Locus 6874

Sequence ID 3L_DroMel_CAF1
Location 18,508,010 – 18,508,141
Length 131
Max. P 0.588159
window11147 window11148 window11149

overview

Window 7

Location 18,508,010 – 18,508,113
Length 103
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.95
Mean single sequence MFE -35.30
Consensus MFE -22.86
Energy contribution -22.62
Covariance contribution -0.24
Combinations/Pair 1.21
Mean z-score -2.04
Structure conservation index 0.65
SVM decision value 0.11
SVM RNA-class probability 0.588159
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18508010 103 - 23771897
-----------UCGCCAGUCUGCGGUCAUUGGCGCUCAACGUCUCGCGGUGA-AAAUACCGUUCAC-ACAAUGCCACCAUUCUGGCCAAUACAAUGGCCAUGGCC---AAGUGUCUGCU
-----------..((((((........))))))((..........((((((.-...))))))..((-((...((((......((((((......)))))))))).---..))))..)). ( -31.20)
>DroSec_CAF1 132548 103 - 1
-----------UCGCCAGUCUGCGGUCAUUGGCGCUCAAUGUCUCGCGGUGA-AAACACCGUCCAC-ACAAUGCCACCAUUCUGGCCAAUACAAUGGCCAUGGUC---AAGUGUCUGCU
-----------..........((((.((((((((.....(((...((((((.-...))))))..))-)...))))((((...((((((......)))))))))).---.)))).)))). ( -34.90)
>DroSim_CAF1 117704 103 - 1
-----------UCACCAGUCUGCGGUCAUUGGCGCUCAAUGUCUCGCGGUGA-AAACACCGUCCAC-ACAAUGCCACCAUUUUGGCCAAUACAAUGGCCAUGGUC---AAGUGUCUGCU
-----------..........((((.((((((((.....(((...((((((.-...))))))..))-)...))))((((...((((((......)))))))))).---.)))).)))). ( -34.90)
>DroEre_CAF1 129691 102 - 1
-----------UCGCCAGUCUGCGGUCAUUGGCG-CCAUCGUCUCGCGGUGA-AAACGCAGUCCAC-ACAAUGCCACCAUUCUGGCCAAUACAAUGGCCAUGGCC---AAGUGUCUGCU
-----------.(((((((........)))))))-.(((((.....))))).-....((((...((-((...((((......((((((......)))))))))).---..)))))))). ( -36.00)
>DroYak_CAF1 133754 103 - 1
-----------UCGCCAGUCUGCGGUCAUUGGCGUCCAUCGUCUCGCGGUGA-AAACGCAGCCCAC-ACAAUGCCUCCAUUCUGGCCAAUACAAUGGCCAUGGCC---AAGUGUCUGCU
-----------.(((((((........)))))))..(((((.....))))).-....((((...((-((...(((.......((((((......)))))).))).---..)))))))). ( -34.20)
>DroAna_CAF1 128194 118 - 1
ACAUAUAUAUAAUGCUUGUUUGCGGUCAUUGGCGCUCAACGUCUCACCGCGGCAAGAAUUGGCCACGACAAUGCCAU-AGAAUGGCCAAUACAAUGGCCCUGACCGUGGAGUGUCUGGU
.........((((.((((((.(((((....((((.....))))..))))))))))).))))((((.((((...(((.-.(...(((((......)))))....)..)))..)))))))) ( -40.60)
>consensus
___________UCGCCAGUCUGCGGUCAUUGGCGCUCAACGUCUCGCGGUGA_AAACACCGUCCAC_ACAAUGCCACCAUUCUGGCCAAUACAAUGGCCAUGGCC___AAGUGUCUGCU
.....................((((.((((((((......((...((.(((.....))).))..)).....)))).((((...(((((......)))))))))......)))).)))). (-22.86 = -22.62 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,508,046 – 18,508,141
Length 95
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 80.91
Mean single sequence MFE -36.48
Consensus MFE -19.91
Energy contribution -19.88
Covariance contribution -0.02
Combinations/Pair 1.30
Mean z-score -2.08
Structure conservation index 0.55
SVM decision value 0.11
SVM RNA-class probability 0.586439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18508046 95 + 23771897
AUGGUGGCAUUGU-GUGAACGGUAUUU-UCACCGCGAGACGUUGAGCGCCAAUGACCGCAGACUGGCGA---------------------UUGGCCUUGGCC-GCAAAUGGCCAUAAAU
...(((((....(-(((..((((....-..))))......((..((.((((((..(((.....)))..)---------------------)))))))..)))-)))....))))).... ( -33.50)
>DroSec_CAF1 132584 95 + 1
AUGGUGGCAUUGU-GUGGACGGUGUUU-UCACCGCGAGACAUUGAGCGCCAAUGACCGCAGACUGGCGA---------------------UUGGCCUUGGCC-GCAAAUGGCCAUAAAU
...(((((....(-((((.(((((...-.))))).......(..((.((((((..(((.....)))..)---------------------)))))))..)))-)))....))))).... ( -36.50)
>DroSim_CAF1 117740 95 + 1
AUGGUGGCAUUGU-GUGGACGGUGUUU-UCACCGCGAGACAUUGAGCGCCAAUGACCGCAGACUGGUGA---------------------UUGGCCUUGGCC-GCAAAUGGCCAUAAAU
