Locus 776

Sequence ID 2L_DroMel_CAF1
Location 2,207,836 – 2,207,994
Length 158
Max. P 0.974973
window1270 window1271

overview

Window 0

Location 2,207,836 – 2,207,956
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.44
Mean single sequence MFE -43.60
Consensus MFE -27.52
Energy contribution -28.00
Covariance contribution 0.48
Combinations/Pair 1.44
Mean z-score -1.32
Structure conservation index 0.63
SVM decision value -0.01
SVM RNA-class probability 0.530320
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2207836 120 - 22407834
UGCAUACGGACAUCUGGCAGGUGGUUAUCAUGUUUGCCUCCGUUGUGGUUGUGGCCAUUCUGGCCACCUGCUACAUCACCGACCUAGAUGACUUCUUCGAAAGCCUGGUGGACGGCGGAC
.((...((..((((.(((.((.(((..........))).))(.((((((.((((((.....))))))..)))))).)..(((...(((.....))))))...))).))))..)))).... ( -42.00)
>DroSec_CAF1 16017 120 - 1
UGCAUACGGACAUCUGGCAGGUGGCCAUCAUGUUUGCCUCUGUUGUGGUUGUGGCCAUCCUGGCCACCUGCUACAUCCCCGACGUGGAUGACUUCUUCGAAGGCCUGCAGGCCGGCGGAC
.((...((((....(((((((((((((..(((.(..(..((.....))..)..).)))..)))))))))))))(((((.......))))).....))))..((((....)))).)).... ( -48.90)
>DroSim_CAF1 19715 120 - 1
UGCAUACGGACAUCUGGCAGGUGGCCAUCAUGUUUGCCUCCGUUGUGGUUGUGGCCAUCCUGGCCACCUGCUACAUCCCCGACGUGGAUGACUUCUUCGAAGGCCUGCAGGCCGGCGGAC
.((...((((....(((((((((((((..(((.(..(..((.....))..)..).)))..)))))))))))))(((((.......))))).....))))..((((....)))).)).... ( -50.50)
>DroEre_CAF1 15270 120 - 1
UGCACACGGACAUCUGGCAGGUGGCAAUCAUGUUUGUGUCCGUAAUGGUUGUGGCCAUUCUUGCCACCUGCUACAUCACCGACCUGGAUGCCUUCUACGAAAGUCUGGAGGUCGGGGGAC
......(((.....(((((((((((((.(((....)))...(.((((((....)))))))))))))))))))).....))).((((...((((((.((....))..)))))))))).... ( -47.30)
>DroYak_CAF1 16640 120 - 1
UGCAUACGGAUAUCUGGCAGGUGGCGAUCAUGUUUGUUUCCGUCCUGGUUGUGGCCAUCCUAGCCACCUGCAACAUCACCGACAUGGGUGAAUUCUUCGAAAGUCUGGAGGCCGGAGGAC
......(((....)))(((((((((....(((.(..(..((.....))..)..).)))....)))))))))....(((((......))))).(((((((...(((....)))))))))). ( -40.70)
>DroAna_CAF1 14159 120 - 1
UUCAUACGGAUGUCUGGCAAACAGUGAUCAUGUUCUUUUCAGUUAUAGUAGUUACUAUUCUGGGAACUAUUUAUGCCACUGGCCUGGACUCCCUUUUUGAUGACUUGGAUGCGAGGGAUC
.......(((.(((((((...(((((..((((...((..(((..(((((....))))).)))..)).....)))).)))))))).)))))))......(((..((((....))))..))) ( -32.20)
>consensus
UGCAUACGGACAUCUGGCAGGUGGCCAUCAUGUUUGCCUCCGUUGUGGUUGUGGCCAUCCUGGCCACCUGCUACAUCACCGACCUGGAUGACUUCUUCGAAAGCCUGGAGGCCGGCGGAC
......(((..((.(((((((((((((..(((.(..(..((.....))..)..).)))..))))))))))))).))..))).(((.(....((((..(....)...))))..).)))... (-27.52 = -28.00 +   0.48) 

