Locus 3868

Sequence ID 3L_DroMel_CAF1
Location 11,197,411 – 11,197,549
Length 138
Max. P 0.939035
window6020 window6021

overview

Window 0

Location 11,197,411 – 11,197,509
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 91.36
Mean single sequence MFE -40.22
Consensus MFE -34.13
Energy contribution -34.13
Covariance contribution 0.00
Combinations/Pair 1.15
Mean z-score -1.64
Structure conservation index 0.85
SVM decision value 0.16
SVM RNA-class probability 0.612065
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11197411 98 - 23771897
UGGAACUCCUCUGUGCUGGCAAUUGCUGUGGCAGCUGUUCUUGCAGCGGCGUUUCGUGGUAGUAGUUGACCUCGAGGACAUUGCUGCCACGACUGGAC
.(((((.((....(((((((....)))..))))(((((....))))))).)))))(((((((((((.(.((....)).))))))))))))........ ( -38.60)
>DroSec_CAF1 6352 98 - 1
UGGAACUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGUUCUUGCAGCGGCGUCUCGUGGUAGUAGUUGACCUCGAGGACAUUGCUGCCCCGACUGGAC
.(..((.((.(((((..(((((((((....)))))))))..))))).)).))..)(.(((((((((.(.((....)).)))))))))).)........ ( -37.30)
>DroSim_CAF1 6240 98 - 1
UGGAACUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGUUCUUGCAGCGGCGUUUCGUGGUAGUAGUUGACCUCGAGGACAUUGCUGCCCCGACUGGAC
.(((((.((.(((((..(((((((((....)))))))))..))))).)).)))))(.(((((((((.(.((....)).)))))))))).)........ ( -39.90)
>DroEre_CAF1 6950 98 - 1
UGGAGCUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGCUCUUGCAGCGGCGUUUCGUGGUAGUAGUUGACCUCCAGGACGUUGCUGCCCCGGCUGGAC
.((....))((((.((((((((((((....))))))))....((((((((((((..(((..((.....))..)))))))))))))))..)))))))). ( -42.70)
>DroYak_CAF1 6797 98 - 1
UGGAGCUCCUCUGUGCUGGCAGUUGCUGUGGCAGUUGCUCUUGCAGCGGCGUUUCGUGAUAAUAGUUCACCUCCAGGACGUUGCUGCCCCGGCUCGAC
..(((((..........((((..(((....)))..))))...((((((((((((.((((.......)))).....))))))))))))...)))))... ( -36.00)
>DroAna_CAF1 6701 98 - 1
UGGAGCUCCUCUGGGGCGGCAGUUGCUGUGGCUGCUGCUCCUGCAGCGGCGUUUCAUGGUAGUAGUUCACCUCCAGGACGUUGCUGCCCCGAUUGGCC
....(((..((.((((((((((((((((((((((((((....))))))))....))))))))..((((.......)))).))))))))))))..))). ( -46.80)
>consensus
UGGAACUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGCUCUUGCAGCGGCGUUUCGUGGUAGUAGUUGACCUCCAGGACAUUGCUGCCCCGACUGGAC
((((((.((.(((((..(((((((((....)))))))))..))))).)).)))))).(((((((((...((....))..))))))))).......... (-34.13 = -34.13 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,197,451 – 11,197,549
Length 98
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 79.96
Mean single sequence MFE -26.18
Consensus MFE -25.45
Energy contribution -25.32
Covariance contribution -0.13
Combinations/Pair 1.14
Mean z-score -1.39
Structure conservation index 0.97
SVM decision value 1.30
SVM RNA-class probability 0.939035
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11197451 98 - 23771897
CUAUUAUAUAUAAAUACUUCUAAAUCAGUUUUCUGACCUGUGGAACUCCUCUGUGCUGGCAAUUGCUGUGGCAGCUGUUCUUGCAGCGGCGUUUCGUG
........................((((....)))).....(((((.((....(((((((....)))..))))(((((....))))))).)))))... ( -23.80)
>DroSec_CAF1 6392 80 - 1
CUAUUA------------------UCAGUUUCCUGACCUGUGGAACUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGUUCUUGCAGCGGCGUCUCGUG
......------------------((((....)))).....(..((.((.(((((..(((((((((....)))))))))..))))).)).))..)... ( -26.80)
>DroEre_CAF1 6990 75 - 1
-----A------------------UAAGUUAUCUGACCUGUGGAGCUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGCUCUUGCAGCGGCGUUUCGUG
-----.------------------.................(((((.((.(((((..(((((((((....)))))))))..))))).)).)))))... ( -29.60)
>DroYak_CAF1 6837 75 - 1
-----A------------------AAAGUUCUCUGACCUGUGGAGCUCCUCUGUGCUGGCAGUUGCUGUGGCAGUUGCUCUUGCAGCGGCGUUUCGUG
-----.------------------.................(((((.((.(((((..((((..(((....)))..))))..))))).)).)))))... ( -24.50)
>consensus
_____A__________________UAAGUUUUCUGACCUGUGGAACUCCUCUGUGCUGGCAGUUGCUGUGGCAGCUGCUCUUGCAGCGGCGUUUCGUG
.........................................(((((.((.(((((..(((((((((....)))))))))..))))).)).)))))... (-25.45 = -25.32 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:44 2006