Locus 783

Sequence ID 3L_DroMel_CAF1
Location 2,345,838 – 2,346,142
Length 304
Max. P 0.913648
window1202 window1203 window1204 window1205 window1206

overview

Window 2

Location 2,345,838 – 2,345,942
Length 104
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 92.63
Mean single sequence MFE -39.33
Consensus MFE -30.90
Energy contribution -32.47
Covariance contribution 1.56
Combinations/Pair 1.07
Mean z-score -2.05
Structure conservation index 0.79
SVM decision value 0.48
SVM RNA-class probability 0.754091
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2345838 104 - 23771897
CAUCUGGACCUGGUCAUAUACGACCAUGUCAGUGCAGAGUUUCACCAUGAUGGGUGCCACCGCCGCAUUGUGAAUAAAGGCGGAGAGCAGGGCCGAAAGCCAGA
(((((((((.(((((......))))).))).(((........))))).))))..((((.(((((..............))))).).))).((.(....)))... ( -32.84)
>DroSec_CAF1 94930 104 - 1
UAUCUGGCCCUCGUCAUAUACGACCAUGUCAGUGCAGAGUUUCACCAUGAUGGGGGCCACCGCCGCAUUGUGGAUAAAGGCGGAGAGCAGGGCCGAAAGCCAGA
..(((((((((((((((....(((..(((....)))..))).....)))))))))))).(((((..............))))))))....((.(....)))... ( -39.14)
>DroEre_CAF1 101533 104 - 1
UAUCUGCACCUCAUCAUGGAUGACCAUGUCAGUGCAGAGUUUCACCAUGAUGGGGGCCACCGCCGCAUUGUGGAUGAAGGCGGAGAGCAGGGCUGAAAGCCAGA
...((((.(((((((((((..(((..(((....)))..)))...)))))))))))....(((((.((((...))))..)))))...))))(((.....)))... ( -43.80)
>DroYak_CAF1 98068 104 - 1
UAUCUGCACCUCAUCAUGGACGACCAUGUCGGUGCAGAGUUUCACCAUGAUGGGGGCCACCGCCGCAUUGUGGAUAAAGGCGGAGAGCAGGGACGAAAGCCAGA
...((((.(((((((((((..(((..(((....)))..)))...)))))))))))....(((((..............)))))...))))((.(....)))... ( -41.54)
>consensus
UAUCUGCACCUCAUCAUAGACGACCAUGUCAGUGCAGAGUUUCACCAUGAUGGGGGCCACCGCCGCAUUGUGGAUAAAGGCGGAGAGCAGGGCCGAAAGCCAGA
...((((.(((((((((((..(((..(((....)))..)))...)))))))))))....(((((..............)))))...))))((.(....)))... (-30.90 = -32.47 +   1.56)

