Locus 7348

Sequence ID X_DroMel_CAF1
Location 18,338,650 – 18,338,804
Length 154
Max. P 0.996027
window12042 window12043 window12044 window12045

overview

Window 2

Location 18,338,650 – 18,338,770
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.67
Mean single sequence MFE -39.36
Consensus MFE -37.34
Energy contribution -37.58
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.96
Structure conservation index 0.95
SVM decision value 2.64
SVM RNA-class probability 0.996027
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18338650 120 + 22224390
GGGACUUGAGGCCGAGAUAUAUCCAUGUCGGCACUCCUUGCAACCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACACAGCACGCAAGAGCCACAAUAGAAAGUGCC
((.((((((((((((.((......)).))))).)))(((((.....(((((((((....)))......))))))..((((............)))))))))............)))).)) ( -37.40)
>DroSec_CAF1 16596 120 + 1
GGGACUUGAGGCCGAGGUAUAUCCAUGUCGGCACUCCUUGCAACCCAACUGUGGCAUAUGCCUCUCUCGCGGUUAAGUGCAACAUACACACUGCACGCAAGAGCCACAAUAGAAAGUGCC
((.((((((((((((.((......)).))))).)))((((((((((....(.(((....))).)....).))))..(((((..........))))))))))............)))).)) ( -39.40)
>DroSim_CAF1 16423 120 + 1
GGGACUUGAGGCCGAGGUAUAUCCAUGUCGGCACUCCUUGCAACCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACACUGCACGCAAGAGCCACAAUAGAAAGUGCC
((.((((((((((((.((......)).))))).)))(((((.....(((((((((....)))......))))))..(((((..........))))))))))............)))).)) ( -39.00)
>DroEre_CAF1 16219 120 + 1
GGGACUUGAGGCCGAGGUAUAUCCAUGUCGGCACUCCUUGCAAUCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACAUUGCACGCAAGAGCCACAAUAGAAAGUGCC
((.((((((((((((.((......)).))))).)))(((((.....(((((((((....)))......))))))..((((((........)))))))))))............)))).)) ( -40.40)
>DroYak_CAF1 16632 120 + 1
GGGACUUGAGGCCGAGGUAUAUCCAUGUCGGCACUCCUUGCAAUCCAACUGUGGCAUAUGCACCUCUCGCGGUUAAGUGCAACAUACACAUUGCACGCAAGAGCCACAAUAGAAAGUGCC
((.((((((((((((.((......)).))))).))).............((((((...((((((......)))...((((((........)))))))))...)))))).....)))).)) ( -40.60)
>consensus
GGGACUUGAGGCCGAGGUAUAUCCAUGUCGGCACUCCUUGCAACCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACACUGCACGCAAGAGCCACAAUAGAAAGUGCC
((.((((((((((((.((......)).))))).)))(((((.....(((((((((....)))......))))))..(((((..........))))))))))............)))).)) (-37.34 = -37.58 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,338,650 – 18,338,770
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.67
Mean single sequence MFE -44.46
Consensus MFE -41.20
Energy contribution -40.76
Covariance contribution -0.44
Combinations/Pair 1.09
Mean z-score -1.78
Structure conservation index 0.93
SVM decision value 1.92
SVM RNA-class probability 0.982627
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18338650 120 - 22224390
GGCACUUUCUAUUGUGGCUCUUGCGUGCUGUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGGUUGCAAGGAGUGCCGACAUGGAUAUAUCUCGGCCUCAAGUCCC
((.((((....(((..((((......((((((((((((((.(.(((......))).).)))))))).)))))).))))..))).(((.(((((.(((....))).)))))))))))))). ( -42.90)
>DroSec_CAF1 16596 120 - 1
GGCACUUUCUAUUGUGGCUCUUGCGUGCAGUGUGUAUGUUGCACUUAACCGCGAGAGAGGCAUAUGCCACAGUUGGGUUGCAAGGAGUGCCGACAUGGAUAUACCUCGGCCUCAAGUCCC
.((((((...(((((..((((((((...((((((.....))))))....)))))))).(((....)))))))).))).)))...(((.(((((...((.....))))))))))....... ( -41.90)
>DroSim_CAF1 16423 120 - 1
GGCACUUUCUAUUGUGGCUCUUGCGUGCAGUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGGUUGCAAGGAGUGCCGACAUGGAUAUACCUCGGCCUCAAGUCCC
.((((((...((((((((...(((((((((........))))))....((.(....))))))...)))))))).))).)))...(((.(((((...((.....))))))))))....... ( -44.10)
>DroEre_CAF1 16219 120 - 1
GGCACUUUCUAUUGUGGCUCUUGCGUGCAAUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGAUUGCAAGGAGUGCCGACAUGGAUAUACCUCGGCCUCAAGUCCC
.(((..(((.((((((((...((((((((((......)))))))....((.(....))))))...)))))))).))).)))...(((.(((((...((.....))))))))))....... ( -46.90)
>DroYak_CAF1 16632 120 - 1
GGCACUUUCUAUUGUGGCUCUUGCGUGCAAUGUGUAUGUUGCACUUAACCGCGAGAGGUGCAUAUGCCACAGUUGGAUUGCAAGGAGUGCCGACAUGGAUAUACCUCGGCCUCAAGUCCC
.(((..(((.((((((((...((((((((((......)))))))...(((......))))))...)))))))).))).)))...(((.(((((...((.....))))))))))....... ( -46.50)
