Locus 2659

Sequence ID 2L_DroMel_CAF1
Location 7,457,174 – 7,457,334
Length 160
Max. P 0.972442
window4234 window4235

overview

Window 4

Location 7,457,174 – 7,457,294
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.67
Mean single sequence MFE -41.52
Consensus MFE -24.25
Energy contribution -25.70
Covariance contribution 1.45
Combinations/Pair 1.31
Mean z-score -3.09
Structure conservation index 0.58
SVM decision value 1.69
SVM RNA-class probability 0.972442
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7457174 120 - 22407834
UCUACUCGGUUUGACCCCUUUUCGUUUAAGGGGUCAGGCUGGUGAGAGGCAGUUUCAUCUAAGUAAAAUCGGCUAUCUGAAUGCUUUUCUUCAGUUGAGUUUCUUCAGCUAUUGCUUUUU
..(((.((((((((((((((.......)))))))))))))))))(((((((((.......(((((...((((....)))).)))))......(((((((....)))))))))))))))). ( -40.50)
>DroVir_CAF1 63369 120 - 1
UCUGCUGGGUCUGACGCCCUUCCGGCUGAAGGGCCAGGCGGCCGGACGUCAUUUUCAGCUGAGUCGCAUCGGCUAUCUGAAUGCUCUGCUACAGUUGAGCUUCUUUGGCUAUUGCUUUCU
((.((((((..(((((.((..(((.(((......))).)))..)).)))))..)))))).))...(((..(((((...(((.((((.((....)).)))))))..)))))..)))..... ( -48.70)
>DroGri_CAF1 57749 120 - 1
UAUUCUAGGACUGACUCCUUUCCGUCUGAGUGGUCAACCUGCAGCACGACAUUUCCAGAUGAGUCGCCUCGGCUAUCUGAACGCUCUACUCCAGCUCAGCUUCUUUGGCUAUUGCUUUUU
.......(((..(((........))).((((((((............))).....(((((.(((((...))))))))))..)))))...)))(((..((((.....))))...))).... ( -27.90)
>DroSim_CAF1 54866 120 - 1
UCUGCUCGGUUUGACCCCUUUUCGUUUGAGGGGUCAGGCUGGAGAGAGGCAGUUUCAUCUAAGUAAAAUCGGCUAUCUGAAUGCUUUUCUUCAGUUGAGUUUCUUCAGCUACUGCUUUUU
...((..(((((((((((((.......)))))))))))))(((((((((((..((((....(((.......)))...)))))))))))))))(((((((....)))))))...))..... ( -43.30)
>DroEre_CAF1 56251 120 - 1
CCUACUGGGCUUGACCCCUUUCCGUUUGCGGGGUCAGGCUGGUGAGCGGCAGUUUCAACUAAGUAAACUCGGCUAUCUGAAUGCCCUUCUGCAGCUGAGCUUCUUCAGCUACUGCUUUUU
..(((..(.(((((((((...........))))))))))..)))...((((((.........(((.....(((.........)))....)))(((((((....))))))))))))).... ( -40.40)
>DroYak_CAF1 54919 120 - 1
UCUACUAGGCUUGACCCCAUUUCGCUUGAGGGGUCAAGCUGGCGGUAGGCAGUUUCAGCUAAGUAAACUCGGCUAUCUGAAUGCCCUUCUUCAGCUGAGCUUCUUCAGCUACUGCUUUCU
.(((((.(((((((((((.((......)))))))))))))...)))))(((((...(((((((.((.(((((((....(((.....)))...))))))).))))).)))))))))..... ( -48.30)
>consensus
UCUACUAGGUUUGACCCCUUUCCGUUUGAGGGGUCAGGCUGGAGAGAGGCAGUUUCAGCUAAGUAAAAUCGGCUAUCUGAAUGCUCUUCUUCAGCUGAGCUUCUUCAGCUACUGCUUUUU
.......(((((((((((...........)))))))))))...(((.((((((.......(((((...((((....)))).)))))......(((((((....))))))))))))).))) (-24.25 = -25.70 +   1.45)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 7,457,214 – 7,457,334
