Locus 6261

Sequence ID 3R_DroMel_CAF1
Location 16,330,875 – 16,331,035
Length 160
Max. P 0.999314
window10212 window10213 window10214

overview

Window 2

Location 16,330,875 – 16,330,995
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.42
Mean single sequence MFE -32.82
Consensus MFE -28.26
Energy contribution -28.82
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.86
SVM decision value 2.16
SVM RNA-class probability 0.989267
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16330875 120 + 27905053
GAUAUUUCCUUUAGAUUUAGAAGCGCAGCGGAAGUAUAACGUAUCGUUUUACCGGAAACACAUGAACAGGGUCAUGACCCUAUUCACCAUCCUCUGCAUGACCUACACCUCGUCAUUUAG
........................((((.(((.(((.((((...)))).))).(....)...((((.(((((....))))).))))...))).))))(((((.........))))).... ( -28.20)
>DroSec_CAF1 34112 120 + 1
GAUAUUUCCCCUAGAUGUAGAGGCGCAGCGGAAGUAUAACGUAUCGUUCUACAGGACACACAUGAACAGGGUCAUGACCCUAUUCACCAUUCUCUGCAUGACCUACACCUCGUCAUUUAG
..........(((((((..((((.((((.(((((((.((((...)))).)))..........((((.(((((....))))).))))...)))))))).((.....))))))..))))))) ( -32.60)
>DroSim_CAF1 35683 120 + 1
GAUAUUUCCCCUAGAUGUAGAGGCGCAGCGGAAGUAUAACGUAUCGUUCUACAGGACACACAUGAACAGGGUCAUGACCCUAUUCACUAUCCUCUGCAUGACCUACACCUCGUCAUUUAG
..........(((((((..((((.((((.((((((..........((((....))))......(((.(((((....))))).)))))).))).)))).((.....))))))..))))))) ( -35.40)
>DroEre_CAF1 32261 120 + 1
GAUAUUUCCUCUAGACGUUGAGAUGCAGCGGAAGUAUAACGUAUCGUUCUACAGGAAACACAUGAACAGGGUCAUGACCCUAUUUACCAUCCUCUGCAUGACCUACACCUCGUCAUUUAG
.............((((.((((((((((.(((.(((.((((...)))).))).(....)...((((.(((((....))))).))))...))).))))))...)).))...))))...... ( -30.90)
>DroYak_CAF1 47314 120 + 1
GAUCUUUCCCCUAGAUGUGGAGGCGCAGCGAAAGUAUAACGUAUCGUUCUACAGGACACACAUGAAUAGGGUCAUGACCCUAUUCACCAUCCUCUGCAUGACGUACACCUCGUCAUUUAG
..........(((((((..((((....((....))..........((((....)))).....((((((((((....))))))))))....))))..))(((((.......)))))))))) ( -37.00)
>consensus
GAUAUUUCCCCUAGAUGUAGAGGCGCAGCGGAAGUAUAACGUAUCGUUCUACAGGACACACAUGAACAGGGUCAUGACCCUAUUCACCAUCCUCUGCAUGACCUACACCUCGUCAUUUAG
..........(((((((..((((.((((.(((.(((.((((...)))).)))..........((((.(((((....))))).))))...))).)))).((.....))))))..))))))) (-28.26 = -28.82 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,330,875 – 16,330,995
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.42
Mean single sequence MFE -39.20
Consensus MFE -35.54
Energy contribution -36.18
Covariance contribution 0.64
Combinations/Pair 1.15
Mean z-score -2.27
Structure conservation index 0.91
SVM decision value 3.50
SVM RNA-class probability 0.999314
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16330875 120 - 27905053
CUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUGGUGAAUAGGGUCAUGACCCUGUUCAUGUGUUUCCGGUAAAACGAUACGUUAUACUUCCGCUGCGCUUCUAAAUCUAAAGGAAAUAUC
..........((((.((((...(((((.(((..(((((((((((....)))))))))))........((((.((((...)))).))))))).)))))..)))).))))............ ( -36.20)
>DroSec_CAF1 34112 120 - 1
CUAAAUGACGAGGUGUAGGUCAUGCAGAGAAUGGUGAAUAGGGUCAUGACCCUGUUCAUGUGUGUCCUGUAGAACGAUACGUUAUACUUCCGCUGCGCCUCUACAUCUAGGGGAAAUAUC
(((.(((..(((((((((....(((((.((...(((((((((((....))))))))))).....))))))).((((...)))).........)))))))))..))).))).......... ( -41.10)
>DroSim_CAF1 35683 120 - 1
CUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUAGUGAAUAGGGUCAUGACCCUGUUCAUGUGUGUCCUGUAGAACGAUACGUUAUACUUCCGCUGCGCCUCUACAUCUAGGGGAAAUAUC
