Locus 573

Sequence ID X_DroMel_CAF1
Location 1,631,103 – 1,631,333
Length 230
Max. P 0.999894
window903 window904 window905 window906 window907

overview

Window 3

Location 1,631,103 – 1,631,222
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.25
Mean single sequence MFE -31.68
Consensus MFE -27.74
Energy contribution -28.38
Covariance contribution 0.64
Combinations/Pair 1.10
Mean z-score -1.77
Structure conservation index 0.88
SVM decision value 1.69
SVM RNA-class probability 0.972271
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1631103 119 - 22224390
ACACCCACACUCUCGUGAAUUGGCCAAUCGGGCCCAUAGCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGCACUACACACAGUAUACAACUUAUGCAGGCACCUUACUAUCUGCUCU
.....(((......)))..(((((((..(((((.....)))((((.......))))))..)))))))..((((.((.((...(((.....)))..)).))))))............... ( -30.20)
>DroSec_CAF1 26235 118 - 1
ACACCCACGCUCUCGUGAAUUGGCCAAUCGGACCCAU-GCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGUACUACACACAGUAUACAACUUAUGCAGGCACCUUACUAUCUGCUCU
.....((((....))))..(((((((...(....)..-(((((((.......)))).))))))))))..(((((((......))))))).......((((..(......)..))))... ( -34.10)
>DroSim_CAF1 42760 118 - 1
ACACCCACGCUCUCGUGAAUUGGCCAAUCGGACCCAU-GCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGUACUACACACAGUAUACAACUUAUGCAGGCACCUUACUAUCUGCUCU
.....((((....))))..(((((((...(....)..-(((((((.......)))).))))))))))..(((((((......))))))).......((((..(......)..))))... ( -34.10)
>DroEre_CAF1 27368 109 - 1
ACACCCACGCUCUCGUGAAUUGGCCAAUCGGGCCCAUAGCCAU---------CGACUGGCUGGCCAAAAGUGCACUACACACAGUAUACAGCUUAUGCAGGCACCUUACUAUCUGCUC-
.....((((....))))....((((.....))))..((((((.---------....))))))(((....(((.(((......))).))).((....)).)))................- ( -26.80)
>DroYak_CAF1 30572 118 - 1
ACACCCACGCUCUCGUGAAUUGACCAAUCGGGCCCAAAGCCAUCGCUCGCAUCGGCUGGCUGGCCAAAAGUGCACUACACACAGUGUACAGCUUAUGCAGGCACCUUACUAUCUGCUC-
........((....((((..((.((.....((((...(((((..(((......))))))))))))....(((((((......))))))).((....)).))))..)))).....))..- ( -33.20)
>consensus
ACACCCACGCUCUCGUGAAUUGGCCAAUCGGGCCCAUAGCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGCACUACACACAGUAUACAACUUAUGCAGGCACCUUACUAUCUGCUCU
.....((((....))))..(((((((...(....)...(((((((.......))).)))))))))))..(((((((......))))))).......((((..(......)..))))... (-27.74 = -28.38 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,631,143 – 1,631,262
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.76
Mean single sequence MFE -31.84
Consensus MFE -24.50
Energy contribution -24.66
Covariance contribution 0.16
Combinations/Pair 1.09
Mean z-score -1.59
Structure conservation index 0.77
SVM decision value 0.13
SVM RNA-class probability 0.599096
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1631143 119 - 22224390
UACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGUACACCCACACUCUCGUGAAUUGGCCAAUCGGGCCCAUAGCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGCACUACA
.(((((......)))))....((((...))))......((((...(((......)))..(((((((..(((((.....)))((((.......))))))..)))))))..))))...... ( -32.40)
>DroSec_CAF1 26275 118 - 1
UACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGUACACCCACGCUCUCGUGAAUUGGCCAAUCGGACCCAU-GCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGUACUACA
.(((((......)))))....((((...))))......((((((.((((....))))..(((((((...(....)..-(((((((.......)))).))))))))))..)))))).... ( -34.80)
>DroSim_CAF1 42800 118 - 1
UACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGUACACCCACGCUCUCGUGAAUUGGCCAAUCGGACCCAU-GCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGUACUACA