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.83
Mean single sequence MFE -40.95
Consensus MFE -20.07
Energy contribution -20.63
Covariance contribution 0.56
Combinations/Pair 1.44
Mean z-score -1.99
Structure conservation index 0.49
SVM decision value -0.01
SVM RNA-class probability 0.530665
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7457214 120 - 22407834
AUGCUUUCGGAGCCGAGCAAACCUUACUUUUGUACACCUAUCUACUCGGUUUGACCCCUUUUCGUUUAAGGGGUCAGGCUGGUGAGAGGCAGUUUCAUCUAAGUAAAAUCGGCUAUCUGA
......((((((((((.......((((((.((.((.(((.((.((.((((((((((((((.......)))))))))))))))))).)))..))..))...))))))..)))))..))))) ( -43.60)
>DroVir_CAF1 63409 120 - 1
AUGCUUAUGGCGCUGAGCAAACGCUGUUCCUCUUCACCUAUCUGCUGGGUCUGACGCCCUUCCGGCUGAAGGGCCAGGCGGCCGGACGUCAUUUUCAGCUGAGUCGCAUCGGCUAUCUGA
..((.....))(((((((....))(((..(((...........((((((..(((((.((..(((.(((......))).)))..)).)))))..)))))).)))..))))))))....... ( -40.00)
>DroGri_CAF1 57789 120 - 1
AUGCUUACGGUGCUGAGCAGUCGCUGCUUCUGUUCACCUAUAUUCUAGGACUGACUCCUUUCCGUCUGAGUGGUCAACCUGCAGCACGACAUUUCCAGAUGAGUCGCCUCGGCUAUCUGA
.((((((......))))))((((((((.........((((.....))))..((((..(((.......)))..))))....)))))..))).....(((((.(((((...)))))))))). ( -36.00)
>DroSim_CAF1 54906 120 - 1
AUGCUUUCGGAGCAGAGCAAACCUUGCUUUUCUACACCUAUCUGCUCGGUUUGACCCCUUUUCGUUUGAGGGGUCAGGCUGGAGAGAGGCAGUUUCAUCUAAGUAAAAUCGGCUAUCUGA
.(((((..(((((((((((.....))))))......(((.(((.(.((((((((((((((.......)))))))))))))))))).)))..)))))....)))))...((((....)))) ( -41.20)
>DroEre_CAF1 56291 120 - 1
AUGCCUUCGGAGCGGAGCAAACCCUGCUUUUCUACACCUACCUACUGGGCUUGACCCCUUUCCGUUUGCGGGGUCAGGCUGGUGAGCGGCAGUUUCAACUAAGUAAACUCGGCUAUCUGA
......((((((..(((((.....)))))..)..((((..((....))((((((((((...........)))))))))).))))(((.(.((((((......).)))))).))).))))) ( -41.60)
>DroYak_CAF1 54959 120 - 1
AUGCUUUCGGAGCCGAGCAAACCUUACUCUUCUACACCUAUCUACUAGGCUUGACCCCAUUUCGCUUGAGGGGUCAAGCUGGCGGUAGGCAGUUUCAGCUAAGUAAACUCGGCUAUCUGA
......(((((((((((......(((((...((....((..(((((.(((((((((((.((......)))))))))))))...)))))..))....))...))))).))))))..))))) ( -43.30)
>consensus
AUGCUUUCGGAGCCGAGCAAACCCUGCUUUUCUACACCUAUCUACUAGGUUUGACCCCUUUCCGUUUGAGGGGUCAGGCUGGAGAGAGGCAGUUUCAGCUAAGUAAAAUCGGCUAUCUGA
.......((((....(((.....((((((..................(((((((((((...........)))))))))))...(((.......)))....)))))).....))).)))). (-20.07 = -20.63 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:04 2006