGUCGACACCGGGCAAUGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCCUGUC
......(((((((....))(((...((((.....))))...))))))))......((((....))))((((..(((.(((((((((.((........)).))))))))).)))...)))) ( -41.60)
>DroWil_CAF1 584 120 - 1
ACGAUCUUCAGGCAAUGGCUCCACAGAGCCUCAUGUUCCCCGGCCUCCAUCCCAUGGCAAUGAUGUCUACACCGGGCAAUGGCAUGGUCUUUAAUACAAGCAUGCCGUUCCCCUCGUGUC
.........(((((..(((((....)))))((((........(((..........))).)))))))))((((.(((.(((((((((..(((......)))))))))))).)))..)))). ( -37.10)
>DroAna_CAF1 731 120 - 1
AUGAUCUGCAGGCGAUGGCACCCCAGAGUCUCAUGUUCCCCGGCCUCCAUCCAAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCGUGUC
...(((((.((((..(((....)))..)))))).........(((..........)))...)))...(((((.(((.(((((((((.((........)).))))))))).)))..))))) ( -41.80)
>consensus
ACGAUCUGCAGGCAAUGGCGCCACAGAGCCUCAUGUUCCCCGGCCUCCAUCCCAUGGCAAUGAUGUCGACACCGGGCAACGGCAUGGUCUUCAAUACGAGCAUGCCGUUCCCCUCGUGUC
..(((....((((..((......))..))))...........(((..........)))......)))(((((.(((.(((((((((.((........)).))))))))).)))..))))) (-34.60 = -34.72 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:35 2006