Locus 8067

Sequence ID X_DroMel_CAF1
Location 20,096,859 – 20,097,000
Length 141
Max. P 0.985616
window13237 window13238

overview

Window 7

Location 20,096,859 – 20,096,960
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.09
Mean single sequence MFE -36.88
Consensus MFE -14.14
Energy contribution -15.18
Covariance contribution 1.04
Combinations/Pair 1.35
Mean z-score -1.85
Structure conservation index 0.38
SVM decision value 0.54
SVM RNA-class probability 0.775194
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20096859 101 + 22224390
UGUGAA-------GAUGCCCUAAAAUGCCUUUGUCAAUGCCAUGUC--AGGGAUAUUGGCUCCUAAUAUGGGGUAUCCUCGCUGGCA-GGAGACCCAAUA------AUGGCCCAC---CC
.((((.-------(((((((((....(((..((((..((......)--)..))))..)))........))))))))).)))).(((.-(....).((...------.)))))...---.. ( -31.00)
>DroSec_CAF1 6769 101 + 1
CGUGAG-------AAGGACCUAAAAUGCCUUUGUCAGUGCCAUGUC--AGGGAUAUUGGCCCCUAAUAAGGGGUAUCCUCGCUGGCA-GGAUACCCAGUC------GUGGCCCAC---CC
.(((.(-------((((..........)))))......((((((.(--((((........))))......(((((((((.(....))-)))))))).).)------))))).)))---.. ( -36.40)
>DroSim_CAF1 6792 100 + 1
CGUGAG-------AAGGACCUAAAAUGCCUUUGUCAGUGCCAUGUC--AGGGAUAUUGGCCCCUAAUAAGGGGUAUCCUCGCUGGCA-GGAUACCCAGUC------GUGGC-CAC---CC
.(((.(-------((((..........)))))......((((((.(--((((........))))......(((((((((.(....))-)))))))).).)------)))))-)))---.. ( -36.40)
>DroEre_CAF1 3698 101 + 1
CGUGAG-------GAGGAGCUAGAAUGUCUUUGUCAGUGCCAUGUC--AGGGAUUUUGGUCCCUGGCAUG-AGUGUCCUCGAUGGCAAGGACACCCAGGC------GUGGCCCAC---CC
.(((.(-------(....(((.(..((((((((((((..(((((((--((((((....))))))))))))-.)..)......)))))))))))..).)))------....)))))---.. ( -45.90)
>DroAna_CAF1 960 112 + 1
UGGGAAGCUGACUGAGAAACUAAAAUGUCUUUGUCAGGGAUAUUUUGGAGGGAGGAUGGGU----GGAUGGGCUAU---GGCUACCU-ACCUACCCAAUAAAAAGGAUCGCCCACACUCC
((((...(((((.((((..........)))).))))).(((.(((((..((((((.(((((----((.........---..))))))-)))).)))..)))))...))).))))...... ( -34.70)
>consensus
CGUGAG_______GAGGACCUAAAAUGCCUUUGUCAGUGCCAUGUC__AGGGAUAUUGGCCCCUAAUAUGGGGUAUCCUCGCUGGCA_GGAUACCCAGUC______GUGGCCCAC___CC
..........................(((...........(((((...((((........)))).)))))((((((((..........))))))))............)))......... (-14.14 = -15.18 +   1.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,096,892 – 20,097,000
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.72
Mean single sequence MFE -39.00
Consensus MFE -19.14
Energy contribution -20.94
Covariance contribution 1.80
Combinations/Pair 1.29
Mean z-score -2.23
Structure conservation index 0.49
SVM decision value 2.01
SVM RNA-class probability 0.985616
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20096892 108 + 22224390
CAUGUC--AGGGAUAUUGGCUCCUAAUAUGGGGUAUCCUCGCUGGCA-GGAGACCCAAUA------AUGGCCCAC---CCACGGCCAAUGGCCAUUCCAUUUCGCUCCCGGAGAAGUUUA
..((((--((.((.....(((((......)))))....)).))))))-((((........------.(((((...---....)))))((((.....))))....))))............ ( -32.30)
>DroSec_CAF1 6802 108 + 1
CAUGUC--AGGGAUAUUGGCCCCUAAUAAGGGGUAUCCUCGCUGGCA-GGAUACCCAGUC------GUGGCCCAC---CCAUGGCCAAUGGCCAUUCCAUUUCGCUCCCGUAGAAGUUUA
......--..(((...(((((.........(((((((((.(....))-)))))))).(((------((((.....---)))))))....))))).)))(((((((....)).)))))... ( -38.20)
>DroSim_CAF1 6825 107 + 1
CAUGUC--AGGGAUAUUGGCCCCUAAUAAGGGGUAUCCUCGCUGGCA-GGAUACCCAGUC------GUGGC-CAC---CCACGGCCAAUGGCCAUUCCAUUUCGCUGCCGUAGAAGUUUA
.(((.(--((.((...(((((.........(((((((((.(....))-)))))))).(((------((((.-...---)))))))....))))).......)).))).)))......... ( -40.90)
>DroEre_CAF1 3731 107 + 1
CAUGUC--AGGGAUUUUGGUCCCUGGCAUG-AGUGUCCUCGAUGGCAAGGACACCCAGGC------GUGGCCCAC---CCACGGCCAACGGCUAUUUCAUCUCGUU-CCGGAGAAGUUUA
((((((--((((((....))))))))))))-.(((((((........)))))))..((.(------((((((...---....)))).))).))......((((...-...))))...... ( -46.20)
>DroAna_CAF1 1000 107 + 1
UAUUUUGGAGGGAGGAUGGGU----GGAUGGGCUAU---GGCUACCU-ACCUACCCAAUAAAAAGGAUCGCCCACACUCCACGGGCCACGC-----CCACUUCUCUCUCAACAAAGUUUA
.((((((((((((((((((((----(..((((.((.---((......-.))))))))............((((.........))))..)))-----))).)))))))))..))))))... ( -37.40)
>consensus
CAUGUC__AGGGAUAUUGGCCCCUAAUAUGGGGUAUCCUCGCUGGCA_GGAUACCCAGUC______GUGGCCCAC___CCACGGCCAAUGGCCAUUCCAUUUCGCUCCCGGAGAAGUUUA
..........(((...(((((.........((((((((..........))))))))...........(((((..........)))))..))))).)))...................... (-19.14 = -20.94 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:36 2006