Locus 224

Sequence ID 2R_DroMel_CAF1
Location 1,561,624 – 1,561,768
Length 144
Max. P 0.976197
window499 window500 window501

overview

Window 9

Location 1,561,624 – 1,561,744
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.75
Mean single sequence MFE -38.38
Consensus MFE -33.74
Energy contribution -34.78
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 0.88
SVM decision value 1.77
SVM RNA-class probability 0.976197
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1561624 120 + 20766785
GAUAUAUAAAACUGAUUAAUGUCGGCACUGGUUAUUAAUGGCCAUAAGGCUGCAGAGGCCCAGAGCACAGGCUCAUGCUCUGAUUGCGGUGAAGAUGAGCUUGGGCGAGCAGCAUAAUUA
...........(((((....)))))...((((((....))))))....(((((....(((((((((....))))..((((...((......))...)))).)))))..)))))....... ( -35.40)
>DroSec_CAF1 11365 120 + 1
GAUAUAUAAAACUGAUUAAUGUCGGCACUGGUUAUUAAUGGCCAUAAGGCUGCAGAGGCCCAGUGCUCAUUCUCAUGCUCUGAUUGCGGUGAAGAUGAGCUCGGGCGAGCAGCAUAAUUA
...........(((((....)))))...((((((....))))))....(((((....((((.(.((((((..((((((.......)).))))..)))))).)))))..)))))....... ( -40.60)
>DroSim_CAF1 12898 120 + 1
GAUAUAUAAAACUGAUUAAUGUCGGCACUGGUUAUUAAUGGCCAUAAGGCUGCAGAGGCCCAGUGCUCAGGCUCAUGCUCUGAUUGCGGUGAAGAUGAGCUCGGGCGAGCAGCAUAAUUA
...........(((((....)))))...((((((....))))))....(((((....((((.(.(((((...((((((.......)).))))...))))).)))))..)))))....... ( -37.00)
>DroEre_CAF1 11740 120 + 1
GAUAUAUAAAACUGAUUAAUGUCGGCGCUGGUUAUUAAUGGCCAUAAGGCUGCGGAGGCCCAGUGCCCAGGCUCAUGCUCUGAUUGCGCCGAAGAUGAGCUUGGGCGAGCAGCAUAAUUA
...........(((((....)))))...((((((....))))))....(((((((....))..(((((((((((((.((.((.......)).))))))))))))))).)))))....... ( -42.70)
>DroYak_CAF1 17728 120 + 1
GAUAUAUAAAACUGAUUAAUGUCGGCGCUGGUUAUUAAUGACCAUAAGGCAGCAGAGGCCCAGUGCUCAGGCUCAUGCUCUGAUUGCGGUGAAGAUGAGCUUGGGCGAGCAGCAUAAUUA
...........(((((....))))).((((.((..............(((.......)))....((((((((((((.(.(((....))).)...)))))))))))))).))))....... ( -36.20)
>consensus
GAUAUAUAAAACUGAUUAAUGUCGGCACUGGUUAUUAAUGGCCAUAAGGCUGCAGAGGCCCAGUGCUCAGGCUCAUGCUCUGAUUGCGGUGAAGAUGAGCUUGGGCGAGCAGCAUAAUUA
...........(((((....)))))...((((((....))))))....(((((....((((((.(((((...((((((.......))).)))...)))))))))))..)))))....... (-33.74 = -34.78 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,561,624 – 1,561,744
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.75
Mean single sequence MFE -30.80
Consensus MFE -28.26
Energy contribution -27.98
Covariance contribution -0.28
Combinations/Pair 1.15
Mean z-score -1.55
Structure conservation index 0.92
SVM decision value 1.50
SVM RNA-class probability 0.959631
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1561624 120 - 20766785
UAAUUAUGCUGCUCGCCCAAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGUGCUCUGGGCCUCUGCAGCCUUAUGGCCAUUAAUAACCAGUGCCGACAUUAAUCAGUUUUAUAUAUC
.......(((((..((((((((.((..((((..((.......)).))))..)).))).)))))....)))))....((((.(((.......)))))))...................... ( -29.40)
>DroSec_CAF1 11365 120 - 1
UAAUUAUGCUGCUCGCCCGAGCUCAUCUUCACCGCAAUCAGAGCAUGAGAAUGAGCACUGGGCCUCUGCAGCCUUAUGGCCAUUAAUAACCAGUGCCGACAUUAAUCAGUUUUAUAUAUC
.......(((((..(((((.((((((..(((..((.......)).)))..))))))..)))))....)))))....((((.(((.......)))))))...................... ( -32.50)
>DroSim_CAF1 12898 120 - 1
UAAUUAUGCUGCUCGCCCGAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGAGCACUGGGCCUCUGCAGCCUUAUGGCCAUUAAUAACCAGUGCCGACAUUAAUCAGUUUUAUAUAUC
