Locus 1096

Sequence ID 2L_DroMel_CAF1
Location 3,003,038 – 3,003,234
Length 196
Max. P 0.601298
window1781 window1782

overview

Window 1

Location 3,003,038 – 3,003,158
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.17
Mean single sequence MFE -29.78
Consensus MFE -28.36
Energy contribution -28.60
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.20
Structure conservation index 0.95
SVM decision value 0.12
SVM RNA-class probability 0.593560
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3003038 120 - 22407834
UUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCAAAUCAGUUACAGUUACGUGAGGCUGUUUUGGGCCAACAGGAGAACGUUUUGGCCAGAAGCAGAGCGAAUUGAAAGUAAAG
(..(((((...)))))..)....(((.((((..(....)..)))).)))(((((.(((....(((((((.((((((..(.....)...)))))).))))))).))))))))......... ( -29.90)
>DroSec_CAF1 10598 120 - 1
UUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCAAAUCAGUUACAGUUACGUGAGGCUGUUUUGGGCCAACAGGAGAACGUUUUGACCAGAAGCAGAGCGAAUGGAAAGUAAAG
....((((.(((((((((((((((((.((((..(....)..)))).))..))))))....((((......))))..))))))))).))))..(((...((...))...)))......... ( -30.50)
>DroSim_CAF1 9954 120 - 1
UUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCAAAUCAGUUACAGUUACGUGAGGCUGUUUUGGGCCAACAGGAGAACGUUUUGGCCAGAAGCAGAGCGAAUGGAAAGUAAAG
....((((.(((((((((((((((((.((((..(....)..)))).))..))))))....((((......))))..))))))))).))))..(((...((...))...)))......... ( -30.20)
>DroEre_CAF1 10621 119 - 1
UUGGAGGAGGUUU-UUUGGUAGCUAAGUGAUGGGAGGUCAAAUCAGUUACAGCUACGUGAGGCUGUUUUGGGCCAACAGGAGAACGUUUUGGGCAGAAGCAGAGCGAAUGGAAAGUAAAG
..........(((-((((((((((((.((((..(....)..)))).))..))))))....((((......))))..))))))).(((((((........))))))).............. ( -29.00)
>DroYak_CAF1 10189 119 - 1
UUGGAGGAGGUUU-UUUGGUAGCUAAGUGAUGGGAGGUCAAAUCAGUUACAGUUACGUGAGGCUGUUUUGGGCCAACAGGAGAACGUUUUGGCCAGAAGCAGAGCGAAUGGAAAGUAAAG
..........(((-(((.((((((...((((.....))))....)))))).....(((....(((((((.((((((..(.....)...)))))).))))))).)))...))))))..... ( -29.30)
>consensus
UUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCAAAUCAGUUACAGUUACGUGAGGCUGUUUUGGGCCAACAGGAGAACGUUUUGGCCAGAAGCAGAGCGAAUGGAAAGUAAAG
.........(((((((((((((((((.((((..(....)..)))).))..))))))....((((......))))..)))))))))((((((........))))))............... (-28.36 = -28.60 +   0.24)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,003,118 – 3,003,234
Length 116
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 93.66
Mean single sequence MFE -34.04
Consensus MFE -26.32
Energy contribution -27.16
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.68
Structure conservation index 0.77
SVM decision value 0.14
SVM RNA-class probability 0.601298
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3003118 116 - 22407834
---CAAUCCGCAAUCCCCACUGUAACCAUAACCAUUCACAAUGCCAAAACGGCAGCAGCGGCGGAAAAAAACGACGCUUUUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCA
---..........((((((((((.((((.((((.(((.(((((((.....))))..((((.((........)).)))).))))))..))))....)))).))..))))..))))..... ( -32.70)
>DroSec_CAF1 10678 116 - 1
---CAAUCCACAAUCCCCACAGUAACCAUAACCAUUCAAAAUGCCAAAACGGCAGCAGCGGCGGAGAAAAACGACGCUUUUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCA
---..........((((((((((.((((.((((.(((((((((((.....))))...(((.((........)).))))))))))...))))....)))).)))..)))..))))..... ( -33.60)
>DroSim_CAF1 10034 116 - 1
---CAAUCCACAAUCCCCACAGCAACCAUAACCAUUCACAAUGCCAAAACGGCAGCAGCGGCGGAGAAAAACGACGCUUUUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCA
---..........((((((((((.((((.((((.(((....((((.....)))).(((.((((..(.....)..)))).)))..)))))))....)))).)))..)))..))))..... ( -34.20)
>DroEre_CAF1 10701 112 - 1
---CGAUCCCCAAUCACCACUGUAACCAUAACCAUUCACAAUGCCAAAACGGCAGCAGC---GGAGAAAAACGGCGCUUUUGGAGGAGGUUU-UUUGGUAGCUAAGUGAUGGGAGGUCA
---.((((((((.((((....((.((((.((((.(((.(((((((.....))))((.((---.(.......).))))..))))))..)))).-..)))).))...)))))))).)))). ( -37.70)
>DroYak_CAF1 10269 115 - 1
ACCCAAUCCCCAAUCCCCACUGUAACCAUAACCAUUCACAAUGCCAAAACGGCAGCAGC---GGAGAAAAACGACGCUUUUGGAGGAGGUUU-UUUGGUAGCUAAGUGAUGGGAGGUCA
.........((..((((((((((.((((.((((.(((.(((((((.....))))..(((---(..(.....)..)))).))))))..)))).-..)))).))..))))..))))))... ( -32.00)
>consensus
___CAAUCCACAAUCCCCACUGUAACCAUAACCAUUCACAAUGCCAAAACGGCAGCAGCGGCGGAGAAAAACGACGCUUUUGGAGGAGGUUUUUUUGGUAGCUAAGUGAUGGGAGGUCA
.............(((((((.((.((((.((((.(((....((((.....))))..((((.((........)).))))......)))))))....)))).))...)))..))))..... (-26.32 = -27.16 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:32 2006