Locus 6823

Sequence ID 3R_DroMel_CAF1
Location 18,039,946 – 18,040,060
Length 114
Max. P 0.999958
window11077 window11078

overview

Window 7

Location 18,039,946 – 18,040,060
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 93.86
Mean single sequence MFE -53.73
Consensus MFE -51.62
Energy contribution -51.87
Covariance contribution 0.25
Combinations/Pair 1.05
Mean z-score -2.89
Structure conservation index 0.96
SVM decision value 4.88
SVM RNA-class probability 0.999958
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18039946 114 + 27905053
ACUUUGGAGGGCGAGCAGCCGCUGGACUCGGACUUUGAUCAGCGCCAGGAAUUUGCUGACUUGGGUCUGGAUCCAGCCAAUGGCGGCUUCUCCUCCGACCUGGAGCCGAACGGU
...((((((((.((((.(((((((((..(((((((...((((((.........))))))...)))))))..))))))....))).)))).))))))))......(((....))) ( -52.70)
>DroSec_CAF1 82435 114 + 1
ACUUUGGAGGGCGAGCAGCCGCUGGACUCGGACUUUGAUCAGCGCCAGGAAUUUGCUGACUUGGGUCUGGAUCCAGCUAAUGGCGGCUUCUCCUCCGACCUGGAGCCGACCGGU
...((((((((.((((.(((((((((..(((((((...((((((.........))))))...)))))))..))))))....))).)))).)))))))).((((......)))). ( -54.10)
>DroSim_CAF1 84299 114 + 1
ACUUUGGAGGGCGAGCAGCCGCUGGACUCGGACUUUGAUCAGCGCCAGGAAUUUGCUGACUUGGGUCUGGAUCCAGCUAAUGGCGGCUUCUCCUCCGACCUGGAGCCAACCGGU
...((((((((.((((.(((((((((..(((((((...((((((.........))))))...)))))))..))))))....))).)))).)))))))).((((......)))). ( -54.10)
>DroEre_CAF1 84544 114 + 1
ACUUUGGAGGGCGAGCAGCCGCUGGACUCGGACUUUGAUCAGCGUCAGGAAUAUGCUGACUUGGGUCUGGAUCCAGCCAAUGGCAGCUUAUCCUCCGACCUGGAGCCGCCCGGU
...(((((((..((((.(((((((((..(((((((...(((((((.......)))))))...)))))))..))))))....))).))))..))))))).((((......)))). ( -56.30)
>DroYak_CAF1 86436 114 + 1
ACUUUGGAGGGCGAGCAGCCGCUGGACUCGGACUUUGAUCAGCGCCAGGAAUAUGCUGACUUGGGUCUGGAUCCAGCCAAUGGCGGCUUCUCCUCCGACCUGGAGCCGCCCGCU
...((((((((.((((.(((((((((..(((((((...((((((.........))))))...)))))))..))))))....))).)))).))))))))...((......))... ( -51.70)
>DroAna_CAF1 79649 114 + 1
ACCUCGGAGGGCGAGCAGCCGCUGGAAACGGACUUUGAUCAGCGCCACGAUUAUGCUGACUUGGGUCUGGAUCCAGGCACUGGCGGCUUCUCCUCCGACCUGGAGCCGCUCGGC
.((((((((((.((((.(((((((((..(((((((...((((((.........))))))...)))))))..)))))....)))).)))).))))))))...)).(((....))) ( -53.50)
>consensus
ACUUUGGAGGGCGAGCAGCCGCUGGACUCGGACUUUGAUCAGCGCCAGGAAUAUGCUGACUUGGGUCUGGAUCCAGCCAAUGGCGGCUUCUCCUCCGACCUGGAGCCGACCGGU
...((((((((.((((.(((((((((..(((((((...((((((.........))))))...)))))))..))))))....))).)))).)))))))).((((......)))). (-51.62 = -51.87 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,039,946 – 18,040,060
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 93.86
Mean single sequence MFE -44.63
Consensus MFE -41.27
Energy contribution -41.43
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.92
SVM decision value 1.34
SVM RNA-class probability 0.944074
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18039946 114 - 27905053
ACCGUUCGGCUCCAGGUCGGAGGAGAAGCCGCCAUUGGCUGGAUCCAGACCCAAGUCAGCAAAUUCCUGGCGCUGAUCAAAGUCCGAGUCCAGCGGCUGCUCGCCCUCCAAAGU
.......(((.....)))(((((.((.((.(((....((((((..(.(((....((((((...........))))))....))).)..))))))))).))))..)))))..... ( -42.90)
>DroSec_CAF1 82435 114 - 1
ACCGGUCGGCUCCAGGUCGGAGGAGAAGCCGCCAUUAGCUGGAUCCAGACCCAAGUCAGCAAAUUCCUGGCGCUGAUCAAAGUCCGAGUCCAGCGGCUGCUCGCCCUCCAAAGU
(((((......)).))).(((((.((.((.(((....((((((..(.(((....((((((...........))))))....))).)..))))))))).))))..)))))..... ( -43.80)
>DroSim_CAF1 84299 114 - 1
ACCGGUUGGCUCCAGGUCGGAGGAGAAGCCGCCAUUAGCUGGAUCCAGACCCAAGUCAGCAAAUUCCUGGCGCUGAUCAAAGUCCGAGUCCAGCGGCUGCUCGCCCUCCAAAGU
(((((......)).))).(((((.((.((.(((....((((((..(.(((....((((((...........))))))....))).)..))))))))).))))..)))))..... ( -43.80)
>DroEre_CAF1 84544 114 - 1
ACCGGGCGGCUCCAGGUCGGAGGAUAAGCUGCCAUUGGCUGGAUCCAGACCCAAGUCAGCAUAUUCCUGACGCUGAUCAAAGUCCGAGUCCAGCGGCUGCUCGCCCUCCAAAGU
...(((((((.((..(((((.(((((.((((...(((((((....)))..))))..)))).))))))))))((((.((.......))...))))))..)).)))))........ ( -45.40)
>DroYak_CAF1 86436 114 - 1
AGCGGGCGGCUCCAGGUCGGAGGAGAAGCCGCCAUUGGCUGGAUCCAGACCCAAGUCAGCAUAUUCCUGGCGCUGAUCAAAGUCCGAGUCCAGCGGCUGCUCGCCCUCCAAAGU
.((((((((((...((.(((........)))))....((((((..(.(((....((((((...........))))))....))).)..)))))))))))))))).......... ( -47.40)
>DroAna_CAF1 79649 114 - 1
GCCGAGCGGCUCCAGGUCGGAGGAGAAGCCGCCAGUGCCUGGAUCCAGACCCAAGUCAGCAUAAUCGUGGCGCUGAUCAAAGUCCGUUUCCAGCGGCUGCUCGCCCUCCGAGGU
(((....)))......(((((((.((.((.(((...((.((((..(.(((....((((((...........))))))....))).)..))))))))).))))..)))))))... ( -44.50)
>consensus
ACCGGGCGGCUCCAGGUCGGAGGAGAAGCCGCCAUUGGCUGGAUCCAGACCCAAGUCAGCAAAUUCCUGGCGCUGAUCAAAGUCCGAGUCCAGCGGCUGCUCGCCCUCCAAAGU
.......(((.....)))(((((...(((.(((....((((((..(.(((....((((((...........))))))....))).)..))))))))).)))...)))))..... (-41.27 = -41.43 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:52 2006