.(((((......)))))....((((...))))......((((((.((((....))))..(((((((...(....)..-(((((((.......)))).))))))))))..)))))).... ( -34.80)
>DroEre_CAF1 27407 110 - 1
UACUUGUAUGCCUAAGUUACACGAUUCUAUCGAUUUUCGUACACCCACGCUCUCGUGAAUUGGCCAAUCGGGCCCAUAGCCAU---------CGACUGGCUGGCCAAAAGUGCACUACA
(((((....(((.........((((((...(((....(((......)))...))).))))))((((.((((((.....)))..---------))).)))).)))...)))))....... ( -28.10)
>DroYak_CAF1 30611 119 - 1
UACUUGUAUGCCUAAGUUACACGAUUCUAUUGAUUUUCGUACACCCACGCUCUCGUGAAUUGACCAAUCGGGCCCAAAGCCAUCGCUCGCAUCGGCUGGCUGGCCAAAAGUGCACUACA
....(((((((((..((((.((((.((....))...)))).....((((....))))...))))......((((...(((((..(((......))))))))))))...)).))).)))) ( -29.10)
>consensus
UACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGUACACCCACGCUCUCGUGAAUUGGCCAAUCGGGCCCAUAGCCGUCGUAGCCAUCGACUGGCUGGCCAAAAGUGCACUACA
.(((((......)))))...((((.((....))...)))).(((.((((....))))..(((((((...(....)...(((((((.......))).)))))))))))..)))....... (-24.50 = -24.66 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,631,183 – 1,631,302
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 92.90
Mean single sequence MFE -34.04
Consensus MFE -33.74
Energy contribution -33.50
Covariance contribution -0.24
Combinations/Pair 1.13
Mean z-score -1.92
Structure conservation index 0.99
SVM decision value 3.54
SVM RNA-class probability 0.999366
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1631183 119 + 22224390
CUAUGGGCCCGAUUGGCCAAUUCACGAGAGUGUGGGUGUACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUGUACAUACAU
.....((((.....))))....(((....)))((..((((((....((.(((....((((((((((((((((((......)))))))))).))))))))..))).)).))))))..)). ( -39.10)
>DroSec_CAF1 26315 118 + 1
C-AUGGGUCCGAUUGGCCAAUUCACGAGAGCGUGGGUGUACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUAUACAUACAU
(-(((....(((((..(..(((((((....)))))))....)..))))).......((((((((((((((((((......)))))))))).))))))))))))................ ( -33.00)
>DroSim_CAF1 42840 118 + 1
C-AUGGGUCCGAUUGGCCAAUUCACGAGAGCGUGGGUGUACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUAUACAUACAU
(-(((....(((((..(..(((((((....)))))))....)..))))).......((((((((((((((((((......)))))))))).))))))))))))................ ( -33.00)
>DroEre_CAF1 27438 113 + 1
CUAUGGGCCCGAUUGGCCAAUUCACGAGAGCGUGGGUGUACGAAAAUCGAUAGAAUCGUGUAACUUAGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUGUAU------
.....((((.....)))).(((((((....)))))))(((((....((.(((....((((((((((((((((((......)))))))))).))))))))..))).)).)))))------ ( -36.10)
>DroYak_CAF1 30651 113 + 1
CUUUGGGCCCGAUUGGUCAAUUCACGAGAGCGUGGGUGUACGAAAAUCAAUAGAAUCGUGUAACUUAGGCAUACAAGUACGUAUGUUAAAUGUUGCAUGCAUGUGGAAUGUAC------
.....((((.....)))).(((((((....)))))))(((((....((.(((....((((((((((..((((((......))))))..)).))))))))..))).)).)))))------ ( -29.00)
>consensus
CUAUGGGCCCGAUUGGCCAAUUCACGAGAGCGUGGGUGUACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUGUACAUACAU
.....((((.....)))).(((((((....)))))))(((((....((.(((....((((((((((((((((((......)))))))))).))))))))..))).)).)))))...... (-33.74 = -33.50 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,631,222 – 1,631,333
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 91.11
Mean single sequence MFE -30.70
Consensus MFE -26.70
Energy contribution -26.94
Covariance contribution 0.24
Combinations/Pair 1.06
Mean z-score -3.55
Structure conservation index 0.87
SVM decision value 4.42
SVM RNA-class probability 0.999894
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1631222 111 + 22224390
ACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUGUACAUACAUAUAUACGCAUGCCUAUAAUCAUGCUUAUGAG
