Locus 7358

Sequence ID 3L_DroMel_CAF1
Location 19,725,883 – 19,726,037
Length 154
Max. P 0.883931
window11955 window11956

overview

Window 5

Location 19,725,883 – 19,726,001
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.68
Mean single sequence MFE -29.48
Consensus MFE -26.40
Energy contribution -27.08
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.41
Structure conservation index 0.90
SVM decision value 0.93
SVM RNA-class probability 0.883931
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19725883 118 + 23771897
UUUGCGGAGUAUUUACAUGGGAGUUUUUCAUUUUCUGCUGACAAUUUCCGUUGGAAACUUUUCGCCAAGGAGGUGCUAACACUAGCAAAAC--UGGCAAAGUCCAAACGGAAAAUGUAAU
...(((((((....))(((..(...)..)))..)))))..(((.(((((((((((..((((..((((.(....(((((....)))))...)--))))))))))).)))))))).)))... ( -33.00)
>DroSec_CAF1 35205 118 + 1
UUUGCGGAGUAUUUACAUGGGAGUUUUUCAAUUUCUGCUAACAAUUUCCGUUGGAAACUUUUCGCCAAGGAGGUGCUAACACUAGCAAAAC--UGGCAAAGUCCAAACGGAAAAUGUAAU
...(((((((....)).((..(...)..))...)))))..(((.(((((((((((..((((..((((.(....(((((....)))))...)--))))))))))).)))))))).)))... ( -32.50)
>DroSim_CAF1 37376 118 + 1
UUUGCGGAGUAUUUACAUGGGAGUUUUUCAAUUUCUGCUGACAAUUUCCGUUGGAAACUUUUCGCCAAGGAGGUGCUAACACUAGCAAAAC--UGGCAAAGUCCAAACGGAAAAUGUAAU
...(((((((....)).((..(...)..))...)))))..(((.(((((((((((..((((..((((.(....(((((....)))))...)--))))))))))).)))))))).)))... ( -32.60)
>DroEre_CAF1 37959 120 + 1
UUUGCGGAGUAUUUACAUGGGAGUUUUUCAAUUUCUGCUGACAAUUUCCGUUGGAAACUUUUCGCCAAGAAGGUGCUAGACUAAGCAAAUCUCUGUCAAAGUCCGAACGAAAAAAGUAAU
(((((((((.((((....(((((((....)))))))(((.....(((((...)))))((...((((.....))))..))....)))))))))))).)))).................... ( -21.60)
>DroYak_CAF1 36037 118 + 1
UUUGCAGAGUAUUUACAUGGGAGUUUUUCAAUUUCUGCUGACAAUUUCCGUUGGAAUCUUUUCGCCAAGAAGGUGCUAAACUAAGCAAAUC--UGCCAAAGUCCAAACGGAAAAUGAAAU
...(((((((....)).((..(...)..))...)))))...((.(((((((((((..((((..((..(((...((((......))))..))--))).))))))).)))))))).)).... ( -27.70)
>consensus
UUUGCGGAGUAUUUACAUGGGAGUUUUUCAAUUUCUGCUGACAAUUUCCGUUGGAAACUUUUCGCCAAGGAGGUGCUAACACUAGCAAAAC__UGGCAAAGUCCAAACGGAAAAUGUAAU
...(((((((....)).((..(...)..))...)))))..(((.(((((((((((..((((..((((......((((......))))......)))))))))))).))))))).)))... (-26.40 = -27.08 +   0.68)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,725,923 – 19,726,037
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.20
Mean single sequence MFE -28.12
Consensus MFE -21.88
Energy contribution -22.68
Covariance contribution 0.80
Combinations/Pair 1.06
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.42
SVM RNA-class probability 0.730593
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19725923 114 - 23771897
CUCUCUGUGCUUCUGUUUCUCCGGCUUUCUGCAUA----AAUUACAUUUUCCGUUUGGACUUUGCCA--GUUUUGCUAGUGUUAGCACCUCCUUGGCGAAAAGUUUCCAACGGAAAUUGU
.....(((((....(((.....))).....)))))----....(((.((((((((.(((.(((((((--(...(((((....))))).....)))))))).....))))))))))).))) ( -30.10)
>DroSec_CAF1 35245 114 - 1
CUCUCUGUUCUUCUGUUUCUCCGGCUUACUGCAUA----AAUUACAUUUUCCGUUUGGACUUUGCCA--GUUUUGCUAGUGUUAGCACCUCCUUGGCGAAAAGUUUCCAACGGAAAUUGU
.......................((.....))...----....(((.((((((((.(((.(((((((--(...(((((....))))).....)))))))).....))))))))))).))) ( -27.30)
>DroSim_CAF1 37416 114 - 1
CUCUCUGUGCUUCUGUUUCUCCGGCUUACUGCAUA----AAUUACAUUUUCCGUUUGGACUUUGCCA--GUUUUGCUAGUGUUAGCACCUCCUUGGCGAAAAGUUUCCAACGGAAAUUGU
.....(((((....(((.....))).....)))))----....(((.((((((((.(((.(((((((--(...(((((....))))).....)))))))).....))))))))))).))) ( -30.10)
>DroEre_CAF1 37999 116 - 1
CUGUAUGUGUUUCUGUUUCUGCGUCCCACUGCAUC----AAUUACUUUUUUCGUUCGGACUUUGACAGAGAUUUGCUUAGUCUAGCACCUUCUUGGCGAAAAGUUUCCAACGGAAAUUGU
.((((.(((....(((....)))...)))))))..----....((..((((((((.(((((((....((((..((((......))))...)))).....))))..)))))))))))..)) ( -24.30)
>DroYak_CAF1 36077 118 - 1
AUCUCGGUGUUUCUGUUUCUGCGGCCUACUGCAUAUGCAUAUUUCAUUUUCCGUUUGGACUUUGGCA--GAUUUGCUUAGUUUAGCACCUUCUUGGCGAAAAGAUUCCAACGGAAAUUGU
.............(((...(((((....)))))...))).....((.((((((((.(((((((.(((--((..((((......))))...)))..))..))))..))))))))))).)). ( -28.80)
>consensus
CUCUCUGUGCUUCUGUUUCUCCGGCUUACUGCAUA____AAUUACAUUUUCCGUUUGGACUUUGCCA__GUUUUGCUAGUGUUAGCACCUCCUUGGCGAAAAGUUUCCAACGGAAAUUGU
......((((..(((......)))......)))).........(((.((((((((.(((.(((((((......((((......))))......))))))).....))))))))))).))) (-21.88 = -22.68 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:58 2006