Locus 4882

Sequence ID 3R_DroMel_CAF1
Location 12,844,146 – 12,844,239
Length 93
Max. P 0.945848
window7992 window7993

overview

Window 2

Location 12,844,146 – 12,844,239
Length 93
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 92.36
Mean single sequence MFE -28.02
Consensus MFE -24.36
Energy contribution -24.20
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.65
Structure conservation index 0.87
SVM decision value 1.36
SVM RNA-class probability 0.945848
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12844146 93 + 27905053
----CCAUGUCGCGACACUGAGCUUAAUUAGUCGAGCGGCUUGUUGCCACUUCGUUCAUACAAGUGCGGCACACGUUCGGCUCAUCAUUUCACAGGC
----((.(((.((........))......(((((((((...((((((.((((.((....))))))))))))..))))))))).........))))). ( -26.50)
>DroSec_CAF1 13554 97 + 1
UUUACCAUGCCGCGACAAUGAGCUUAAUUAGUCGAGCGGCUUGUCGCCACUUCGUUCAUACAAGUGCGGCACACGUUCGGCUCAUCAUUUCACAGCC
........((.(.((.(((((........(((((((((...((((((.((((.((....))))))))))))..)))))))))..))))))).).)). ( -30.00)
>DroSim_CAF1 13716 97 + 1
UUUACCAUGCCGCGACACUGAGCUUAAUUAGUCGAGCGGCUUGUCGCCACUUCGUUCAUACAAGUGCGGCACACGUUCGGCUCAUCAUUUCACAGCC
........(((((...(((((......)))))...))))).((((((.((((.((....)))))))))))).......((((...........)))) ( -28.30)
>DroEre_CAF1 13775 97 + 1
UUUUCCAUGGCGCGGCACUGAGCCUAAUUAGUCGAGCGACUUGUCGCCACUUCAUUCACACAAGUGCGGCACACGUUCGGCUCAUCAUUUCCCAGCC
........(((..(((.....))).....(((((((((...((((((.((((.........))))))))))..)))))))))............))) ( -30.40)
>DroYak_CAF1 13695 95 + 1
--UUCCAUGUCGCGACACUGAGCUUAAUUAGUCGAGCGGCUUGUCGCCACUUCAUUCACACAAGUGCGGCACACGUUCGGCUCAUCAUUUCCCAGCC
--.........((........))......(((((((((...((((((.((((.........))))))))))..)))))))))............... ( -24.90)
>consensus
UUUACCAUGCCGCGACACUGAGCUUAAUUAGUCGAGCGGCUUGUCGCCACUUCGUUCAUACAAGUGCGGCACACGUUCGGCUCAUCAUUUCACAGCC
...........((........))......(((((((((...((((((.((((.........))))))))))..)))))))))............... (-24.36 = -24.20 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,844,146 – 12,844,239
Length 93
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 92.36
Mean single sequence MFE -31.12
Consensus MFE -26.14
Energy contribution -25.98
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -1.25
Structure conservation index 0.84
SVM decision value -0.04
SVM RNA-class probability 0.515622
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12844146 93 - 27905053
GCCUGUGAAAUGAUGAGCCGAACGUGUGCCGCACUUGUAUGAACGAAGUGGCAACAAGCCGCUCGACUAAUUAAGCUCAGUGUCGCGACAUGG----
...(((((.....(((((.....(((.....))).........(((.(((((.....)))))))).........)))))...)))))......---- ( -25.60)
>DroSec_CAF1 13554 97 - 1
GGCUGUGAAAUGAUGAGCCGAACGUGUGCCGCACUUGUAUGAACGAAGUGGCGACAAGCCGCUCGACUAAUUAAGCUCAUUGUCGCGGCAUGGUAAA
.(((((((...(((((((.....(((.....))).........(((.(((((.....)))))))).........))))))).)))))))........ ( -35.00)
>DroSim_CAF1 13716 97 - 1
GGCUGUGAAAUGAUGAGCCGAACGUGUGCCGCACUUGUAUGAACGAAGUGGCGACAAGCCGCUCGACUAAUUAAGCUCAGUGUCGCGGCAUGGUAAA
.(((((((.....(((((.....(((.....))).........(((.(((((.....)))))))).........)))))...)))))))........ ( -33.10)
>DroEre_CAF1 13775 97 - 1
GGCUGGGAAAUGAUGAGCCGAACGUGUGCCGCACUUGUGUGAAUGAAGUGGCGACAAGUCGCUCGACUAAUUAGGCUCAGUGCCGCGCCAUGGAAAA
((((((.(.....((((((....((.((((((..(..(....)..).)))))))).((((....)))).....)))))).).))).)))........ ( -32.40)
>DroYak_CAF1 13695 95 - 1
GGCUGGGAAAUGAUGAGCCGAACGUGUGCCGCACUUGUGUGAAUGAAGUGGCGACAAGCCGCUCGACUAAUUAAGCUCAGUGUCGCGACAUGGAA--
((((.(.......).))))...(((((((.(((((.((...(((..((((((.....))))))......)))..))..))))).)).)))))...-- ( -29.50)
>consensus
GGCUGUGAAAUGAUGAGCCGAACGUGUGCCGCACUUGUAUGAACGAAGUGGCGACAAGCCGCUCGACUAAUUAAGCUCAGUGUCGCGACAUGGAAAA
((((...........))))...(((((((.(((((.((.(((.(((.(((((.....)))))))).....))).))..))))).))).))))..... (-26.14 = -25.98 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:08 2006