alignment

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secondary structure

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Window 3

Location 2,345,862 – 2,345,982
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.50
Mean single sequence MFE -45.43
Consensus MFE -36.83
Energy contribution -37.45
Covariance contribution 0.62
Combinations/Pair 1.09
Mean z-score -2.44
Structure conservation index 0.81
SVM decision value 1.09
SVM RNA-class probability 0.913648
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2345862 120 + 23771897
CCUUUAUUCACAAUGCGGCGGUGGCACCCAUCAUGGUGAAACUCUGCACUGACAUGGUCGUAUAUGACCAGGUCCAGAUGCCCCUACUGCCGCUCAUCUGGGCCACAAGCAUGGGCACCA
..............((((((((((((((......)))).......((((((((.((((((....)))))).)).))).)))..))))))))))......(((((.((....))))).)). ( -45.10)
>DroSec_CAF1 94954 120 + 1
CCUUUAUCCACAAUGCGGCGGUGGCCCCCAUCAUGGUGAAACUCUGCACUGACAUGGUCGUAUAUGACGAGGGCCAGAUACGCCUACUGCCGCUCAUCUGGGCCACGAGCAUGGGCACCA
..............(((((((((((((((((...((((........))))...))))((((.....)))))))))((......))))))))))......(((((.(......)))).)). ( -40.30)
>DroEre_CAF1 101557 120 + 1
CCUUCAUCCACAAUGCGGCGGUGGCCCCCAUCAUGGUGAAACUCUGCACUGACAUGGUCAUCCAUGAUGAGGUGCAGAUACGCCUACUGCCCCUCAUCUGGGCCACGAGCAUGGGCACCA
.......((...((((..((.((((((((((...((((........))))...))))........(((((((.((((.........)))).))))))).)))))))).)))).))..... ( -43.70)
>DroYak_CAF1 98092 120 + 1
CCUUUAUCCACAAUGCGGCGGUGGCCCCCAUCAUGGUGAAACUCUGCACCGACAUGGUCGUCCAUGAUGAGGUGCAGAUACGCCUACUGCCGCUCAUCUGGGCCACCAGCAUGGGUACCA
....((((((....(((((((((((...(((....)))....((((((((..(((((....)))))....))))))))...))).))))))))....((((....))))..))))))... ( -52.60)
>consensus
CCUUUAUCCACAAUGCGGCGGUGGCCCCCAUCAUGGUGAAACUCUGCACUGACAUGGUCGUACAUGACGAGGUCCAGAUACGCCUACUGCCGCUCAUCUGGGCCACGAGCAUGGGCACCA
..............(((((((((((...(((....)))....((((((((..((((......))))....))))))))...))).))))))))......(((((.(......)))).)). (-36.83 = -37.45 +   0.62)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,345,902 – 2,346,022
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.81
Mean single sequence MFE -47.27
Consensus MFE -36.67
Energy contribution -37.05
Covariance contribution 0.38
Combinations/Pair 1.14
Mean z-score -2.42
Structure conservation index 0.78
SVM decision value 0.84
SVM RNA-class probability 0.864157
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2345902 120 + 23771897
ACUCUGCACUGACAUGGUCGUAUAUGACCAGGUCCAGAUGCCCCUACUGCCGCUCAUCUGGGCCACAAGCAUGGGCACCAGCUACGGUGCCAAUGGCACUCUCUUGGGCUCCCUGGCCAA
..............((((((....))))))((.((((..((((....((((((((....))))..........((((((......))))))...)))).......))))...)))))).. ( -44.90)
>DroSec_CAF1 94994 120 + 1
ACUCUGCACUGACAUGGUCGUAUAUGACGAGGGCCAGAUACGCCUACUGCCGCUCAUCUGGGCCACGAGCAUGGGCACCAGCUACGGUGCCAAUGGCACUCUCUUGGGCUCCCUGGCCAA
.(((....(......)((((....)))))))((((((....(((((.((((((((...........))))...((((((......))))))...))))......)))))...)))))).. ( -43.70)
>DroEre_CAF1 101597 120 + 1
ACUCUGCACUGACAUGGUCAUCCAUGAUGAGGUGCAGAUACGCCUACUGCCCCUCAUCUGGGCCACGAGCAUGGGCACCAGCUACGGAGCCAAUGGCACCCUCUUGGGCUCCUUGGCCAA
..((((((((..(((((....)))))....))))))))...(((((.((((((......)))......))))))))....((((.((((((...((...)).....)))))).))))... ( -48.90)
>DroYak_CAF1 98132 120 + 1
ACUCUGCACCGACAUGGUCGUCCAUGAUGAGGUGCAGAUACGCCUACUGCCGCUCAUCUGGGCCACCAGCAUGGGUACCAGCUAUGGAGCCAAUGGCACCCUCUUGGGCUCCCUGGCCAA
..((((((((..(((((....)))))....))))))))...(((..(((..((((((((((....)))).))))))..)))....((((((...((...)).....))))))..)))... ( -51.60)
>consensus
ACUCUGCACUGACAUGGUCGUACAUGACGAGGUCCAGAUACGCCUACUGCCGCUCAUCUGGGCCACGAGCAUGGGCACCAGCUACGGAGCCAAUGGCACCCUCUUGGGCUCCCUGGCCAA
..((((((((..((((......))))....))))))))......................(((((...((...((((((......))))))....)).(((....))).....))))).. (-36.67 = -37.05 +   0.38)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,345,942 – 2,346,062
