Locus 4591

Sequence ID 2R_DroMel_CAF1
Location 14,974,832 – 14,974,992
Length 160
Max. P 0.949459
window7373 window7374 window7375 window7376

overview

Window 3

Location 14,974,832 – 14,974,952
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.94
Mean single sequence MFE -50.95
Consensus MFE -47.04
Energy contribution -47.10
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.53
Structure conservation index 0.92
SVM decision value 1.39
SVM RNA-class probability 0.949459
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14974832 120 + 20766785
CUGAGGCCCUGCCAGCGGAUAGCGUGUCCAAUGGCACAGCAUCCAAUGUAGCAGCACCGGCGGCGCCAGUAUCGAGCGCAACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAA
(((.((..((((((..((((.(((((((....))))).))))))..))..))))..))((((((((((((...(.((((..(....)..)))))...))))).)))))))..)))..... ( -49.00)
>DroSim_CAF1 5515 120 + 1
CUGAGGCCCUGCCAGCGGAUAGCGUGUCCAAUGGCACAGCAUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAA
(((.((..((((((..((((.(((((((....))))).))))))..))..))))..))((((((((((((...(.(((((.(....).))))))...))))).)))))))..)))..... ( -52.00)
>DroEre_CAF1 5169 120 + 1
CUGAAGCCCUGCCAGCGGAUAGCGUGUCCAAUGGCACAGCAUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAAUGCGGUGCCACCACUGGCCGCCGUCUCUAGCACAA
.....((.((((((..((((.(((((((....))))).))))))..))..))))....((((((((((((...(.(((((.(....).))))))...))))).)))))))....)).... ( -49.10)
>DroYak_CAF1 4831 120 + 1
CUGAAGCCCUGCCAGCGGAUGGUGUGUCCAAUGGCACAGCAUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAA
.....((.((((((..(((((.((((((....)))))).)))))..))..))))....((((((((((((...(.(((((.(....).))))))...))))).)))))))....)).... ( -53.70)
>consensus
CUGAAGCCCUGCCAGCGGAUAGCGUGUCCAAUGGCACAGCAUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAA
.....((.((((((..((((.(((((((....))))).))))))..))..))))....((((((((((((...(.(((((.(....).))))))...))))).)))))))....)).... (-47.04 = -47.10 +   0.06)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,974,832 – 14,974,952
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.94
Mean single sequence MFE -58.38
Consensus MFE -57.03
Energy contribution -57.52
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.98
SVM decision value 1.38
SVM RNA-class probability 0.948158
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14974832 120 - 20766785
UUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUUGCGCUCGAUACUGGCGCCGCCGGUGCUGCUACAUUGGAUGCUGUGCCAUUGGACACGCUAUCCGCUGGCAGGGCCUCAG
....((((....))))((((.((((..((((((((......(((((.......))))))).))))))..))))...........(((((.((((.......)))).))))).)))).... ( -56.00)
>DroSim_CAF1 5515 120 - 1
UUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAUGCUGUGCCAUUGGACACGCUAUCCGCUGGCAGGGCCUCAG
...(((((....))))).(((((((..((((((.....((((((((.......))))))))))))))..)..))))))..(((.(((((.((((.......)))).))))).)))..... ( -60.20)
>DroEre_CAF1 5169 120 - 1
UUGUGCUAGAGACGGCGGCCAGUGGUGGCACCGCAUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAUGCUGUGCCAUUGGACACGCUAUCCGCUGGCAGGGCUUCAG
.(((((.((...((((((((((((..(((.((((....)))).)))...)))))..)))))))...)))).))).((((.(((.(((((.((((.......)))).))))).))))))). ( -56.50)
>DroYak_CAF1 4831 120 - 1
UUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAUGCUGUGCCAUUGGACACACCAUCCGCUGGCAGGGCUUCAG
...(((((....)))))((((((.(..((((((.....((((((((.......))))))))))))))..)......(((((.((((((...)).)))).))))))))))).......... ( -60.80)
>consensus
UUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAUGCUGUGCCAUUGGACACGCUAUCCGCUGGCAGGGCCUCAG
...(((((....))))).(((((((..((((((.....((((((((.......))))))))))))))..)..))))))..(((.(((((.((((.......)))).))))).)))..... (-57.03 = -57.52 +   0.50)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,974,872 – 14,974,992
