Locus 4929

Sequence ID 2L_DroMel_CAF1
Location 14,097,207 – 14,097,359
Length 152
Max. P 0.852742
window7819 window7820 window7821

overview

Window 9

Location 14,097,207 – 14,097,301
Length 94
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 81.30
Mean single sequence MFE -28.27
Consensus MFE -21.76
Energy contribution -21.10
Covariance contribution -0.66
Combinations/Pair 1.25
Mean z-score -1.90
Structure conservation index 0.77
SVM decision value 0.76
SVM RNA-class probability 0.844533
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14097207 94 - 22407834
AUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCACAAAGUGCGUUGCACUACAUAAGAAU---CCAAAUGCGUGUGU---------------
((((((........))))))((((.(((..(..((((((........)))))).....)..))).)))).(((((...((---....))...)))))--------------- ( -26.00)
>DroPse_CAF1 235815 112 - 1
GCUCUGUACAUAAUUAGGAUGUGCCAUGUGUCGGGUACAGUUUUCUAUGUACUAUAAAGUGCCCUGCAGUAUAUAAGCUUUGUCUGAAUGUGUGUGCAUAUAAACAUACAUA
(((..(((((((.......((((((........))))))......)))))))((((.(.(((...))).).))))))).........((((((((........)))))))). ( -27.72)
>DroSec_CAF1 186147 94 - 1
AUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCACAAAGUGCGUUGCACUACAUAAGAAU---CCGAGUGCGUGUGU---------------
((((((........))))))..((((((..(((((((((........))))))....(((((...)))))..........---.)).)..)))).))--------------- ( -28.90)
>DroSim_CAF1 186911 94 - 1
AUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCACAAAGUGCGUUGCACUACAUAAGAAU---CCGAGUGCGUGUGU---------------
((((((........))))))..((((((..(((((((((........))))))....(((((...)))))..........---.)).)..)))).))--------------- ( -28.90)
>DroYak_CAF1 197838 94 - 1
AUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCAGAAAGUGCGUUGCACUACAUAAGAAU---CCGGGUGCGUGUGU---------------
((((((........))))))..((((((..((.((((((........))))))....(((((...)))))..........---...))..)))).))--------------- ( -30.40)
>DroPer_CAF1 242982 112 - 1
GCUCUGUACAUAAUUAGGAUGUGCCAUGUGUCGGGUACAGUUUUCUAUGUACUAUAAAGUGCCCUGCAGUAUAUAAGCUUUGUCUGAAUGUGUGUGCAUAUAAACAUACAUA
(((..(((((((.......((((((........))))))......)))))))((((.(.(((...))).).))))))).........((((((((........)))))))). ( -27.72)
>consensus
AUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCACAAAGUGCGUUGCACUACAUAAGAAU___CCGAAUGCGUGUGU_______________
((((((........))))))..(((((((((((((((((........))))))....(((((...)))))..............)).))))))).))............... (-21.76 = -21.10 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,097,227 – 14,097,334
Length 107
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 81.57
Mean single sequence MFE -31.96
Consensus MFE -16.90
Energy contribution -17.68
Covariance contribution 0.78
Combinations/Pair 1.28
Mean z-score -3.01
Structure conservation index 0.53
SVM decision value 0.80
SVM RNA-class probability 0.852742
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14097227 107 - 22407834
-------UAAGGCACACAUUUCGGCAUUUCUUCUUCGGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCACAAAGUGCGUUGCACUACAU
-------...((((((......(((.......(....)((((((((........))))))))))).)))))).((((((........))))))....(((((...))))).... ( -37.50)
>DroPse_CAF1 235853 110 - 1
AUGCUCGUAAGGCACACAUA----AGUUUCUUCUUCAAUUGCUCUGUACAUAAUUAGGAUGUGCCAUGUGUCGGGUACAGUUUUCUAUGUACUAUAAAGUGCCCUGCAGUAUAU
(((((.(((.(((((....(----((......)))..........(((((((.......((((((........))))))......)))))))......))))).)))))))).. ( -29.52)
>DroSim_CAF1 186931 103 - 1
-------UAAGGCACACAUA----AGUUUCUUCUUCGGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCACAAAGUGCGUUGCACUACAU
-------...((((((...(----((......))).((((((((((........)))))))).)).)))))).((((((........))))))....(((((...))))).... ( -35.50)
>DroEre_CAF1 189006 103 - 1
-------UAAGGCACACAUA----AGUUUCUUCUUCUGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCAGAAAGUGCGUUGCACUACAU
-------...((((((((.(----((......))).))((((((((........))))))))....)))))).((((((........))))))....(((((...))))).... ( -35.50)
>DroAna_CAF1 185031 99 - 1
-------GAAGGCACACACA----AGAUUCUUCUUAUGUCGGCCUGUAUAUAAUUAGGAUGGGCCGUAAGCCG-GUACAGUUUUCUAUUUACCAUAAACUGCAA---AGUACAU
-------...(((..(((.(----(((....)))).)))((((((((.((....))..))))))))...)))(-(((.(((.....)))))))....(((....---))).... ( -24.20)
>DroPer_CAF1 243020 110 - 1
AUGCUCGUAAGGCACACAUA----AGUUUCUUCUUCAAUUGCUCUGUACAUAAUUAGGAUGUGCCAUGUGUCGGGUACAGUUUUCUAUGUACUAUAAAGUGCCCUGCAGUAUAU
(((((.(((.(((((....(----((......)))..........(((((((.......((((((........))))))......)))))))......))))).)))))))).. ( -29.52)
>consensus
_______UAAGGCACACAUA____AGUUUCUUCUUCAGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUACAGUUUUCUAUGUACCAUAAAGUGCGUUGCACUACAU
..........((((((.........((((.......))))..((((........)))).))))))........((((((........))))))....(((((...))))).... (-16.90 = -17.68 +   0.78)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,097,264 – 14,097,359
Length 95
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.62
Mean single sequence MFE -28.30
Consensus MFE -20.27
Energy contribution -20.38
Covariance contribution 0.11
Combinations/Pair 1.18
Mean z-score -1.72
Structure conservation index 0.72
SVM decision value 0.22
SVM RNA-class probability 0.637855
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14097264 95 - 22407834
UUUCGCCGCACCA-----CUGGCCCAGCCA--------UAAGGCACACAUUUCGGCAUUUCUUCUUCGGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUA
....((((.....-----.))))...(((.--------...((((((......(((.......(....)((((((((........))))))))))).)))))).))). ( -31.90)
>DroPse_CAF1 235890 104 - 1
UUUCGCCGCUCCAUUGCAAUGGCUUGGCCACAUGCUCGUAAGGCACACAUA----AGUUUCUUCUUCAAUUGCUCUGUACAUAAUUAGGAUGUGCCAUGUGUCGGGUA
....((((..((((....))))..))))....((((((((.((((((...(----((......))).......((((........)))).))))))...)).)))))) ( -23.70)
>DroSim_CAF1 186968 91 - 1
UUUCGCCGCACCA-----CUGGCCCAGCCA--------UAAGGCACACAUA----AGUUUCUUCUUCGGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUA
....((((.....-----.))))...(((.--------...((((((...(----((......))).((((((((((........)))))))).)).)))))).))). ( -29.90)
>DroEre_CAF1 189043 91 - 1
UUUCGCCGCACCA-----CUGGCCCAGCCA--------UAAGGCACACAUA----AGUUUCUUCUUCUGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUA
....((((.....-----.))))...(((.--------...((((((((.(----((......))).))((((((((........))))))))....)))))).))). ( -29.90)
>DroYak_CAF1 197895 91 - 1
UUUCGCCGCACCA-----CUGGCCCAGCCA--------UAAGGCACACAUA----AGUUUCUUCUGCUGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUA
....(((((((..-----.(((((((((..--------.((((.((.....----.)).))))..)))))(((((((........))))))).)))).))))..))). ( -30.80)
>DroPer_CAF1 243057 104 - 1
UUUCGCCGCUCCAUUGCAUUGGCUUGGCCACAUGCUCGUAAGGCACACAUA----AGUUUCUUCUUCAAUUGCUCUGUACAUAAUUAGGAUGUGCCAUGUGUCGGGUA
....((((..(((......)))..))))....((((((((.((((((...(----((......))).......((((........)))).))))))...)).)))))) ( -23.60)
>consensus
UUUCGCCGCACCA_____CUGGCCCAGCCA________UAAGGCACACAUA____AGUUUCUUCUUCAGGCAUCCUGUAUAUAAUUAGGAUGUGCCAUGUGCCGGGUA
....(((............((((...))))...........((((((................(....)((((((((........))))))))....)))))).))). (-20.27 = -20.38 +   0.11)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:17 2006