...(((((....(-((((.(((((...-.))))).......(..((.((((((.((((.....)))).)---------------------)))))))..)))-)))....))))).... ( -40.30)
>DroEre_CAF1 129727 94 + 1
AUGGUGGCAUUGU-GUGGACUGCGUUU-UCACCGCGAGACGAUGG-CGCCAAUGACCGCAGACUGGCGA---------------------UUGGCCUUGGCC-GCAAAUGGUCAUAAAU
.(((((.((((((-(((((.......)-))))(....))))))).-)))))((((((((......))..---------------------..(((....)))-......)))))).... ( -34.60)
>DroYak_CAF1 133790 95 + 1
AUGGAGGCAUUGU-GUGGGCUGCGUUU-UCACCGCGAGACGAUGGACGCCAAUGACCGCAGACUGGCGA---------------------UUGGCCUUGGCC-GCAAAUGGCCAUAAAU
...(((((....(-((.(((((((...-(((..(((..........)))...))).))))).)).))).---------------------...)))))((((-(....)))))...... ( -32.00)
>DroAna_CAF1 128233 118 + 1
CU-AUGGCAUUGUCGUGGCCAAUUCUUGCCGCGGUGAGACGUUGAGCGCCAAUGACCGCAAACAAGCAUUAUAUAUAUGUAUUAUAGGCGCUGGCCUUGGCCAGAAAAUGACCAUAAAU
.(-((((((((.((.(((((((.(((..(....)..))).(((.((((((.......((......))......((((.....))))))))))))).))))))))).)))).)))))... ( -42.00)
>consensus
AUGGUGGCAUUGU_GUGGACGGUGUUU_UCACCGCGAGACGUUGAGCGCCAAUGACCGCAGACUGGCGA_____________________UUGGCCUUGGCC_GCAAAUGGCCAUAAAU
...(((((.((((.((((..........)))).))))..((((...(((((.((....))...)))))........................(((....)))....))))))))).... (-19.91 = -19.88 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,508,046 – 18,508,141
Length 95
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 80.91
Mean single sequence MFE -31.45
Consensus MFE -17.44
Energy contribution -17.50
Covariance contribution 0.06
Combinations/Pair 1.32
Mean z-score -1.96
Structure conservation index 0.55
SVM decision value 0.01
SVM RNA-class probability 0.540342
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18508046 95 - 23771897
AUUUAUGGCCAUUUGC-GGCCAAGGCCAA---------------------UCGCCAGUCUGCGGUCAUUGGCGCUCAACGUCUCGCGGUGA-AAAUACCGUUCAC-ACAAUGCCACCAU
.....(((((......-))))).(((...---------------------.(((((((........)))))))......((...((((((.-...))))))..))-.....)))..... ( -27.90)
>DroSec_CAF1 132584 95 - 1
AUUUAUGGCCAUUUGC-GGCCAAGGCCAA---------------------UCGCCAGUCUGCGGUCAUUGGCGCUCAAUGUCUCGCGGUGA-AAACACCGUCCAC-ACAAUGCCACCAU
.....(((((......-)))))..(((((---------------------(.(((.......))).))))))((....(((...((((((.-...))))))..))-)....))...... ( -31.80)
>DroSim_CAF1 117740 95 - 1
AUUUAUGGCCAUUUGC-GGCCAAGGCCAA---------------------UCACCAGUCUGCGGUCAUUGGCGCUCAAUGUCUCGCGGUGA-AAACACCGUCCAC-ACAAUGCCACCAU
.....(((((......-)))))..(((((---------------------(.(((.......))).))))))((....(((...((((((.-...))))))..))-)....))...... ( -31.50)
>DroEre_CAF1 129727 94 - 1
AUUUAUGACCAUUUGC-GGCCAAGGCCAA---------------------UCGCCAGUCUGCGGUCAUUGGCG-CCAUCGUCUCGCGGUGA-AAACGCAGUCCAC-ACAAUGCCACCAU
....((((((......-(((....)))..---------------------..((......))))))))(((((-.(((((.....))))).-.......((....-))..))))).... ( -25.20)
>DroYak_CAF1 133790 95 - 1
AUUUAUGGCCAUUUGC-GGCCAAGGCCAA---------------------UCGCCAGUCUGCGGUCAUUGGCGUCCAUCGUCUCGCGGUGA-AAACGCAGCCCAC-ACAAUGCCUCCAU
.....(((((......-)))))(((((((---------------------(.(((.......))).))))((((.(((((.....))))).-..)))).......-.....)))).... ( -29.40)
>DroAna_CAF1 128233 118 - 1
AUUUAUGGUCAUUUUCUGGCCAAGGCCAGCGCCUAUAAUACAUAUAUAUAAUGCUUGUUUGCGGUCAUUGGCGCUCAACGUCUCACCGCGGCAAGAAUUGGCCACGACAAUGCCAU-AG
...(((((.((((.((((((((((((....))))...................((((((.(((((....((((.....))))..)))))))))))...)))))).)).))))))))-). ( -42.90)
>consensus
AUUUAUGGCCAUUUGC_GGCCAAGGCCAA_____________________UCGCCAGUCUGCGGUCAUUGGCGCUCAACGUCUCGCGGUGA_AAACACCGUCCAC_ACAAUGCCACCAU
.....(((((.......))))).(((.........................(((((((........)))))))......((...((.(((.....))).)).....))...)))..... (-17.44 = -17.50 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:54 2006