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -35.45
Consensus MFE -32.15
Energy contribution -32.65
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.91
SVM decision value 0.90
SVM RNA-class probability 0.877423
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14974872 120 + 20766785
AUCCAAUGUAGCAGCACCGGCGGCGCCAGUAUCGAGCGCAACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAACCGCCACCUACGCCACCAACUCGAUCAGCACAUCCUCGCA
.......((((.......((((((((((((...(.((((..(....)..)))))...))))).)))))))....((......))...))))................((........)). ( -32.10)
>DroSim_CAF1 5555 120 + 1
AUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAACCGCCACCUACGCCACCAACUCGAUCAGCACAUCCUCGCA
.......((((..((...((((((((((((...(.(((((.(....).))))))...))))).)))))))....((......)).......))...)))).......((........)). ( -36.60)
>DroEre_CAF1 5209 120 + 1
AUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAAUGCGGUGCCACCACUGGCCGCCGUCUCUAGCACAACCGCCACCUACGCCACCAACUCGAUUAGCACAUCCUCGCA
.......((((..((...((((((((((((...(.(((((.(....).))))))...))))).)))))))....((......)).......))...)))).......((........)). ( -36.90)
>DroYak_CAF1 4871 111 + 1
AUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAACAACCACCUA---------CUCGAUCAGCACAUCCUCGCA
......(((((..((...((((((((((((...(.(((((.(....).))))))...))))).)))))))....)).)))))........---------........((........)). ( -36.20)
>consensus
AUCCAAUGUUGCAGCACCGGCGGCGCCAGUAUCGAGCGCCACAAACGCGGUGCCACCACUGGCCGCCGUCUCCAGCACAACCGCCACCUACGCCACCAACUCGAUCAGCACAUCCUCGCA
.......((((..((...((((((((((((...(.(((((.(....).))))))...))))).)))))))....)).))))..........................((........)). (-32.15 = -32.65 +   0.50)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,974,872 – 14,974,992
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -52.30
Consensus MFE -46.24
Energy contribution -48.05
Covariance contribution 1.81
Combinations/Pair 1.03
Mean z-score -1.89
Structure conservation index 0.88
SVM decision value 0.92
SVM RNA-class probability 0.881783
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14974872 120 - 20766785
UGCGAGGAUGUGCUGAUCGAGUUGGUGGCGUAGGUGGCGGUUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUUGCGCUCGAUACUGGCGCCGCCGGUGCUGCUACAUUGGAU
.(((......)))..(((.((((((..(((..((((((.....(((((....)))))((((((((.....))((((.....)))).....))))))))))))..)))..))).))).))) ( -53.10)
>DroSim_CAF1 5555 120 - 1
UGCGAGGAUGUGCUGAUCGAGUUGGUGGCGUAGGUGGCGGUUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAU
.(((......)))...(((((((.(..(((..((((((.....(((((....)))))(((((((..(((.((((....)))).)))...)))))))))))))..)))..)))).)))).. ( -55.90)
>DroEre_CAF1 5209 120 - 1
UGCGAGGAUGUGCUAAUCGAGUUGGUGGCGUAGGUGGCGGUUGUGCUAGAGACGGCGGCCAGUGGUGGCACCGCAUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAU
.(((......)))...(((((((.(..(((..((((((.(((((.......))))).(((((((..(((.((((....)))).)))...)))))))))))))..)))..)))).)))).. ( -51.10)
>DroYak_CAF1 4871 111 - 1
UGCGAGGAUGUGCUGAUCGAG---------UAGGUGGUUGUUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAU
.((((..((.((((.....))---------)).))..))))..(((((....))))).(((((((..((((((.....((((((((.......))))))))))))))..)..)))))).. ( -49.10)
>consensus
UGCGAGGAUGUGCUGAUCGAGUUGGUGGCGUAGGUGGCGGUUGUGCUGGAGACGGCGGCCAGUGGUGGCACCGCGUUUGUGGCGCUCGAUACUGGCGCCGCCGGUGCUGCAACAUUGGAU
.(((......)))...((((....((((((..((((((.....(((((....)))))(((((((..(((.((((....)))).)))...)))))))))))))..))))))....)))).. (-46.24 = -48.05 +   1.81)

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 11:24:09 2006