Locus 5424

Sequence ID 2R_DroMel_CAF1
Location 17,475,302 – 17,475,515
Length 213
Max. P 0.706399
window8651 window8652

overview

Window 1

Location 17,475,302 – 17,475,414
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -36.42
Consensus MFE -23.07
Energy contribution -22.97
Covariance contribution -0.11
Combinations/Pair 1.34
Mean z-score -2.04
Structure conservation index 0.63
SVM decision value 0.36
SVM RNA-class probability 0.706399
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17475302 112 + 20766785
--------UUUAGCGUUCUCUGGCUGGCGUUCAUCUGCGUGGCAUUGUUCAGUAUCAUUUCGCUGAGCAAACGCACUUGGCAUCGCUUUCAGACCUCGCCAAUGGUUAUAUCCAUGGAUC
--------....(((...(((((..((((.(((..(((((....(((((((((........))))))))))))))..)))...)))).)))))...)))..((((......))))..... ( -36.00)
>DroPse_CAF1 4898 120 + 1
CCCCCUUGCGAAGAAUGCUCUGGUUCGCGUUCAUCUGCGUGGCUCUGUUCAGCAUCAUAUCGCUGAGCAAGCGGACCUGGCAUCGCUUCCAGACCUCUCCCAUGGUCAUAUCCAUGGAUC
.....(((.((((.(((((..(((((((((......)))).(((.((((((((........)))))))))))))))).)))))..))))))).......((((((......))))))... ( -46.00)
>DroGri_CAF1 7292 112 + 1
--------UUUAGCAUGCUCUGGUUUGCGUUUAUCUGUGUGGCCCUGUUCAGCAUCAUCUCGCUGAGCCAACGCACUUGGCAACGGUUUCAGACCUCGCCCAUGGUCAUUUCGAUGGAUC
--------....(((.((....)).)))(((((((...((((((..(((((((........)))))))..........(((...((((...))))..)))...))))))...))))))). ( -32.60)
>DroWil_CAF1 9590 112 + 1
--------UGUAGAAUGCUUUGGUUUGCCUUCAUCUGUGUGGCCCUGUUUAGCAUCAUCUCGUUGAGUAAACGCACUUGGCUACGUUUUCAGACCUCACCCAUGGUCAUAUCGAUGGAUA
--------....(((.((........)).)))((((((((((((.((((((...(((......))).)))))).....)))))).......((((........))))......)))))). ( -26.20)
>DroAna_CAF1 3357 112 + 1
--------UCCAGGAUGCUCUGGUUCGCCUUCAUCUGCGUGGCUCUCUUCAGCAUCAUCUCCCUGAGCAAGCGGACUUGGCAUCGCUUCCAGACCUCUCCCAUGGUCAUUUCCAUGGAUC
--------((((.((((((..(((((((...(((....)))((((...................))))..))))))).)))))).......((((........)))).......)))).. ( -33.21)
>DroPer_CAF1 4910 120 + 1
CCCCCUUCCGAAGAAUGCUCUGGUUCGCGUUCAUCUGCGUGGCUCUGUUCAGCAUCAUAUCGCUGAGCAAGCGGACCUGGCAUCGCUUCCAGACCUCACCCAUGGUCAUAUCCAUGGAUC
.........((((.(((((..(((((((((......)))).(((.((((((((........)))))))))))))))).)))))..))))..........((((((......))))))... ( -44.50)
>consensus
________UGUAGAAUGCUCUGGUUCGCGUUCAUCUGCGUGGCUCUGUUCAGCAUCAUCUCGCUGAGCAAACGCACUUGGCAUCGCUUCCAGACCUCACCCAUGGUCAUAUCCAUGGAUC
..................(((((...(((.(((..(.(((.....((((((((........)))))))).))).)..)))...)))..)))))......((((((......))))))... (-23.07 = -22.97 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,475,414 – 17,475,515
Length 101
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 80.96
Mean single sequence MFE -33.83
Consensus MFE -20.55
Energy contribution -20.67
Covariance contribution 0.12
Combinations/Pair 1.32
Mean z-score -1.64
Structure conservation index 0.61
SVM decision value -0.00
SVM RNA-class probability 0.531340
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17475414 101 + 20766785
GGAAUAAGCUGGUCUGGAACACCAGCUUUCCAUCGCUCACAGUCUGUCCGCAUAAGCGGAUCGAUGAGUUGAAAGUGGAGGAGUACAUACUGUGAGUUAAA-------
((((..(((((((.......)))))))))))...((((((((((.((((((....)))))).))..........(((........))).))))))))....------- ( -37.00)
>DroPse_CAF1 5018 107 + 1
GCAACAAGCUGGUGUGGAACACGAGCUUCCCCUCGCUGACCGUGUGUCCGCACAAGCGCAUCGAUGAGCUCAAAGUGGAGGAGUACAUACUGUGAGUG-AGUCCCAGA
.......(((.(((((((((((((((........)))...))))).))))))).))).....(((..(((((.((((..(.....).)))).))))).-.)))..... ( -35.70)
>DroGri_CAF1 7404 99 + 1
GCAAUAAGCUGGUGUGGAAUACUAGUUUUCCAUCGCUCACGGUGUGUCCCCAUAAGCGCAUCGAUGAUAUCAAACUGGAGGAUUAUAUACUGUGAGUG-U--------
.....((((((((((...)))))))))).....(((((((((((((((((((.......(((...))).......))).))))...))))))))))))-.-------- ( -30.24)
>DroEre_CAF1 3645 94 + 1
GGAACAAGCUGGUGUGGAACACCAGCUUUCCCUCGCUCACGGUGUGUCCGCACAAGCGGAUCGAUGAGCUGAAGGUGGAGGAGUACAUAGUGUG--------------
...(((((((((((.....))))))))((((..((((..((((.(((((((....))))).))....))))..))))..)))).......))).-------------- ( -37.30)
>DroMoj_CAF1 8850 99 + 1
GCAAUAAGCUGGUGUGGAACACCAGCUUCCCAUCGCUCACCGUGUGUCCGCACAAGCGCAUCGAUGACAUCAAGCUGGAGGAUUACAUAGAGUAAGCC-U--------
((...(((((((((.....)))))))))..(((((.......((((....)))).......))))).......))...(((.((((.....)))).))-)-------- ( -30.64)
>DroPer_CAF1 5030 107 + 1
GCAACAAGCUGGUGUGGAACACGAGCUUCCCCUCGCUGACCGUGUGUCCGCACAAGCGCAUCGAUGAGCUCAAAGUGGAGGAGUACAUACUGUAAGUG-AGUCCCAGA
.....(((((.(((.....))).)))))...((((((.((.((((((((.(((.(((.((....)).)))....)))..)))...))))).)).))))-))....... ( -32.10)
>consensus
GCAACAAGCUGGUGUGGAACACCAGCUUCCCAUCGCUCACCGUGUGUCCGCACAAGCGCAUCGAUGAGCUCAAAGUGGAGGAGUACAUACUGUGAGUG_A________
.......(((.(((((((((((((((........)))...))))).))))))).)))......(((.((((.........)))).))).................... (-20.55 = -20.67 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:27 2006