Locus 6148

Sequence ID 2L_DroMel_CAF1
Location 17,148,093 – 17,148,293
Length 200
Max. P 0.942734
window9821 window9822 window9823 window9824 window9825

overview

Window 1

Location 17,148,093 – 17,148,213
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.50
Mean single sequence MFE -35.12
Consensus MFE -32.02
Energy contribution -32.30
Covariance contribution 0.28
Combinations/Pair 1.08
Mean z-score -1.63
Structure conservation index 0.91
SVM decision value 1.33
SVM RNA-class probability 0.942734
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17148093 120 + 22407834
UUUGGCCUCAUUAAAGCGCCUCCGGUCAGAGCCGGGCCACUGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCU
(((((((....((..(((.((((((((((((.(((....))).((((....)))).)))).))))))....)).)))..)).......(((((((....))))))).)))))))...... ( -37.40)
>DroSec_CAF1 108880 120 + 1
UUUGGCCUCAUUAAAGCGCCUCCGGUCAAAGCCGGGCCACUGAAUUAUUUAUAAUACUCUCAACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCU
(((((((........((((.((.(((....)))(((((..(((................)))...)))))..)).).)))........(((((((....))))))).)))))))...... ( -32.09)
>DroSim_CAF1 121110 120 + 1
UUUGGCCUCAUUAAAGCGCCUCCGGUCAGAGCCGGGCCACUGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACUUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCU
(((((((......((((....((((((((((.(((....))).((((....)))).)))).)))))).....).)))...........(((((((....))))))).)))))))...... ( -35.80)
>DroEre_CAF1 106479 120 + 1
UUUGGCCUCAUUAAAGCGCCUCCGGUCAGAGCCGGGCCACUGAAUUAUUUAUAAUACUCUCGGCCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUGUGCCACGGCCAAAUUGUCU
(((((((....((..(((.((((((((((((.(((....))).((((....)))).)))).))))))....)).)))..)).......((((((......)))))).)))))))...... ( -36.10)
>DroYak_CAF1 108984 120 + 1
UUUGGCCUCAUUAAAGUGCCUCCGGUCUGAGCCGGGCCACUGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUGUGCCACGGCCAAAUUGUCU
(((((((.......((((.(.(((((....)))))).))))...................((((..(((...))))))).........((((((......)))))).)))))))...... ( -34.20)
>consensus
UUUGGCCUCAUUAAAGCGCCUCCGGUCAGAGCCGGGCCACUGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCU
(((((((....((..(((.((((((((((((.(((....))).((((....)))).)))).))))))....)).)))..)).......(((((((....))))))).)))))))...... (-32.02 = -32.30 +   0.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,148,093 – 17,148,213
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.50
Mean single sequence MFE -36.81
Consensus MFE -34.56
Energy contribution -34.68
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -1.17
Structure conservation index 0.94
SVM decision value 0.08
SVM RNA-class probability 0.572340
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17148093 120 - 22407834
AGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCAGUGGCCCGGCUCUGACCGGAGGCGCUUUAAUGAGGCCAAA
......(((((((.((((((......))))))..........(.(((((....((((((.(((((.......((......))......)))))))))))))))))........))))))) ( -38.92)
>DroSec_CAF1 108880 120 - 1
AGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUUGAGAGUAUUAUAAAUAAUUCAGUGGCCCGGCUUUGACCGGAGGCGCUUUAAUGAGGCCAAA
......(((((((.((((((......)))))).....((((..((.(((..(.....)..)))))..))))........((((.(((((......)))).).)))).......))))))) ( -34.70)
>DroSim_CAF1 121110 120 - 1
AGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGAAGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCAGUGGCCCGGCUCUGACCGGAGGCGCUUUAAUGAGGCCAAA
......(((((((.((((((......))))))..........((((((((...((((((.(((((.......((......))......)))))))))))))).))))).....))))))) ( -37.42)
>DroEre_CAF1 106479 120 - 1
AGACAAUUUGGCCGUGGCACAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGCCGAGAGUAUUAUAAAUAAUUCAGUGGCCCGGCUCUGACCGGAGGCGCUUUAAUGAGGCCAAA
......(((((((.(((((........))))).....((((..((.((((((.....))))))))..))))........((((.(((((......)))).).)))).......))))))) ( -37.30)
>DroYak_CAF1 108984 120 - 1
AGACAAUUUGGCCGUGGCACAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCAGUGGCCCGGCUCAGACCGGAGGCACUUUAAUGAGGCCAAA
......(((((((((((.......))))(((..(((((.......)))))...((((((..((((.......((......))......)))).)))))).)))..........))))))) ( -35.72)
>consensus
AGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCAGUGGCCCGGCUCUGACCGGAGGCGCUUUAAUGAGGCCAAA
......(((((((.((((((......)))))).....((((..((.((((((.....))))))))..))))........((((.(((((......)))).).)))).......))))))) (-34.56 = -34.68 +   0.12)

