Locus 8153

Sequence ID X_DroMel_CAF1
Location 20,273,467 – 20,273,627
Length 160
Max. P 0.999918
window13397 window13398 window13399 window13400

overview

Window 7

Location 20,273,467 – 20,273,587
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.41
Mean single sequence MFE -42.50
Consensus MFE -31.82
Energy contribution -32.22
Covariance contribution 0.40
Combinations/Pair 1.10
Mean z-score -2.44
Structure conservation index 0.75
SVM decision value 1.24
SVM RNA-class probability 0.934308
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20273467 120 + 22224390
ACAUCUCUAGCUGCCACCCACUCCAUCCUGGACUUUGUGCGUAGCACUCCGCGGAGGGCGCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUC
.........((((((((....(((.....)))....))).))))).......(((((((((((((....)))))).........((.(((((...))))))).......))).))))... ( -45.00)
>DroPse_CAF1 12248 110 + 1
----------CUGCCACCCACUCGAUACUGGACUUUGUGCGGAGCACACCGCGUCGCGCCCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCGAACAAGAGCCUCUCCAUC
----------..........(((....((((.....(((((..((.....))..))))))))).((((((((((((((......)).))))))...)))))).....))).......... ( -36.60)
>DroSec_CAF1 3191 120 + 1
ACAUCUCCAGCUGCCACCCACUCCAUCCUGGACUUUGUGCGUAGCACUCCGCGGAGGGCGCAGUUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUC
.........((((((((....(((.....)))....))).))))).......(((((((...((((((((((((((((......)).))))))...)))).))))....))).))))... ( -46.80)
>DroSim_CAF1 3494 120 + 1
ACAUCUCCAGCUGCCACUCACUCCAUCCUGGACUUUGUGCGUAGCACUCCGCGGAGGGCGCAGUUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUC
.........((((((((....(((.....)))....))).))))).......(((((((...((((((((((((((((......)).))))))...)))).))))....))).))))... ( -47.50)
>DroPer_CAF1 12087 110 + 1
----------CUGCCACCCACUCGAUACUGGACUUUGUGCGGAGCACACCGCGUCGCGCCCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCGAACAAGAGCCUCUCCAUC
----------..........(((....((((.....(((((..((.....))..))))))))).((((((((((((((......)).))))))...)))))).....))).......... ( -36.60)
>consensus
ACAUCUC_AGCUGCCACCCACUCCAUCCUGGACUUUGUGCGUAGCACUCCGCGGAGGGCGCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUC
.........((((((.......((.(((((((....((((...)))))))).))).)).((((((....)))))).........))))))...((..((((......)))).))...... (-31.82 = -32.22 +   0.40)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,273,467 – 20,273,587
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.41
Mean single sequence MFE -51.42
Consensus MFE -39.38
Energy contribution -41.14
Covariance contribution 1.76
Combinations/Pair 1.03
Mean z-score -1.58
Structure conservation index 0.77
SVM decision value 0.17
SVM RNA-class probability 0.615012
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20273467 120 - 22224390
GAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGCGCCCUCCGCGGAGUGCUACGCACAAAGUCCAGGAUGGAGUGGGUGGCAGCUAGAGAUGU
......((.(((((....)))))..))(((((..((.((((.((.((((((....))))))..)).))))...((((...))))..(.(((.....))).).))..)))))......... ( -52.10)
>DroPse_CAF1 12248 110 - 1
GAUGGAGAGGCUCUUGUUCGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGGGCGCGACGCGGUGUGCUCCGCACAAAGUCCAGUAUCGAGUGGGUGGCAG----------
.........(((((..((((((((((.(((.(..((...))..)))).))))))).(((((((.....((((......)))).....)))))))...)))..)).)))..---------- ( -49.80)
>DroSec_CAF1 3191 120 - 1
GAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAACUGCGCCCUCCGCGGAGUGCUACGCACAAAGUCCAGGAUGGAGUGGGUGGCAGCUGGAGAUGU
...((((.(((.(..((((.((((((.(((.(..((...))..)))).)))))))))).).))))))).(((..((((((.(((....(((.....)))))).)))))).)))....... ( -53.50)
>DroSim_CAF1 3494 120 - 1
GAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAACUGCGCCCUCCGCGGAGUGCUACGCACAAAGUCCAGGAUGGAGUGAGUGGCAGCUGGAGAUGU
...((((.(((.(..((((.((((((.(((.(..((...))..)))).)))))))))).).))))))).(((..((((((.(((....(((.....)))))).)))))).)))....... ( -51.90)
>DroPer_CAF1 12087 110 - 1
GAUGGAGAGGCUCUUGUUCGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGGGCGCGACGCGGUGUGCUCCGCACAAAGUCCAGUAUCGAGUGGGUGGCAG----------
.........(((((..((((((((((.(((.(..((...))..)))).))))))).(((((((.....((((......)))).....)))))))...)))..)).)))..---------- ( -49.80)
>consensus
GAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGCGCCCUCCGCGGAGUGCUACGCACAAAGUCCAGGAUGGAGUGGGUGGCAGCU_GAGAUGU