>consensus
GGCACUUUCUAUUGUGGCUCUUGCGUGCAGUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGGUUGCAAGGAGUGCCGACAUGGAUAUACCUCGGCCUCAAGUCCC
.(((..(((.((((((((...((((((((((......))))))).....(....)....)))...)))))))).))).)))...(((.(((((...((.....))))))))))....... (-41.20 = -40.76 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,338,690 – 18,338,804
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.70
Mean single sequence MFE -29.50
Consensus MFE -24.19
Energy contribution -24.75
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.81
Structure conservation index 0.82
SVM decision value 0.43
SVM RNA-class probability 0.733004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18338690 114 + 22224390
CAACCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACACAGCACGCAAGAGCCACAAUAGAAAGUGCCUUUUUCUGUAGCAACUCAUUAUCGCUUUGGAGUA------
..((((((.((((((.........(((.((((((..(((.......)))..))).))).)))))))))((((((((.....)))))))).................)))).)).------ ( -26.90)
>DroSec_CAF1 16636 113 + 1
CAACCCAACUGUGGCAUAUGCCUCUCUCGCGGUUAAGUGCAACAUACACACUGCACGCAAGAGCCACAAUAGAAAGUGCCUUUUUCUGUAGCAACUCAUUAUCGCUAU-GAGUA------
.........((((((.............(((((...(((.......)))))))).(....).))))))((((((((.....))))))))....((((((.......))-)))).------ ( -29.50)
>DroEre_CAF1 16259 113 + 1
CAAUCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACAUUGCACGCAAGAGCCACAAUAGAAAGUGCCUUUUUCUGUAGCAAUUCAUUAUCGCUAU-GAGUA------
.........((((((...(((.((......))....((((((........)))))))))...))))))((((((((.....))))))))....((((((.......))-)))).------ ( -28.40)
>DroYak_CAF1 16672 119 + 1
CAAUCCAACUGUGGCAUAUGCACCUCUCGCGGUUAAGUGCAACAUACACAUUGCACGCAAGAGCCACAAUAGAAAGUGCCUUUUUCUGUAGCAAUUCAUUGUUGCUAU-GAGUAUGAGUA
.........((((((...((((((......)))...((((((........)))))))))...))))))..((((((.....))))))((((((((.....))))))))-........... ( -33.20)
>consensus
CAACCCAACUGUGGCAUAUGCCCCUCUCGCGGUUAAGUGCAACAUACACACUGCACGCAAGAGCCACAAUAGAAAGUGCCUUUUUCUGUAGCAACUCAUUAUCGCUAU_GAGUA______
.........((((((...(((.((......))....((((((........)))))))))...))))))((((((((.....))))))))(((...........))).............. (-24.19 = -24.75 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,338,690 – 18,338,804
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.70
Mean single sequence MFE -35.02
Consensus MFE -30.44
Energy contribution -30.38
Covariance contribution -0.06
Combinations/Pair 1.13
Mean z-score -1.67
Structure conservation index 0.87
SVM decision value 0.51
SVM RNA-class probability 0.764570
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18338690 114 - 22224390
------UACUCCAAAGCGAUAAUGAGUUGCUACAGAAAAAGGCACUUUCUAUUGUGGCUCUUGCGUGCUGUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGGUUG
------...(((((.((((((..((((.(((.........)))))))..))))))..((((((((.(.((.((((.....)))).)).))))))))).(((....)))....)))))... ( -34.50)
>DroSec_CAF1 16636 113 - 1
------UACUC-AUAGCGAUAAUGAGUUGCUACAGAAAAAGGCACUUUCUAUUGUGGCUCUUGCGUGCAGUGUGUAUGUUGCACUUAACCGCGAGAGAGGCAUAUGCCACAGUUGGGUUG
------.((((-(..((((((..((((.(((.........)))))))..))))))..((((((((...((((((.....))))))....)))))))).(((....))).....))))).. ( -34.70)
>DroEre_CAF1 16259 113 - 1
------UACUC-AUAGCGAUAAUGAAUUGCUACAGAAAAAGGCACUUUCUAUUGUGGCUCUUGCGUGCAAUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGAUUG
------.....-.(((((((.....)))))))............(..(((((((((((...((((((((((......)))))))....((.(....))))))...))))))).))))..) ( -36.40)
>DroYak_CAF1 16672 119 - 1
UACUCAUACUC-AUAGCAACAAUGAAUUGCUACAGAAAAAGGCACUUUCUAUUGUGGCUCUUGCGUGCAAUGUGUAUGUUGCACUUAACCGCGAGAGGUGCAUAUGCCACAGUUGGAUUG
...........-.((((((.......))))))............(..(((((((((((...((((((((((......)))))))...(((......))))))...))))))).))))..) ( -34.50)
>consensus
______UACUC_AUAGCGAUAAUGAAUUGCUACAGAAAAAGGCACUUUCUAUUGUGGCUCUUGCGUGCAAUGUGUAUGUUGCACUUAACCGCGAGAGGGGCAUAUGCCACAGUUGGAUUG
.............(((((((.....)))))))............(..(((((((((((...((((((((((......))))))).....(....)....)))...))))))).))))..) (-30.44 = -30.38 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:44 2006