Locus 10042

Sequence ID 3R_DroMel_CAF1
Location 26,894,978 – 26,895,083
Length 105
Max. P 0.579119
window15993 window15994

overview

Window 3

Location 26,894,978 – 26,895,083
Length 105
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 84.36
Mean single sequence MFE -34.30
Consensus MFE -27.24
Energy contribution -26.84
Covariance contribution -0.40
Combinations/Pair 1.22
Mean z-score -1.55
Structure conservation index 0.79
SVM decision value 0.09
SVM RNA-class probability 0.579119
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26894978 105 + 27905053
UCAAUGGCUCAGCAGCCAUUCCGUUUGGAAUCCCCGU--------------CCUGUAUCCAUUUCGCAUCUCAGUGUGUGCUUCUGGCGGCACUGGGAAUCCUGUGGCCGCUGUUUCCA
....(((..((((.(((((.......(((.((((.((--------------.((((........(((((....)))))........)))).)).)))).))).))))).))))...))) ( -36.19)
>DroSec_CAF1 3775 105 + 1
UCAAUGGCUCAGCAGCCAUUCCGUUUGGAAUCCCCGU--------------CCUGUAUCCAUUCCGCAUCUCGGUGCGUUUUUCUGGCGGCACUGGGAAUCCUGUGGCCGCUGUUUCCA
....(((..((((.(((((.......(((.((((.((--------------.((((........(((((....)))))........)))).)).)))).))).))))).))))...))) ( -38.89)
>DroSim_CAF1 4579 105 + 1
UCAAUGGCUCAGCAGCCAUUCCGUUUGGAAUCCCCGU--------------CCUGUAUCCAUUCCGCAUCUCGGUGCGUGUUUCUGGCGGCACUGGGAAUCCUGUGGCCGCUGUUUCCA
....(((..((((.(((((.......(((.((((.((--------------.((((........(((((....)))))........)))).)).)))).))).))))).))))...))) ( -38.89)
>DroEre_CAF1 3846 96 + 1
UCAAUGGCUCAGCAGCCAUUCCGCUUCGAGU--------------------CCUGUAUUCAUUUCGCAUUUCAGUGUGCA---CUGGCGGCACUGGGAAUCCUGUGGUCGCAGUUUCCG
..(((((((....)))))))(((((..((((--------------------.....)))).....((((......)))).---..))))).....((((..((((....)))).)))). ( -27.40)
>DroYak_CAF1 3996 119 + 1
UCAAUGGCUCAGCAGCCAUUCCGUUUCGAAUCCCCGUUCCCGUCCCCGUAUCCUGCAUCCUUUCCACAUCUCAGUGUGUGUUUCUGGCGGCACUGGGAAUCCUGUGGCCGCCGUUUCCA
..((((((...((((............((((....)))).............)))).......((((((((((((((.(((.....))))))))))))....)))))..)))))).... ( -30.11)
>consensus
UCAAUGGCUCAGCAGCCAUUCCGUUUGGAAUCCCCGU______________CCUGUAUCCAUUCCGCAUCUCAGUGUGUGUUUCUGGCGGCACUGGGAAUCCUGUGGCCGCUGUUUCCA
..(((((((....))))))).....(((((..................................(((((....))))).......((((((((.((....)).)).))))))..))))) (-27.24 = -26.84 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 26,894,978 – 26,895,083
Length 105
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 84.36
Mean single sequence MFE -36.46
Consensus MFE -22.78
Energy contribution -23.82
Covariance contribution 1.04
Combinations/Pair 1.16
Mean z-score -1.85
Structure conservation index 0.62
SVM decision value -0.03
SVM RNA-class probability 0.517851
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26894978 105 - 27905053
UGGAAACAGCGGCCACAGGAUUCCCAGUGCCGCCAGAAGCACACACUGAGAUGCGAAAUGGAUACAGG--------------ACGGGGAUUCCAAACGGAAUGGCUGCUGAGCCAUUGA
(((...(((((((((......((((.((.((.(((...((((.......).)))....))).....))--------------)).))))((((....)))))))))))))..))).... ( -37.70)
>DroSec_CAF1 3775 105 - 1
UGGAAACAGCGGCCACAGGAUUCCCAGUGCCGCCAGAAAAACGCACCGAGAUGCGGAAUGGAUACAGG--------------ACGGGGAUUCCAAACGGAAUGGCUGCUGAGCCAUUGA
(((...(((((((((......((((.((.((.(((......((((......))))...))).....))--------------)).))))((((....)))))))))))))..))).... ( -39.60)
>DroSim_CAF1 4579 105 - 1
UGGAAACAGCGGCCACAGGAUUCCCAGUGCCGCCAGAAACACGCACCGAGAUGCGGAAUGGAUACAGG--------------ACGGGGAUUCCAAACGGAAUGGCUGCUGAGCCAUUGA
(((...(((((((((......((((.((.((.(((......((((......))))...))).....))--------------)).))))((((....)))))))))))))..))).... ( -39.60)
>DroEre_CAF1 3846 96 - 1
CGGAAACUGCGACCACAGGAUUCCCAGUGCCGCCAG---UGCACACUGAAAUGCGAAAUGAAUACAGG--------------------ACUCGAAGCGGAAUGGCUGCUGAGCCAUUGA
.((((.(((......)))..)))).....(((((((---(....)))).....(((..((....))..--------------------..)))..))))(((((((....))))))).. ( -25.00)
>DroYak_CAF1 3996 119 - 1
UGGAAACGGCGGCCACAGGAUUCCCAGUGCCGCCAGAAACACACACUGAGAUGUGGAAAGGAUGCAGGAUACGGGGACGGGAACGGGGAUUCGAAACGGAAUGGCUGCUGAGCCAUUGA
(((...(((((((((..((((((((..(((..((.....((((........))))....))..))).....((....)).....)))))))).........)))))))))..))).... ( -40.40)
>consensus
UGGAAACAGCGGCCACAGGAUUCCCAGUGCCGCCAGAAACACACACUGAGAUGCGGAAUGGAUACAGG______________ACGGGGAUUCCAAACGGAAUGGCUGCUGAGCCAUUGA
.((...(((((((((..((((((((.(((............))).(((.....)))............................)))))))).........)))))))))..))..... (-22.78 = -23.82 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:47:34 2006