Locus 3222

Sequence ID 3L_DroMel_CAF1
Location 9,405,032 – 9,405,169
Length 137
Max. P 0.984509
window5017 window5018

overview

Window 7

Location 9,405,032 – 9,405,134
Length 102
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 74.81
Mean single sequence MFE -34.52
Consensus MFE -25.88
Energy contribution -24.77
Covariance contribution -1.11
Combinations/Pair 1.32
Mean z-score -2.00
Structure conservation index 0.75
SVM decision value 1.98
SVM RNA-class probability 0.984509
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9405032 102 + 23771897
GCCAGUCUGAGC------GAUAUCACCGCCCAGGUGUUCAAUCUGGAUGACAUCUGCUUCACGCUGGAAUACCAGUUCGAGAACCAGAGGCUCGUCCAAGUCCAGCCG
....(.(((..(------((...((((.....)))).))....(((((((..((((.(((.((((((....))))..)).))).))))...))))))).)..))).). ( -33.40)
>DroPse_CAF1 1891 108 + 1
GCCACCGUCAGCACAGAGGACAGCAGCAGCCAGGUCUACAACCUGGACGAUAUUUGCUUCACGCUGGAAUAUCAGUUCCAGAACCAAAAGCUCGUCCAGGUUCAGCCG
..........((...(.((((.((....))...)))).)(((((((((((.....((((....(((((((....)))))))......)))))))))))))))..)).. ( -36.00)
>DroGri_CAF1 1858 87 + 1
GCAACAAUGGGC---------------------ACAUAUAAUCUGGAUGAUAUUUGCUUUACGUUGGAAUAUCAGUUUCUAAAUCAGAAGCUCGUCCAGGUGCAGCCA
.........(((---------------------.......((((((((((.....(((((...((((((.......))))))....)))))))))))))))...))). ( -25.00)
>DroYak_CAF1 866 102 + 1
GCCAGUCUGAGC------GAUAGCACCGCACAGGUGUUCAAUCUGGAUGACAUCUGCUUCACGCUGGAGUACCAGUUCGAGAACCAGAGGCUCGUCCAGGUCCAGCCG
....(.(((..(------((..(((((.....)))))))...((((((((..((((.(((.((((((....))))..)).))).))))...)))))))))..))).). ( -37.00)
>DroAna_CAF1 1825 102 + 1
GCCACACUGAGC------GAGGACACUGGCCAGGUGCUCAACCUGGACGACAUCUGCUUCACCCUGGAGUACCAGUUCGAGAACCAGAAACUCGUCCAGGUCCAGCCG
...((.(((.((------.((....)).)))))))(((..((((((((((..((((.(((.(.((((....))))...).))).))))...))))))))))..))).. ( -40.60)
>DroPer_CAF1 8475 108 + 1
GCCACCGUCAGCACAGAGGACAGCAGCAGCCAGGUCUACAACCUGGACGAUAUUUGCUUCAAGCUGGAAUAUCAGUUCCAGAACCAAAAGCUCGUCCAGGUCCAGCCG
..........((...(.((((.((....))...)))).).((((((((((.....((((....(((((((....)))))))......))))))))))))))...)).. ( -35.10)
>consensus
GCCACACUGAGC______GACAGCACCGGCCAGGUGUACAACCUGGACGACAUCUGCUUCACGCUGGAAUACCAGUUCCAGAACCAGAAGCUCGUCCAGGUCCAGCCG
................................(((.....((((((((((..((((.(((..(((((....)))))....))).))))...))))))))))...))). (-25.88 = -24.77 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 9,405,054 – 9,405,169
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.66
Mean single sequence MFE -35.73
Consensus MFE -25.08
Energy contribution -24.42
Covariance contribution -0.66
Combinations/Pair 1.40
Mean z-score -2.10
Structure conservation index 0.70
SVM decision value 1.89
SVM RNA-class probability 0.981545
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9405054 115 + 23771897
CCCAGGUGUUCAAUCUGGAUGACAUCUGCUUCACGCUGGAAUACCAGUUCGAGAACCAGAGGCUCGUCCAAGUCCAGCCGCCCACUGUGGUCUCGCUCAGCAUGGUGUCCAGCCC-----
.((((((.....))))))................((((((.(((((((((((((.((((.((((.(.......).)))).....))).).)))))...))).)))))))))))..----- ( -38.20)
>DroPse_CAF1 1919 115 + 1
GCCAGGUCUACAACCUGGACGAUAUUUGCUUCACGCUGGAAUAUCAGUUCCAGAACCAAAAGCUCGUCCAGGUUCAGCCGCCAACUGUGGUGUCCUUGAGCAUGCUAACCACAUC-----
((((((.....(((((((((((.....((((....(((((((....)))))))......)))))))))))))))..(((((.....)))))...)))).))..............----- ( -40.20)
>DroGri_CAF1 1870 107 + 1
-----ACAUAUAAUCUGGAUGAUAUUUGCUUUACGUUGGAAUAUCAGUUUCUAAAUCAGAAGCUCGUCCAGGUGCAGCCACCCACAGUGGUGUCGUUCAGCAUGUUAUCGCC--------
-----....((((((((((((((((..(((.(((.(((((.....(((((((.....)))))))..)))))))).)))(((.....))))))))))))))...)))))....-------- ( -29.30)
>DroWil_CAF1 772 120 + 1
AACAGGUUUAUAAUUUGGAUGACAUAUGCUUCACCUUGGAAUAUCAAUUUCAAAAUCAAAAACUUGUCCAAGUCCAGCCACCCACAGUGGUAUCGCUCAGCAUGCUGGCCGCCUCAUCCU
...((((........(((((((((...........(((((((....)))))))...........))))...)))))(((((.....)))))...((.(((....))))).))))...... ( -25.05)
>DroAna_CAF1 1847 115 + 1
GCCAGGUGCUCAACCUGGACGACAUCUGCUUCACCCUGGAGUACCAGUUCGAGAACCAGAAACUCGUCCAGGUCCAGCCGCCCACCGUCGUCUCGCUUAGCAUGAUGGCCCCCGC-----
....((((((..((((((((((..((((.(((.(.((((....))))...).))).))))...))))))))))..)).))))..(((((((((.....)).))))))).......----- ( -42.30)
>DroPer_CAF1 8503 115 + 1
GCCAGGUCUACAACCUGGACGAUAUUUGCUUCAAGCUGGAAUAUCAGUUCCAGAACCAAAAGCUCGUCCAGGUCCAGCCGCCAACUGUGGUGUCCUUGAGCAUGCUAACCACAUC-----
((((((......((((((((((.....((((....(((((((....)))))))......))))))))))))))...(((((.....)))))...)))).))..............----- ( -39.30)
>consensus
GCCAGGUCUACAACCUGGACGACAUUUGCUUCACGCUGGAAUAUCAGUUCCAGAACCAAAAGCUCGUCCAGGUCCAGCCGCCCACUGUGGUGUCGCUCAGCAUGCUAACCACCUC_____
....(((.....((((((((((..((((.(((..(((((....)))))....))).))))...))))))))))...(((((.....)))))................))).......... (-25.08 = -24.42 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:26 2006