alignment

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secondary structure

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Window 3

Location 17,148,133 – 17,148,253
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.31
Mean single sequence MFE -29.26
Consensus MFE -24.18
Energy contribution -24.54
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.83
SVM decision value 0.29
SVM RNA-class probability 0.668522
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17148133 120 + 22407834
UGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAGUAUAUAUAUACACCUCCCUCUGAGGUGAGUGUCC
.............((((((..(((..(((...))))))((((((.((.(((((((....))))))).))....(((((....)))))....))))))(((((.....))))))))))).. ( -28.30)
>DroSec_CAF1 108920 119 + 1
UGAAUUAUUUAUAAUACUCUCAACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCUCGCUCUGAGGUGAGUGUCC
.....(((((((((.((......((((((...))).............(((((((....)))))))))).......))..))))))-))).((((.((((((.....)))))).)))).. ( -28.02)
>DroSim_CAF1 121150 119 + 1
UGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACUUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCUCGCUCUGAGGUGAGUGUCC
.....(((((((((.((...(((..((((...)))))))......((.(((((((....))))))).)).......))..))))))-))).((((.((((((.....)))))).)))).. ( -29.10)
>DroEre_CAF1 106519 119 + 1
UGAAUUAUUUAUAAUACUCUCGGCCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUGUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCGCCCUCUGAGGUGAGCGUCC
.....(((((((((.((....((((((((...))).............((((((......))))))))))).....))..))))))-)))......((((.........))))....... ( -29.30)
>DroYak_CAF1 109024 119 + 1
UGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUGUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCUCCCUCGGAGGUGAGUGUCC
.....(((((((((.((...((((..(((...)))))))......((.((((((......)))))).)).......))..))))))-))).((((.(((((((...))))))).)))).. ( -31.60)
>consensus
UGAAUUAUUUAUAAUACUCUCGACCGGUCCAAGACGUCGUAUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAA_AUAUAUAUACACCUCCCUCUGAGGUGAGUGUCC
.............((((((...........((((((.........((.(((((((....))))))).))......))))))................(((((.....))))))))))).. (-24.18 = -24.54 +   0.36)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,148,133 – 17,148,253
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.31
Mean single sequence MFE -31.32
Consensus MFE -27.56
Energy contribution -27.68
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -1.34
Structure conservation index 0.88
SVM decision value 0.32
SVM RNA-class probability 0.689182
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17148133 120 - 22407834
GGACACUCACCUCAGAGGGAGGUGUAUAUAUAUACUAUAAAGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCA
..(((((..((.....))..))))).((((.(((((.....(((....(((((.((((((......)))))).(((((.......))))))).))))))...)))))))))......... ( -29.10)
>DroSec_CAF1 108920 119 - 1
GGACACUCACCUCAGAGCGAGGUGUAUAUAUAU-UUAUAAAGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUUGAGAGUAUUAUAAAUAAUUCA
(((....((((((.....))))))......(((-((((((..((..((..((((((((((......)))))).(((((.......)))))....))))..)).)).))))))))).))). ( -30.90)
>DroSim_CAF1 121150 119 - 1