alignment

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secondary structure

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dotplot

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Window 1

Location 2,207,876 – 2,207,994
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.08
Mean single sequence MFE -39.77
Consensus MFE -27.83
Energy contribution -28.17
Covariance contribution 0.34
Combinations/Pair 1.43
Mean z-score -1.68
Structure conservation index 0.70
SVM decision value 1.74
SVM RNA-class probability 0.974973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2207876 118 - 22407834
ACCAACUUAUCAC--CUGCAGGGCGGUCUCAAGGCAGUGGUGCAUACGGACAUCUGGCAGGUGGUUAUCAUGUUUGCCUCCGUUGUGGUUGUGGCCAUUCUGGCCACCUGCUACAUCACC
........(((((--(((((((...((((....(((....)))....)))).))).)))))))))................(.((((((.((((((.....))))))..)))))).)... ( -42.80)
>DroSec_CAF1 16057 91 - 1
ACCAA-----------------------------CAGUGGUGCAUACGGACAUCUGGCAGGUGGCCAUCAUGUUUGCCUCUGUUGUGGUUGUGGCCAUCCUGGCCACCUGCUACAUCCCC
((((.-----------------------------...))))......(((....(((((((((((((..(((.(..(..((.....))..)..).)))..)))))))))))))..))).. ( -35.80)
>DroSim_CAF1 19755 118 - 1
ACCAACUUAUCAC--CUGCAGGGCGGACUCAAGGCAGUGGUGCAUACGGACAUCUGGCAGGUGGCCAUCAUGUUUGCCUCCGUUGUGGUUGUGGCCAUCCUGGCCACCUGCUACAUCCCC
.......((((((--.(((.(((....)))...))))))))).....(((....(((((((((((((..(((.(..(..((.....))..)..).)))..)))))))))))))..))).. ( -44.60)
>DroEre_CAF1 15310 118 - 1
UCCCGUUACUUAC--CUGCAGGGCGGCCUCAAGGCGGUGGUGCACACGGACAUCUGGCAGGUGGCAAUCAUGUUUGUGUCCGUAAUGGUUGUGGCCAUUCUUGCCACCUGCUACAUCACC
.(((((.......--..)).)))..(((....)))(((((((....(((....)))(((((((((((.(((....)))...(.((((((....))))))))))))))))))..))))))) ( -44.10)
>DroYak_CAF1 16680 118 - 1
UCCCUUGAUUCAU--UUGCAGGGCGGCCUUAAGGCGGUGGUGCAUACGGAUAUCUGGCAGGUGGCGAUCAUGUUUGUUUCCGUCCUGGUUGUGGCCAUCCUAGCCACCUGCAACAUCACC
.((((((......--...))))).)(((....)))(((((((....(((....)))(((((((((....(((.(..(..((.....))..)..).)))....)))))))))..))))))) ( -44.20)
>DroAna_CAF1 14199 120 - 1
ACUAAAAUAUCCUUUUUUUAGGGAGGCUUAAAAGCUGUGGUUCAUACGGAUGUCUGGCAAACAGUGAUCAUGUUCUUUUCAGUUAUAGUAGUUACUAUUCUGGGAACUAUUUAUGCCACU
.........(((((.....)))))((((....))))(((((.......(((..(((.....)))..)))..(((((...(((..(((((....))))).)))))))).......))))). ( -27.10)
>consensus
ACCAACUUAUCAC__CUGCAGGGCGGCCUCAAGGCAGUGGUGCAUACGGACAUCUGGCAGGUGGCCAUCAUGUUUGCCUCCGUUGUGGUUGUGGCCAUCCUGGCCACCUGCUACAUCACC
.........................(((....))).((((((....(((....)))(((((((((((..(((.(..(..((.....))..)..).)))..)))))))))))..)))))). (-27.83 = -28.17 +   0.34) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:20 2006