Locus 393

Sequence ID 2L_DroMel_CAF1
Location 1,212,169 – 1,212,282
Length 113
Max. P 0.925816
window625 window626

overview

Window 5

Location 1,212,169 – 1,212,282
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 92.83
Mean single sequence MFE -37.58
Consensus MFE -29.70
Energy contribution -30.06
Covariance contribution 0.36
Combinations/Pair 1.10
Mean z-score -2.08
Structure conservation index 0.79
SVM decision value 1.17
SVM RNA-class probability 0.925816
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1212169 113 + 22407834
GUAGGUGCCUUCCAGGUGGAUGAUGACAUGCAAGGAAUCAUUUCAUGCAUUCCGUCACACAGUUGUGCGAACAUGCUUUCCGGGAUUAUCUUACCUGGCAAAGGUGGCCUUAA
..((((((((((((((((((((((..(..(((.((((((((...))).))))).((.(((....))).))...))).....)..)))))).)))))))..))))).))))... ( -36.30)
>DroSec_CAF1 7816 113 + 1
UUCGGUGCCUUCCAGGUGGAUGAUGACAUGCAAGGAAUCAUUUCAUGCAUUCCGACACACAGUUGUGCGAACAUGCUUUCCAGGAUUAUCUUACCUGGCGAAGGUGGCCUUAA
...(((((((((((((((((((((((.(((((.(((.....))).)))))))((.((((....))))))...............)))))).)))))))..))))).))).... ( -33.70)
>DroSim_CAF1 7902 113 + 1
UUCGGUGCUUUCCAGGUGGAUGAUGACAUGCAAGGAAUCAUUUCAUGCAUUCCGUCACACAGUUGUGCGAGCAUGCUUUCCGGGAUUAUCUUACCUGGCGAAGGUGGCCUUAA
...(((((((((((((((((((((..(((((..((((((((...))).))))).((.(((....))).)))))))((.....)))))))).)))))))..))))).))).... ( -35.50)
>DroEre_CAF1 7358 112 + 1
AAAGGUGCCUUCCAGGUGGAUGAUGACAUGCAGGGAAUCAUUUCAUGCAUUCCGUCACAGAGUUGUGCGAAGAUACUUUCCGGGAUUAUCUUACCU-GCGAAGGUGGCCUUAA
.(((((((((((((((((((((((..((((((..(((....))).)))))..((.(((......)))))............)..)))))).)))))-).)))))).))))).. ( -40.00)
>DroYak_CAF1 8117 113 + 1
UAGGUGGCCUUCCAGGUGGAUGAUGACAUGCAGGGAAUCAUUUCAUGCAUUCCCUCACACAAUUGUGCGAACAUACUUUCCGGGAUUAUCUUACCUGGCGAAGGUGGCCUUAA
.((((.((((((((((((((((((..(.....(((((((((...))).))))))((.(((....))).))...........)..)))))).)))))))..))))).))))... ( -42.40)
>consensus
UUAGGUGCCUUCCAGGUGGAUGAUGACAUGCAAGGAAUCAUUUCAUGCAUUCCGUCACACAGUUGUGCGAACAUGCUUUCCGGGAUUAUCUUACCUGGCGAAGGUGGCCUUAA
...((((((((((((((((((((((..(((((..(((....))).)))))..))))....((((.((.(((......))))).))))))).)))))))..))))).))).... (-29.70 = -30.06 +   0.36)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,212,169 – 1,212,282
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 92.83
Mean single sequence MFE -32.24
Consensus MFE -26.62
Energy contribution -27.22
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.83
SVM decision value 0.73
SVM RNA-class probability 0.836144
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1212169 113 - 22407834
UUAAGGCCACCUUUGCCAGGUAAGAUAAUCCCGGAAAGCAUGUUCGCACAACUGUGUGACGGAAUGCAUGAAAUGAUUCCUUGCAUGUCAUCAUCCACCUGGAAGGCACCUAC
...(((...(((...((((((..(.....)..(((..((((((((((((....)))))).(((((.(((...))))))))..)))))).....))))))))).)))..))).. ( -33.00)
>DroSec_CAF1 7816 113 - 1
UUAAGGCCACCUUCGCCAGGUAAGAUAAUCCUGGAAAGCAUGUUCGCACAACUGUGUGUCGGAAUGCAUGAAAUGAUUCCUUGCAUGUCAUCAUCCACCUGGAAGGCACCGAA
....((...(((...((((((.((......))(((..((((((.(((((....)))))..(((((.(((...))))))))..)))))).....))))))))).)))..))... ( -31.30)
>DroSim_CAF1 7902 113 - 1
UUAAGGCCACCUUCGCCAGGUAAGAUAAUCCCGGAAAGCAUGCUCGCACAACUGUGUGACGGAAUGCAUGAAAUGAUUCCUUGCAUGUCAUCAUCCACCUGGAAAGCACCGAA
....((....(((..((((((..(.....)..(((..((((((((((((....)))))).(((((.(((...))))))))..)))))).....))))))))).)))..))... ( -31.30)
>DroEre_CAF1 7358 112 - 1
UUAAGGCCACCUUCGC-AGGUAAGAUAAUCCCGGAAAGUAUCUUCGCACAACUCUGUGACGGAAUGCAUGAAAUGAUUCCCUGCAUGUCAUCAUCCACCUGGAAGGCACCUUU
..((((...(((((.(-((((..(.....)..(((..((((.((((((((....)))).))))))))((((.(((........))).))))..)))))))))))))..)))). ( -31.20)
>DroYak_CAF1 8117 113 - 1
UUAAGGCCACCUUCGCCAGGUAAGAUAAUCCCGGAAAGUAUGUUCGCACAAUUGUGUGAGGGAAUGCAUGAAAUGAUUCCCUGCAUGUCAUCAUCCACCUGGAAGGCCACCUA
....((((.......((((((..(.....)..(((..((((((((((((....))))))((((((.(((...))))))))).))))).)....)))))))))..))))..... ( -34.40)
>consensus
UUAAGGCCACCUUCGCCAGGUAAGAUAAUCCCGGAAAGCAUGUUCGCACAACUGUGUGACGGAAUGCAUGAAAUGAUUCCUUGCAUGUCAUCAUCCACCUGGAAGGCACCGAA
.....(((((((.....)))).......(((.((.........((((((....)))))).(((.((.((((.(((........))).))))))))).)).))).)))...... (-26.62 = -27.22 +   0.60)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:53 2006