.......(((((..(((((.(((((..((((..((.......)).))))..)))))..)))))....)))))....((((.(((.......)))))))...................... ( -30.70)
>DroEre_CAF1 11740 120 - 1
UAAUUAUGCUGCUCGCCCAAGCUCAUCUUCGGCGCAAUCAGAGCAUGAGCCUGGGCACUGGGCCUCCGCAGCCUUAUGGCCAUUAAUAACCAGCGCCGACAUUAAUCAGUUUUAUAUAUC
.....((((.((..(((((.((((((((..((.....))..)).)))))).))))).((((((....)).(((....))).........)))).)).).))).................. ( -33.80)
>DroYak_CAF1 17728 120 - 1
UAAUUAUGCUGCUCGCCCAAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGAGCACUGGGCCUCUGCUGCCUUAUGGUCAUUAAUAACCAGCGCCGACAUUAAUCAGUUUUAUAUAUC
.......((((...(((((.(((((..((((..((.......)).))))..)))))..))))).((.((.((....((((........)))))))).)).......)))).......... ( -27.60)
>consensus
UAAUUAUGCUGCUCGCCCAAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGAGCACUGGGCCUCUGCAGCCUUAUGGCCAUUAAUAACCAGUGCCGACAUUAAUCAGUUUUAUAUAUC
.......(((((..(((((.(((((..((((..((.......)).))))..)))))..)))))....)))))....(((((...........).))))...................... (-28.26 = -27.98 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,561,664 – 1,561,768
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.32
Mean single sequence MFE -37.56
Consensus MFE -29.14
Energy contribution -29.06
Covariance contribution -0.08
Combinations/Pair 1.14
Mean z-score -1.69
Structure conservation index 0.78
SVM decision value 0.39
SVM RNA-class probability 0.718113
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1561664 104 - 20766785
CUCCGGGCGGC----------------AAGGACAUCACCCUAAUUAUGCUGCUCGCCCAAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGUGCUCUGGGCCUCUGCAGCCUUAUGGC
....(((((((----------------((((.......))).....))))))))((((((((.((..((((..((.......)).))))..)).))).))))).......(((....))) ( -34.90)
>DroSec_CAF1 11405 104 - 1
CUCCGGGCGAC----------------AAGGACUUCACCCUAAUUAUGCUGCUCGCCCGAGCUCAUCUUCACCGCAAUCAGAGCAUGAGAAUGAGCACUGGGCCUCUGCAGCCUUAUGGC
..(((((.((.----------------.......)).))).......(((((..(((((.((((((..(((..((.......)).)))..))))))..)))))....))))).....)). ( -35.50)
>DroSim_CAF1 12938 104 - 1
CUCCGGGCGGC----------------AAGGACAUCACCCUAAUUAUGCUGCUCGCCCGAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGAGCACUGGGCCUCUGCAGCCUUAUGGC
....(((((((----------------((((.......))).....))))))))(((((.(((((..((((..((.......)).))))..)))))..))))).......(((....))) ( -36.20)
>DroEre_CAF1 11780 120 - 1
CUCCGGGCGGCAAGGAGGCAAGGAGGCAAGGACAUCACCCUAAUUAUGCUGCUCGCCCAAGCUCAUCUUCGGCGCAAUCAGAGCAUGAGCCUGGGCACUGGGCCUCCGCAGCCUUAUGGC
..(((...(((..((((((..((.(((((((.......))).....))))....(((((.((((((((..((.....))..)).)))))).))))).))..))))))...)))...))). ( -48.00)
>DroYak_CAF1 17768 104 - 1
CUCUGUGCGGC----------------AAGGACAUCAUCCUAAUUAUGCUGCUCGCCCAAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGAGCACUGGGCCUCUGCUGCCUUAUGGU
....(.(((((----------------(((((.....)))).....)))))).)(((((.(((((..((((..((.......)).))))..)))))..))))).......(((....))) ( -33.20)
>consensus
CUCCGGGCGGC________________AAGGACAUCACCCUAAUUAUGCUGCUCGCCCAAGCUCAUCUUCACCGCAAUCAGAGCAUGAGCCUGAGCACUGGGCCUCUGCAGCCUUAUGGC
....(((((((.................(((.......)))......)))))))(((((.(((((..((((..((.......)).))))..)))))..))))).......(((....))) (-29.14 = -29.06 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:57 2006