(.(((((.(((.(..(((.(((((((.(((.(..((...))..)))).)))))))))).).)))))))))....((((((.(((....(((.....)))))).))))))........... (-39.38 = -41.14 +   1.76)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,273,507 – 20,273,627
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -52.94
Consensus MFE -48.18
Energy contribution -48.30
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -2.85
Structure conservation index 0.91
SVM decision value 4.55
SVM RNA-class probability 0.999918
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20273507 120 + 22224390
GUAGCACUCCGCGGAGGGCGCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUCGACCAGUUCCCGAUGGAGUCGCCGCUGAUCCUCCAGCAGC
..........((((((((..((((.(((((((((((((......)).))))))...)))))......(.((..((((((((.........))))))))..))))))).)))))).))... ( -52.70)
>DroPse_CAF1 12278 120 + 1
GGAGCACACCGCGUCGCGCCCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCGAACAAGAGCCUCUCCAUCGAUCAGUAUCCGGUGGAGUCGCCGCUGCUGCUGCUGCAAC
(((((.....(((...)))..((((....)))))))))..((.(((((((((((...((((......))))..((((((((.........))))))))....))))))))))).)).... ( -54.40)
>DroSec_CAF1 3231 120 + 1
GUAGCACUCCGCGGAGGGCGCAGUUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUCGACCAGUUCCCGCUGGAGUCGCCGCUGCUCCUCCAGCAAC
..........((((((((.((((((....)))))).))......((((((.((((((((((......))))...........(((((....))))))))))).)))))).)))).))... ( -51.60)
>DroSim_CAF1 3534 120 + 1
GUAGCACUCCGCGGAGGGCGCAGUUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUCGACCAGUUCCCGCUGGAGUCGCCGCUGCUCCUCCAGCAAC
..........((((((((.((((((....)))))).))......((((((.((((((((((......))))...........(((((....))))))))))).)))))).)))).))... ( -51.60)
>DroPer_CAF1 12117 120 + 1
GGAGCACACCGCGUCGCGCCCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCGAACAAGAGCCUCUCCAUCGAUCAGUAUCCGGUGGAGUCGCCGCUGCUGCUGCUGCAAC
(((((.....(((...)))..((((....)))))))))..((.(((((((((((...((((......))))..((((((((.........))))))))....))))))))))).)).... ( -54.40)
>consensus
GUAGCACUCCGCGGAGGGCGCAGCUGAGCAGCUGCUCCACCACCGGCAGCAGCGACUGCUCCAACAAGAGCCUCUCCAUCGACCAGUUCCCGCUGGAGUCGCCGCUGCUCCUCCAGCAAC
..........(((((((..((((((....)))))).........((((((.(((((.((((......))))...(((((((.........)))))))))))).))))))))))).))... (-48.18 = -48.30 +   0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,273,507 – 20,273,627
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -60.64
Consensus MFE -52.58
Energy contribution -52.70
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -2.28
Structure conservation index 0.87
SVM decision value 2.84
SVM RNA-class probability 0.997352
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20273507 120 - 22224390
GCUGCUGGAGGAUCAGCGGCGACUCCAUCGGGAACUGGUCGAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGCGCCCUCCGCGGAGUGCUAC
.((((.(((((..((((((((((((((((((.......))))))))...(((((....))))).))))))))))...(..((.((((....)))).))..)..)))))))))........ ( -62.00)
>DroPse_CAF1 12278 120 - 1
GUUGCAGCAGCAGCAGCGGCGACUCCACCGGAUACUGAUCGAUGGAGAGGCUCUUGUUCGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGGGCGCGACGCGGUGUGCUCC
....((.(.(((((((((((..(((((.(((.......))).)))))..((((......)))).))))))))))).).))..(((((((((((((.((.....)))).))))).)))))) ( -58.30)
>DroSec_CAF1 3231 120 - 1
GUUGCUGGAGGAGCAGCGGCGACUCCAGCGGGAACUGGUCGAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAACUGCGCCCUCCGCGGAGUGCUAC
.((((.((((((((((((((..(((((((((((.((..((....))..)).)))))))))))..)))))))))((((((....((((....)))).)))).)))))))))))........ ( -62.30)
>DroSim_CAF1 3534 120 - 1
GUUGCUGGAGGAGCAGCGGCGACUCCAGCGGGAACUGGUCGAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAACUGCGCCCUCCGCGGAGUGCUAC
.((((.((((((((((((((..(((((((((((.((..((....))..)).)))))))))))..)))))))))((((((....((((....)))).)))).)))))))))))........ ( -62.30)
>DroPer_CAF1 12117 120 - 1
GUUGCAGCAGCAGCAGCGGCGACUCCACCGGAUACUGAUCGAUGGAGAGGCUCUUGUUCGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGGGCGCGACGCGGUGUGCUCC
....((.(.(((((((((((..(((((.(((.......))).)))))..((((......)))).))))))))))).).))..(((((((((((((.((.....)))).))))).)))))) ( -58.30)
>consensus
GUUGCUGGAGGAGCAGCGGCGACUCCACCGGGAACUGGUCGAUGGAGAGGCUCUUGUUGGAGCAGUCGCUGCUGCCGGUGGUGGAGCAGCUGCUCAGCUGCGCCCUCCGCGGAGUGCUAC
.((((.((((((((((((((..(((((.(((.......))).)))))..((((......)))).)))))))))((((((....((((....)))).)))).)))))))))))........ (-52.58 = -52.70 +   0.12)

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 12:57:08 2006