GGACACUCACCUCAGAGCGAGGUGUAUAUAUAU-UUAUAAAGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGAAGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCA
(((....((((((.....))))))......(((-((((((..((..((((((((((((((......)))))).(((((.......)))))....)))))))).)).))))))))).))). ( -32.40)
>DroEre_CAF1 106519 119 - 1
GGACGCUCACCUCAGAGGGCGGUGUAUAUAUAU-UUAUAAAGACAAUUUGGCCGUGGCACAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGCCGAGAGUAUUAUAAAUAAUUCA
((((((((........))))).........(((-((((((..((..(((((((((((((........))))).(((((.......)))))....)))))))).)).))))))))).))). ( -31.80)
>DroYak_CAF1 109024 119 - 1
GGACACUCACCUCCGAGGGAGGUGUAUAUAUAU-UUAUAAAGACAAUUUGGCCGUGGCACAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCA
(((....(((((((...)))))))......(((-((((((..((..(((((((((((((........))))).(((((.......)))))....)))))))).)).))))))))).))). ( -32.40)
>consensus
GGACACUCACCUCAGAGGGAGGUGUAUAUAUAU_UUAUAAAGACAAUUUGGCCGUGGCAUAUUACCAUGCCAAGGGAUAUACGACGUCUUGGACCGGUCGAGAGUAUUAUAAAUAAUUCA
....(((((((((.....)))))........................(((((((((((((......)))))).(((((.......)))))....)))))))))))............... (-27.56 = -27.68 +   0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,148,173 – 17,148,293
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.98
Mean single sequence MFE -37.12
Consensus MFE -35.82
Energy contribution -36.18
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.35
Structure conservation index 0.96
SVM decision value 1.04
SVM RNA-class probability 0.905056
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17148173 120 + 22407834
AUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAGUAUAUAUAUACACCUCCCUCUGAGGUGAGUGUCCGUCCCCUGGGGCUGGUCGGCGAAAGUUGAAUAGGAAGUUC
...(((..(((((((....)))))))((((((...................((((.((((((.....)))))).))))..((((....))))))))))((....))......)))..... ( -38.20)
>DroSec_CAF1 108960 119 + 1
AUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCUCGCUCUGAGGUGAGUGUCCGUCCCCUGGGGCUGGUAGGCGAAAGUUGAAUAGGAAGUUC
...(((.(((((.((((.....))))..))))).((((((......-....((((.((((((.....)))))).))))((((((....)))).)).))))))..........)))..... ( -35.10)
>DroSim_CAF1 121190 119 + 1
AUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCUCGCUCUGAGGUGAGUGUCCGUCCCCUGGGGCUGGUCGGCGAAAGUUGAAUAGGAAGUUC
...(((..(((((((....)))))))((((((..............-....((((.((((((.....)))))).))))..((((....))))))))))((....))......)))..... ( -38.50)
>DroEre_CAF1 106559 119 + 1
AUAUCCCUUGGCAUGGUAAUGUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCGCCCUCUGAGGUGAGCGUCCGUCCCCUGGGGCUGGUCGGCGAAAGUUGAAUAGGAAGUUC
...(((.(((((.((((.....))))..))))).............-...........(((((((...(((.(..(....)..))))))))).))(((((....)))))...)))..... ( -33.90)
>DroYak_CAF1 109064 119 + 1
AUAUCCCUUGGCAUGGUAAUGUGCCACGGCCAAAUUGUCUUUAUAA-AUAUAUAUACACCUCCCUCGGAGGUGAGUGUCCGUCCCCUGGGGCUGGUCGGCGAAAGUUGAAUAGGAAGUUC
...(((..((((((......))))))((((((..............-....((((.(((((((...))))))).))))..((((....))))))))))((....))......)))..... ( -39.90)
>consensus
AUAUCCCUUGGCAUGGUAAUAUGCCACGGCCAAAUUGUCUUUAUAA_AUAUAUAUACACCUCCCUCUGAGGUGAGUGUCCGUCCCCUGGGGCUGGUCGGCGAAAGUUGAAUAGGAAGUUC
...(((..(((((((....)))))))((((((...................((((.((((((.....)))))).))))..((((....))))))))))((....))......)))..... (-35.82 = -36.18 +   0.36)

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 12:03:41 2006