(((.(((..(((((((((.........(((((((((((((((((....)))))))))))...))))))(((.((((...)))).))).....)))))))))..))).))).......... ( -43.50)
>DroEre_CAF1 32261 120 - 1
CUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUGGUAAAUAGGGUCAUGACCCUGUUCAUGUGUUUCCUGUAGAACGAUACGUUAUACUUCCGCUGCAUCUCAACGUCUAGAGGAAAUAUC
(((.(((..(((((((((....(((((..((((((.((((((((....)))))))).)).))))..))))).((((...)))).........)))))))))..))).))).......... ( -35.30)
>DroYak_CAF1 47314 120 - 1
CUAAAUGACGAGGUGUACGUCAUGCAGAGGAUGGUGAAUAGGGUCAUGACCCUAUUCAUGUGUGUCCUGUAGAACGAUACGUUAUACUUUCGCUGCGCCUCCACAUCUAGGGGAAAGAUC
(((.(((..((((((((((........(((((((((((((((((....)))))))))))...))))))(((.((((...)))).)))...)).))))))))..))).))).......... ( -39.90)
>consensus
CUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUGGUGAAUAGGGUCAUGACCCUGUUCAUGUGUGUCCUGUAGAACGAUACGUUAUACUUCCGCUGCGCCUCUACAUCUAGGGGAAAUAUC
(((.(((..(((((((((.........(((((((((((((((((....)))))))))))...))))))(((.((((...)))).))).....)))))))))..))).))).......... (-35.54 = -36.18 +   0.64)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,330,915 – 16,331,035
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.58
Mean single sequence MFE -33.52
Consensus MFE -30.50
Energy contribution -30.34
Covariance contribution -0.16
Combinations/Pair 1.09
Mean z-score -1.57
Structure conservation index 0.91
SVM decision value 1.50
SVM RNA-class probability 0.958998
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16330915 120 - 27905053
AAGGUAAUACUUUAUGGUCGACUUGAUGGCUGGAUAAAAGCUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUGGUGAAUAGGGUCAUGACCCUGUUCAUGUGUUUCCGGUAAAACGAUAC
..((.(((((..((((..(..((((.(((((.......))))).....)))).....)..)))).........(((((((((((....)))))))))))))))).))............. ( -33.70)
>DroSec_CAF1 34152 120 - 1
AAGGUAAUACUUGAUGGUCGACUUGAUGGCUGGAUAAAAGCUAAAUGACGAGGUGUAGGUCAUGCAGAGAAUGGUGAAUAGGGUCAUGACCCUGUUCAUGUGUGUCCUGUAGAACGAUAC
(((......)))....((((.((((.(((((.......))))).....))))...((((.((((((........((((((((((....)))))))))))))))).)))).....)))).. ( -33.80)
>DroSim_CAF1 35723 120 - 1
AAGGUAAUACUUAAUGGUCGACUUGAUGGCUGGAUAAAAGCUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUAGUGAAUAGGGUCAUGACCCUGUUCAUGUGUGUCCUGUAGAACGAUAC
...((..(((...(((..(..((((.(((((.......))))).....)))).....)..)))....(((((((((((((((((....)))))))))))...)))))))))..))..... ( -35.30)
>DroEre_CAF1 32301 120 - 1
GAGGUAGUACUUAAUGGUCGACUUGAUGGCUGGAUAAAAGCUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUGGUAAAUAGGGUCAUGACCCUGUUCAUGUGUUUCCUGUAGAACGAUAC
(((......)))....((((......(((((.......))))).(((((.........)))))((((..((((((.((((((((....)))))))).)).))))..))))....)))).. ( -28.90)
>DroYak_CAF1 47354 120 - 1
GAGGUAGUACUUAAUGGUCGACUUGAUGGCUGGAUAAAAGCUAAAUGACGAGGUGUACGUCAUGCAGAGGAUGGUGAAUAGGGUCAUGACCCUAUUCAUGUGUGUCCUGUAGAACGAUAC
(((......)))....((((......(((((.......))))).((((((.......))))))..(.(((((((((((((((((....)))))))))))...)))))).)....)))).. ( -35.90)
>consensus
AAGGUAAUACUUAAUGGUCGACUUGAUGGCUGGAUAAAAGCUAAAUGACGAGGUGUAGGUCAUGCAGAGGAUGGUGAAUAGGGUCAUGACCCUGUUCAUGUGUGUCCUGUAGAACGAUAC
(((......)))....((((......(((((.......))))).(((((.........)))))((((.((...(((((((((((....))))))))))).....))))))....)))).. (-30.50 = -30.34 +  -0.16)

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 12:17:02 2006