Locus 1161

Sequence ID 3L_DroMel_CAF1
Location 3,356,886 – 3,357,046
Length 160
Max. P 0.724458
window1807 window1808

overview

Window 7

Location 3,356,886 – 3,357,006
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.33
Mean single sequence MFE -46.26
Consensus MFE -38.38
Energy contribution -38.02
Covariance contribution -0.36
Combinations/Pair 1.24
Mean z-score -1.45
Structure conservation index 0.83
SVM decision value 0.41
SVM RNA-class probability 0.724458
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3356886 120 + 23771897
AGCCUCGCUGAGAUCGCUCUUGUGGCCAGCAGAAUCGUUGGCAUUGGAGGGUAUCUUGGUGCGCGACUUCUUGGCGGACGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGAUUUGACCUU
((((((((..((((((((((....((((((......))))))...)))..((((....))))))))..)))..))))..))))((((((((((((...))))))))).......)))... ( -48.31)
>DroSec_CAF1 24072 120 + 1
AGCCUCGCUGAGAUCGCUCUUGUGGCUAGCAGAAUCGUUGGCAUUGGAGGAUUUUUUGGUGCGCGACUUCUUGGCGGGCGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUU
.(((.(((..((((((((((....((((((......))))))...)))(.(((....))).)))))..)))..))))))(((((..(((((((((...))))))))))))))........ ( -50.10)
>DroSim_CAF1 21761 120 + 1
AGCCUCGCUGAGAUCGCUCUUGUGGCUAGCAGAAUCGUUGGCAUUGGAGGAUUUUUUGGUGCGCGACUUCUUGGCGGGCGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUU
.(((.(((..((((((((((....((((((......))))))...)))(.(((....))).)))))..)))..))))))(((((..(((((((((...))))))))))))))........ ( -50.10)
>DroEre_CAF1 22634 120 + 1
AGCCUCGCUGAGAUCACUUUUGUGGCCACCAGAAUCGUUGGCGUUGGAGGGUUUCUUGGUGCGUGAUUUCUUGACGGGCGGCUGCCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUU
.(((.(((..(((...(((..(..((((.(......).))))..)..)))...)))..)))(((.(.....).))))))(((.((((((((((((...))))))).)))))...).)).. ( -43.50)
>DroYak_CAF1 22620 120 + 1
AGCCUCGCUGAGAUCACUUUUGUGGCCAGCAGAAUCGUUAGCAUUGGAUGGUUUCUUGGUGCGCGACUUCUUGACGGGCGGUUGUCGGUCCUCGGUAUCCGGAGAUUUGGCCUUGACCUU
.((((.((((.(.((((....)))))))))((((((((..((((..(........)..)))))))).))))....))))(((((((((((..(((...)))..)).)))))...)))).. ( -39.30)
>consensus
AGCCUCGCUGAGAUCGCUCUUGUGGCCAGCAGAAUCGUUGGCAUUGGAGGGUUUCUUGGUGCGCGACUUCUUGGCGGGCGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUU
((((.....((((((.((((....((((((......))))))...))))))))))...((.(((.(.....).))).))))))((((((((((((...))))))).)))))......... (-38.38 = -38.02 +  -0.36)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 3,356,926 – 3,357,046
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.67
Mean single sequence MFE -44.14
Consensus MFE -36.62
Energy contribution -36.90
Covariance contribution 0.28
Combinations/Pair 1.16
Mean z-score -1.42
Structure conservation index 0.83
SVM decision value 0.24
SVM RNA-class probability 0.646826
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3356926 120 + 23771897
GCAUUGGAGGGUAUCUUGGUGCGCGACUUCUUGGCGGACGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGAUUUGACCUUAUCCGACGCCUCAGAUGAGGUUGUUUUCUUCGUCCCGCUA
((((..(........)..)))).........((((((..(((.((((((((((((...))))))))).((((........))))))))))...(((((((.......))))))))))))) ( -46.10)
>DroSec_CAF1 24112 120 + 1
GCAUUGGAGGAUUUUUUGGUGCGCGACUUCUUGGCGGGCGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUUAUCCGACGCCUCAGAUGAGGUUGUUUUCUUUGUCCCGCUA
((((..(((....)))..)))).........(((((((((((((..(((((((((...))))))))))))))..(((((((((.((....)).))))))))).........).))))))) ( -49.30)
>DroSim_CAF1 21801 120 + 1
GCAUUGGAGGAUUUUUUGGUGCGCGACUUCUUGGCGGGCGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUUAUCCGACGCCUCAGAUGAGGUUGUUUUCUUCGUCCCGCUA
((((..(((....)))..)))).........(((((((((((((..(((((((((...))))))))))))))..(((((((((.((....)).))))))))).........).))))))) ( -49.60)
>DroEre_CAF1 22674 120 + 1
GCGUUGGAGGGUUUCUUGGUGCGUGAUUUCUUGACGGGCGGCUGCCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUUAUCAGAAGGCUCAGAUGAGCUUGUUUUCUUGGUCUCGGUG
.(((..(..((((.(.......).))))..)..)))(((....)))(((((((((...)))))))))..(((..((((........((((((....))))))........))))..))). ( -40.99)
>DroYak_CAF1 22660 120 + 1
GCAUUGGAUGGUUUCUUGGUGCGCGACUUCUUGACGGGCGGUUGUCGGUCCUCGGUAUCCGGAGAUUUGGCCUUGACCUUAUCGGAAGGCUCAGAUGAGGAUGUUUUUUUCGACUCGCUG
((((..(........)..))))((((..((((((.((((.(....).))))))))(((((....((((((((((..((.....))))))).)))))..)))))........)).)))).. ( -34.70)
>consensus
GCAUUGGAGGGUUUCUUGGUGCGCGACUUCUUGGCGGGCGGCUGUCGAUCCUCGGUAUCCGGGGAUUUGGCCUUGACCUUAUCCGACGCCUCAGAUGAGGUUGUUUUCUUCGUCCCGCUA
((((..(........)..)))).........(((((((((((((..(((((((((...))))))))))))))..(((((((((.((....)).))))))))).........).))))))) (-36.62 = -36.90 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:43 2006