Locus 5169

Sequence ID 2R_DroMel_CAF1
Location 16,827,936 – 16,828,029
Length 93
Max. P 0.843920
window8264 window8265

overview

Window 4

Location 16,827,936 – 16,828,029
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -37.66
Consensus MFE -29.80
Energy contribution -30.67
Covariance contribution 0.87
Combinations/Pair 1.26
Mean z-score -2.51
Structure conservation index 0.79
SVM decision value 0.76
SVM RNA-class probability 0.843920
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16827936 93 + 20766785
UUGAGGCCUCACGUUUAACCCUUGCCGGUGGCUGCUCUGUCGCAUCCGCCGAACUUCGCAGAUUGAGCAGCUCCCGGCGAAUGGCCUCUACAU
..((((((....(.....)..(((((((..(((((((.(((((....))((.....))..))).)))))))..)))))))..))))))..... ( -42.30)
>DroPse_CAF1 27447 93 + 1
CGGCCACUUCCCGUUUGAUUCUGGCCAGAGGCUGAUCUGUCGGCUCGCUAGGCGACCUCAGAUUCAGCAGCUCGCGGCGUAUGGCCUCCACAU
.(((((..(.((((..(.((((....))))(((((((((..((.((((...)))))).)))).)))))..)..)))).)..)))))....... ( -34.20)
>DroSec_CAF1 23583 93 + 1
UGGAGGCCUCACGUUUAACCCUUGCCGGUGGCUGCUCUGUCGCAUCCGCCGAACCUCGCAGAUUGAGCAACUCCCGGCGGAUGGCCUCUACAU
((((((((((..(.....)...((((((..(.(((((.(((((....))((.....))..))).))))).)..)))))))).))))))))... ( -37.60)
>DroSim_CAF1 21576 93 + 1
UGGAGGCCUCACGUUUAACCCUUGCCGGUGGCUGCUCUGUCGCAUCCGCCGAACUUCGCAGAUUGAGCAACUCCCGGCGGAUGGCCUCUACAU
((((((((((..(.....)...((((((..(.(((((.(((((....))((.....))..))).))))).)..)))))))).))))))))... ( -37.60)
>DroEre_CAF1 21917 93 + 1
UAGAGGCUUCACGUUUAACCCUUGCCGGUGGCUGCUCUGUCGCAUCCCCCGGACUUCGCAGGUUGAGCAGCUCCCGCCGGAUGGCUUCUACAU
((((((((...(((((((((...(((((.((.(((......))).)).)))).)......)))))))).((....)).)...))))))))... ( -33.10)
>DroYak_CAF1 21959 93 + 1
UAGAGGCUUCACGUUUUACCCUUGCCGGUGGCUGCUCUGUCGCAUCCCCUGGACUUCGCAGGUUGAGCAGCUCCCGGCGAAUGGCCUCUACGU
((((((((.............(((((((..(((((((..((((.(((...)))....)).))..)))))))..)))))))..))))))))... ( -41.16)
>consensus
UGGAGGCCUCACGUUUAACCCUUGCCGGUGGCUGCUCUGUCGCAUCCCCCGAACUUCGCAGAUUGAGCAGCUCCCGGCGGAUGGCCUCUACAU
.(((((((.............(((((((.((((((((.(((((..............)).))).)))))))).)))))))..))))))).... (-29.80 = -30.67 +   0.87)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,827,936 – 16,828,029
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 84.44
Mean single sequence MFE -39.77
Consensus MFE -25.89
Energy contribution -26.37
Covariance contribution 0.48
Combinations/Pair 1.21
Mean z-score -2.61
Structure conservation index 0.65
SVM decision value 0.01
SVM RNA-class probability 0.537299
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16827936 93 - 20766785
AUGUAGAGGCCAUUCGCCGGGAGCUGCUCAAUCUGCGAAGUUCGGCGGAUGCGACAGAGCAGCCACCGGCAAGGGUUAAACGUGAGGCCUCAA
.....((((((....(((((..(((((((.((((((........))))))......)))))))..)))))...(......)....)))))).. ( -45.10)
>DroPse_CAF1 27447 93 - 1
AUGUGGAGGCCAUACGCCGCGAGCUGCUGAAUCUGAGGUCGCCUAGCGAGCCGACAGAUCAGCCUCUGGCCAGAAUCAAACGGGAAGUGGCCG
.......((((((..((((.(((..(((((.((((.((((((...)))).))..)))))))))))))))).....((......)).)))))). ( -36.40)
>DroSec_CAF1 23583 93 - 1
AUGUAGAGGCCAUCCGCCGGGAGUUGCUCAAUCUGCGAGGUUCGGCGGAUGCGACAGAGCAGCCACCGGCAAGGGUUAAACGUGAGGCCUCCA
.....((((((.((((((((..(((((((.((((((........))))))......)))))))..)))))...(......)).)))))))).. ( -42.10)
>DroSim_CAF1 21576 93 - 1
AUGUAGAGGCCAUCCGCCGGGAGUUGCUCAAUCUGCGAAGUUCGGCGGAUGCGACAGAGCAGCCACCGGCAAGGGUUAAACGUGAGGCCUCCA
.....((((((.((((((((..(((((((.((((((........))))))......)))))))..)))))...(......)).)))))))).. ( -42.10)
>DroEre_CAF1 21917 93 - 1
AUGUAGAAGCCAUCCGGCGGGAGCUGCUCAACCUGCGAAGUCCGGGGGAUGCGACAGAGCAGCCACCGGCAAGGGUUAAACGUGAAGCCUCUA
...((((.(((....)))((..(((((((..(((.((.....)).))).((...)))))))))..))(((.(.(......).)...))))))) ( -31.40)
>DroYak_CAF1 21959 93 - 1
ACGUAGAGGCCAUUCGCCGGGAGCUGCUCAACCUGCGAAGUCCAGGGGAUGCGACAGAGCAGCCACCGGCAAGGGUAAAACGUGAAGCCUCUA
...(((((((..((((((((..(((((((..((((.(....)))))(.......).)))))))..)))))...(......)..)))))))))) ( -41.50)
>consensus
AUGUAGAGGCCAUCCGCCGGGAGCUGCUCAAUCUGCGAAGUCCGGCGGAUGCGACAGAGCAGCCACCGGCAAGGGUUAAACGUGAAGCCUCCA
.....(((((.....(((((..(((((((....(((...(((.....))))))...)))))))..)))))..(.......).....))))).. (-25.89 = -26.37 +   0.48)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:16 2006