.((.....))((((....(((((((((((((((((......)))))))))).)))))))(((((((..(((((......))))).)))))))))))..((((....)))). ( -31.40)
>DroSec_CAF1 26353 111 + 1
ACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUAUACAUACAUAUAUACGCAUGCCUAUAAUCAUGCAUAUGAG
.((.....))((((....(((((((((((((((((......)))))))))).)))))))(((((((..(((((......))))).)))))))))))..((((....)))). ( -31.40)
>DroSim_CAF1 42878 111 + 1
ACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUAUACAUACAUAUAUACGCAUGCCUAUAAUCAUGCAUAUGAG
.((.....))((((....(((((((((((((((((......)))))))))).)))))))(((((((..(((((......))))).)))))))))))..((((....)))). ( -31.40)
>DroEre_CAF1 27477 103 + 1
ACGAAAAUCGAUAGAAUCGUGUAACUUAGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUGUAU--------GUAUGCAUGCCAAUAAUCAUGCAUAUAAG
.......((.(((....((((((((((((((((((......)))))))))).))))))))..))).)).....(--------(((((((((........)))))))))).. ( -33.30)
>DroYak_CAF1 30690 103 + 1
ACGAAAAUCAAUAGAAUCGUGUAACUUAGGCAUACAAGUACGUAUGUUAAAUGUUGCAUGCAUGUGGAAUGUAC--------GUACGCAUGCCAAUAAUCAUGCAUAUAAG
((((...((....)).))))(((((((..((((((......))))))..)).)))))((((((((((.((((..--------....)))).))).....)))))))..... ( -26.00)
>consensus
ACGAAAAUCGAUAGAAUCGUGUAACUUGGGCAUACAAGUACGUAUGUUUAAUGUUGCAUGCAUGUGGAAUGUACAUACAUAUAUACGCAUGCCUAUAAUCAUGCAUAUGAG
.......((.(((....((((((((((((((((((......)))))))))).))))))))..))).)).............((((.(((((........))))).)))).. (-26.70 = -26.94 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,631,222 – 1,631,333
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 91.11
Mean single sequence MFE -23.09
Consensus MFE -17.81
Energy contribution -17.89
Covariance contribution 0.08
Combinations/Pair 1.05
Mean z-score -2.13
Structure conservation index 0.77
SVM decision value 1.06
SVM RNA-class probability 0.908581
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1631222 111 - 22224390
CUCAUAAGCAUGAUUAUAGGCAUGCGUAUAUAUGUAUGUACAUUCCACAUGCAUGCAACAUUAAACAUACGUACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGU
.......(((((........)))))(((..(((((((((.......)))))))))..........((((((....)))))).......)))((((.((....))...)))) ( -22.10)
>DroSec_CAF1 26353 111 - 1
CUCAUAUGCAUGAUUAUAGGCAUGCGUAUAUAUGUAUGUAUAUUCCACAUGCAUGCAACAUUAAACAUACGUACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGU
...(((((((((........)))))))))...(((((((((.......))))))))).............(((((((......)))).)))((((.((....))...)))) ( -25.40)
>DroSim_CAF1 42878 111 - 1
CUCAUAUGCAUGAUUAUAGGCAUGCGUAUAUAUGUAUGUAUAUUCCACAUGCAUGCAACAUUAAACAUACGUACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGU
...(((((((((........)))))))))...(((((((((.......))))))))).............(((((((......)))).)))((((.((....))...)))) ( -25.40)
>DroEre_CAF1 27477 103 - 1
CUUAUAUGCAUGAUUAUUGGCAUGCAUAC--------AUACAUUCCACAUGCAUGCAACAUUAAACAUACGUACUUGUAUGCCUAAGUUACACGAUUCUAUCGAUUUUCGU
.........((((..((((((((((((..--------...........))))))))(((.(((..((((((....))))))..))))))............))))..)))) ( -21.32)
>DroYak_CAF1 30690 103 - 1
CUUAUAUGCAUGAUUAUUGGCAUGCGUAC--------GUACAUUCCACAUGCAUGCAACAUUUAACAUACGUACUUGUAUGCCUAAGUUACACGAUUCUAUUGAUUUUCGU
..........(((((...(((((((((((--------(((.........((....))..........)))))))..)))))))..))))).((((.((....))...)))) ( -21.21)
>consensus
CUCAUAUGCAUGAUUAUAGGCAUGCGUAUAUAUGUAUGUACAUUCCACAUGCAUGCAACAUUAAACAUACGUACUUGUAUGCCCAAGUUACACGAUUCUAUCGAUUUUCGU
....((((((((........))))))))......................((((((((................)))))))).........((((.((....))...)))) (-17.81 = -17.89 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:09 2006