Locus 3188

Sequence ID 3L_DroMel_CAF1
Location 9,297,733 – 9,297,879
Length 146
Max. P 0.906631
window4967 window4968

overview

Window 7

Location 9,297,733 – 9,297,840
Length 107
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 72.34
Mean single sequence MFE -31.92
Consensus MFE -19.66
Energy contribution -20.22
Covariance contribution 0.56
Combinations/Pair 1.28
Mean z-score -1.71
Structure conservation index 0.62
SVM decision value 0.96
SVM RNA-class probability 0.889570
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9297733 107 + 23771897
AAUGGUUUUUUUCCUGUGUCUGUGUGUGCAAAGUGGCGGA-CAAAGGACCAGCAGACAUGAGUUCUCCGGACACAUGUCAAUUAAAUUUUGGGCUAUGGCUCGCUGGC
...........((((.(((((((............)))))-)).))))(((((.((((((.(((.....))).))))))...........((((....))))))))). ( -37.70)
>DroSec_CAF1 145806 105 + 1
AGUGUUUU-UUUCUCCUGUGUGUGUGUGCAAAGUGGCGGA-CAAAGGACCAGCAGACAUGAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCUAUGGCUCGCUGGC
........-....((((.....(((.(((......))).)-)).))))(((((.((((((.(((.....))).))))))........-..((((....))))))))). ( -35.30)
>DroSim_CAF1 148855 105 + 1
AAUGUUUU-UUUCUCCUGUGUGUGUGUGCAAAGUGGCGGA-CAAAGGACCAGCAGACAUGAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCUAUGGCUCGCUGGC
........-....((((.....(((.(((......))).)-)).))))(((((.((((((.(((.....))).))))))........-..((((....))))))))). ( -35.30)
>DroWil_CAF1 261031 90 + 1
--------------AGUGGCUGCUUGAUUGUAGUAGAGUAAAAAUGGAAGAGGAGACA-AAGUCC--UGGACACAUGUCAAUUAAAG-UUAACGCACGGUUCGCCUCC
--------------.((((((((......)))))...((......(((...(....).-...)))--..(((....)))........-...)).)))((....))... ( -16.70)
>DroYak_CAF1 164604 92 + 1
AAUGGGUUUUU--UCCUGUGUGUGUUUGCA-------------AAGGAGCAGCGGACAUGAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCUAUGGCCCGCUGCC
...........--((((.(((......)))-------------.))))(((((.((((((.(((.....))).))))))........-..((((....))))))))). ( -34.60)
>consensus
AAUGGUUU_UUUCUCCUGUGUGUGUGUGCAAAGUGGCGGA_CAAAGGACCAGCAGACAUGAGUUCUCCGGACACAUGUCAAUUAAAU_UUGGGCUAUGGCUCGCUGGC
................................................(((((.((((((.(((.....))).))))))...........((((....))))))))). (-19.66 = -20.22 +   0.56)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,297,772 – 9,297,879
Length 107
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 83.12
Mean single sequence MFE -30.37
Consensus MFE -22.22
Energy contribution -21.42
Covariance contribution -0.80
Combinations/Pair 1.21
Mean z-score -2.16
Structure conservation index 0.73
SVM decision value 1.05
SVM RNA-class probability 0.906631
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9297772 107 + 23771897
ACAAAGGACCAGCAGACAU----GAGUUCUCCGGACACAUGUCAAUUAAAUUUUGGGCUAUGGCUCGCUGGCUGGUUUUCCCGC-UUUUCCACUUCCAAUUUCCCGCUUCUC
.....(((.((((.(((((----(.(((.....))).))))))...........((((....))))))))((.((....)).))-...)))..................... ( -29.10)
>DroSec_CAF1 145844 106 + 1
ACAAAGGACCAGCAGACAU----GAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCUAUGGCUCGCUGGCUGGUUUUCCCGC-UUUUCCACUACCAAUUUCCCGCUUCUC
.....((((((((.(((((----(.(((.....))).))))))........-..((((....))))))))).((((........-.........))))...)))........ ( -29.13)
>DroSim_CAF1 148893 106 + 1
ACAAAGGACCAGCAGACAU----GAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCUAUGGCUCGCUGGCUGGUUUUCCCGC-UUUUCCACUACCAAUUUCCCGCUUCUC
.....((((((((.(((((----(.(((.....))).))))))........-..((((....))))))))).((((........-.........))))...)))........ ( -29.13)
>DroYak_CAF1 164632 104 + 1
---AAGGAGCAGCGGACAU----GAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCUAUGGCCCGCUGCCUGGUUUUUCCGCCUUUUCCACUGCCAAUUUCCCGCUUCUC
---..((((((((.(((((----(.(((.....))).))))))........-..((((....)))))))))..(((......)))...)))..................... ( -33.30)
>DroAna_CAF1 145837 91 + 1
UCAAAGGUCCGGCAGACAUGUUUGAGUUCUCCGGACACAUGUCAAUUAAAU-UUGGGCCAUGGCUCGCUGGCCAGCUUU--------------------UUGCGAGCUCUUC
.....((.(((((.(((((((....(((.....))))))))))........-..((((....)))))))))))(((((.--------------------....))))).... ( -31.20)
>consensus
ACAAAGGACCAGCAGACAU____GAGUUCUCCGGACACAUGUCAAUUAAAU_UUGGGCUAUGGCUCGCUGGCUGGUUUUCCCGC_UUUUCCACUACCAAUUUCCCGCUUCUC
.....((.(((((.(((((......(((.....)))..)))))...........((((....)))))))))))....................................... (-22.22 = -21.42 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:39 2006