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -51.33
Consensus MFE -47.33
Energy contribution -48.20
Covariance contribution 0.87
Combinations/Pair 1.09
Mean z-score -1.56
Structure conservation index 0.92
SVM decision value 0.46
SVM RNA-class probability 0.745285
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2345942 120 + 23771897
CCCCUACUGCCGCUCAUCUGGGCCACAAGCAUGGGCACCAGCUACGGUGCCAAUGGCACUCUCUUGGGCUCCCUGGCCAACGAGUUCGCCGCGGUGGUGGGCAAAGCUCAUGGCUACAAG
..(((((..((((((....)))).....((...((((((......))))))...(((...(((((((.(.....).)))).)))...)))))))..)))))...(((.....)))..... ( -50.40)
>DroSec_CAF1 95034 120 + 1
CGCCUACUGCCGCUCAUCUGGGCCACGAGCAUGGGCACCAGCUACGGUGCCAAUGGCACUCUCUUGGGCUCCCUGGCCAACGAGUUCGUCGCGGUGGUGGGCAAAGCUCAUGGCUACAAG
.((((((..((((.......(((((.((((((.((((((......)))))).)))...)))....((....))))))).(((....))).))))..))))))..(((.....)))..... ( -54.00)
>DroEre_CAF1 101637 120 + 1
CGCCUACUGCCCCUCAUCUGGGCCACGAGCAUGGGCACCAGCUACGGAGCCAAUGGCACCCUCUUGGGCUCCUUGGCCAACGAGUUCGUCUCGGUGGUGGGCAGAGCUUAUGGCUACAAG
.(((..((((((.(((((..(((((..(((.(((...))))))..((((((...((...)).....)))))).)))))...(((.....)))))))).)))))).......)))...... ( -48.50)
>DroYak_CAF1 98172 120 + 1
CGCCUACUGCCGCUCAUCUGGGCCACCAGCAUGGGUACCAGCUAUGGAGCCAAUGGCACCCUCUUGGGCUCCCUGGCCAACGAGUUCGUCGCGGUGGUGGGCAGGGCUCAUGGCUACAAG
.((((((..((((.(((((((....)))).)))(((.(((....))).)))...(((...(((((((.(.....).)))).)))...)))))))..))))))..(((.....)))..... ( -52.40)
>consensus
CGCCUACUGCCGCUCAUCUGGGCCACGAGCAUGGGCACCAGCUACGGAGCCAAUGGCACCCUCUUGGGCUCCCUGGCCAACGAGUUCGUCGCGGUGGUGGGCAAAGCUCAUGGCUACAAG
.((((((..((((.......(((((...((...((((((......))))))....)).(((....))).....))))).(((....))).))))..))))))..(((.....)))..... (-47.33 = -48.20 +   0.87)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,346,022 – 2,346,142
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.83
Mean single sequence MFE -35.95
Consensus MFE -29.19
Energy contribution -30.20
Covariance contribution 1.00
Combinations/Pair 1.06
Mean z-score -1.68
Structure conservation index 0.81
SVM decision value 0.38
SVM RNA-class probability 0.713425
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2346022 120 + 23771897
CGAGUUCGCCGCGGUGGUGGGCAAAGCUCAUGGCUACAAGAUCACCUUCAGGUCAUUCUUUGUGGUUGGUUUCCUAAUCAUGCUAUUCACCGUUGUCAUCUGCUCGAUUUUCCUAAUUAU
(((((..((.((((((((((((...))))))(((...((((..(((....)))...)))).((((((((....)))))))))))...)))))).)).....))))).............. ( -34.80)
>DroSec_CAF1 95114 120 + 1
CGAGUUCGUCGCGGUGGUGGGCAAAGCUCAUGGCUACAAGAUCACCUUCAGGUCAUUCUUUGUGGUUGGAUUCCCUAUCAUGCUCUUCACCGUUGUCAUCUGCUCGAUUUUCCUAAUUAU
(((((..(.((((((((.(((((........((((((((((..(((....)))...)).))))))))((....)).....))))).)))))).)).)....))))).............. ( -35.20)
>DroEre_CAF1 101717 120 + 1
CGAGUUCGUCUCGGUGGUGGGCAGAGCUUAUGGCUACAAGAUCACCUUCCAGUCAUUCUUUGUGGUCGGUUUCCGCAUUAUGCUCUUCACCGUUGUCAUCUGCUCGAUUUUCCUAAUUAU
(((((..((..(..((((((..(((((..((((((..(((.....)))..))))))....(((((.......)))))....)))))))))))..)..))..))))).............. ( -34.20)
>DroYak_CAF1 98252 120 + 1
CGAGUUCGUCGCGGUGGUGGGCAGGGCUCAUGGCUACAAGAUCACUUUCAGGGGAUUCUUUGUGGUAGGAUUCCGCAUUAUGCUCUUCACCGUUGUCGUCUGCUCGAUAUUCUUAAUUAU
(((((.((.((((((((.(((((((..((...(((((((((((.((....)).))))..)))))))..))..))......))))).)))))).)).))...))))).............. ( -39.60)
>consensus
CGAGUUCGUCGCGGUGGUGGGCAAAGCUCAUGGCUACAAGAUCACCUUCAGGUCAUUCUUUGUGGUUGGAUUCCGCAUCAUGCUCUUCACCGUUGUCAUCUGCUCGAUUUUCCUAAUUAU
(((((.....(((((((.(((((........((((((((((..(((....)))...)).))))))))((...))......))))).)))))))........))))).............. (-29.19 = -30.20 +   1.00)

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 09:51:06 2006