Locus 5183

Sequence ID 2L_DroMel_CAF1
Location 14,673,763 – 14,673,891
Length 128
Max. P 0.998193
window8252 window8253 window8254

overview

Window 2

Location 14,673,763 – 14,673,854
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -25.10
Consensus MFE -25.10
Energy contribution -25.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 1.00
SVM decision value 3.00
SVM RNA-class probability 0.998061
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14673763 91 + 22407834
UUUGAAUUCAAUUGAAUUAAUUUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCG
....(((((....)))))...(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))........ ( -25.10)
>DroSec_CAF1 28271 91 + 1
UUUGAAUUCAAUUGAAUUAAUUUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCG
....(((((....)))))...(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))........ ( -25.10)
>DroSim_CAF1 30194 91 + 1
UUUGAAUUCAAUUGAAUUAAUUUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCG
....(((((....)))))...(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))........ ( -25.10)
>DroEre_CAF1 28327 91 + 1
UUUGAAUUCAAUUGAAUUAAUUUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCG
....(((((....)))))...(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))........ ( -25.10)
>DroYak_CAF1 28640 91 + 1
UUUGAAUUCAAUUGAAUUAAUUUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCG
....(((((....)))))...(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))........ ( -25.10)
>consensus
UUUGAAUUCAAUUGAAUUAAUUUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCG
....(((((....)))))...(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))........ (-25.10 = -25.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,673,763 – 14,673,854
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -15.50
Consensus MFE -15.50
Energy contribution -15.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 1.00
SVM decision value 0.85
SVM RNA-class probability 0.865866
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14673763 91 - 22407834
CGAGCUUAUCGGAUCUGGCUCUUCAAUUAGCGCCCGAAAAUGGCCCAUCUAAAUGAACCAUAAAAUCCAAAUUAAUUCAAUUGAAUUCAAA
..........(((((.(((.((......)).))).))..((((..(((....)))..))))....))).....(((((....))))).... ( -15.50)
>DroSec_CAF1 28271 91 - 1
CGAGCUUAUCGGAUCUGGCUCUUCAAUUAGCGCCCGAAAAUGGCCCAUCUAAAUGAACCAUAAAAUCCAAAUUAAUUCAAUUGAAUUCAAA
..........(((((.(((.((......)).))).))..((((..(((....)))..))))....))).....(((((....))))).... ( -15.50)
>DroSim_CAF1 30194 91 - 1
CGAGCUUAUCGGAUCUGGCUCUUCAAUUAGCGCCCGAAAAUGGCCCAUCUAAAUGAACCAUAAAAUCCAAAUUAAUUCAAUUGAAUUCAAA
..........(((((.(((.((......)).))).))..((((..(((....)))..))))....))).....(((((....))))).... ( -15.50)
>DroEre_CAF1 28327 91 - 1
CGAGCUUAUCGGAUCUGGCUCUUCAAUUAGCGCCCGAAAAUGGCCCAUCUAAAUGAACCAUAAAAUCCAAAUUAAUUCAAUUGAAUUCAAA
..........(((((.(((.((......)).))).))..((((..(((....)))..))))....))).....(((((....))))).... ( -15.50)
>DroYak_CAF1 28640 91 - 1
CGAGCUUAUCGGAUCUGGCUCUUCAAUUAGCGCCCGAAAAUGGCCCAUCUAAAUGAACCAUAAAAUCCAAAUUAAUUCAAUUGAAUUCAAA
..........(((((.(((.((......)).))).))..((((..(((....)))..))))....))).....(((((....))))).... ( -15.50)
>consensus
CGAGCUUAUCGGAUCUGGCUCUUCAAUUAGCGCCCGAAAAUGGCCCAUCUAAAUGAACCAUAAAAUCCAAAUUAAUUCAAUUGAAUUCAAA
..........(((((.(((.((......)).))).))..((((..(((....)))..))))....))).....(((((....))))).... (-15.50 = -15.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,673,784 – 14,673,891
Length 107
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -33.18
Consensus MFE -31.18
Energy contribution -31.58
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.94
SVM decision value 3.03
SVM RNA-class probability 0.998193
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14673784 107 + 22407834
UUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCGUCCGUCCAGAUGUG--CUGGGAAAAUAAAUAGAGCACAC
(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))...((((.....(((((.....--)))))..........)))).... ( -33.36)
>DroSec_CAF1 28292 109 + 1
UUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCGUCCGUCCAGAUGUGCGCUGGGAAAAUAAAUAGAGCACCC
(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))...((((.....(((((.......)))))..........)))).... ( -33.06)
>DroSim_CAF1 30215 109 + 1
UUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCGUCCGUCCAGAUGUGCGCUGGGAAAAUAAAUAGAGCACCC
(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))...((((.....(((((.......)))))..........)))).... ( -33.06)
>DroEre_CAF1 28348 103 + 1
UUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCGU----CCAGAUGUG--CUGGGAAAAUAAAUAGAGCACAC
(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))...((((.(----((((.....--)))))..........)))).... ( -33.20)
>DroYak_CAF1 28661 103 + 1
UUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCGU----CCAGAUGUG--CUGGGAAAAUAAAUAGAGCACAC
(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))...((((.(----((((.....--)))))..........)))).... ( -33.20)
>consensus
UUGGAUUUUAUGGUUCAUUUAGAUGGGCCAUUUUCGGGCGCUAAUUGAAGAGCCAGAUCCGAUAAGCUCGUCCGUCCAGAUGUG__CUGGGAAAAUAAAUAGAGCACAC
(((((((...((((((.(((((.((((((.......))).))).))))))))))))))))))...((((.....(((((.......)))))..........)))).... (-31.18 = -31.58 +   0.40)

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 11:38:06 2006