Locus 7109

Sequence ID 3R_DroMel_CAF1
Location 18,745,403 – 18,745,503
Length 100
Max. P 0.626812
window11496 window11497

overview

Window 6

Location 18,745,403 – 18,745,503
Length 100
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 90.83
Mean single sequence MFE -29.93
Consensus MFE -23.87
Energy contribution -24.18
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.45
Structure conservation index 0.80
SVM decision value -0.02
SVM RNA-class probability 0.522523
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18745403 100 + 27905053
CCCAUAUAAAUUCGUAUAUUAGCAUAC---------ACAUUUGCAUGCCGCGUCCCCUGGGCGAUUGCCAUGCGAUAAUUAUGGCAGUCGAAUCCCGAAAAGGACGCAG
..(((.(((((..((((......))))---------..))))).)))..((((((..(((((((((((((((.......)))))))))))...))))....)))))).. ( -34.10)
>DroSec_CAF1 4203 109 + 1
CCCAUAUAAAUUCGUAUAUUAGCAUACACAGCAGACACAUUUGCACGCCGCGUCCCCUGGGCGAUUGCCAUGCGAUAAUUAUGGCAGGCGAAUACCGAAAAGGACGCCG
.(((((.....((((((....(((......(((((....))))).((((.((.....))))))..))).))))))....)))))..((((....((.....)).)))). ( -29.90)
>DroSim_CAF1 4216 109 + 1
CCCAUAUAAAUUCGUAUAUUAGCAUACACAGCAGACACAUUUGCACGCCGCGUCCCCUGGGCGAUUGCCAUGCGAUAAUUAUGGCAGGCGAAUCCCGAAAAGCACGCAG
.....................((.......(((((....))))).((((.(((((...)))))..(((((((.......)))))))))))...............)).. ( -27.60)
>DroEre_CAF1 4216 108 + 1
CCCAUAUAAAUUCGUAUAUUAGCAUACACAGAAUACACAUUUGCAGGCUGCGUCC-CUGGGCGAUUGCUAUGCGAUAAUUAUGGCAGGCGUAUCCCGAAAAGGACGCAG
.(((((((......)))))..(((.................))).))((((((((-.((((((.((((((((.......)))))))).))...))))....)))))))) ( -28.13)
>consensus
CCCAUAUAAAUUCGUAUAUUAGCAUACACAGCAGACACAUUUGCACGCCGCGUCCCCUGGGCGAUUGCCAUGCGAUAAUUAUGGCAGGCGAAUCCCGAAAAGGACGCAG
.....................(((.................))).....((((((..((((((.((((((((.......)))))))).))...))))....)))))).. (-23.87 = -24.18 +   0.31)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,745,403 – 18,745,503
Length 100
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 90.83
Mean single sequence MFE -34.65
Consensus MFE -26.86
Energy contribution -28.30
Covariance contribution 1.44
Combinations/Pair 1.06
Mean z-score -1.66
Structure conservation index 0.78
SVM decision value 0.19
SVM RNA-class probability 0.626812
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18745403 100 - 27905053
CUGCGUCCUUUUCGGGAUUCGACUGCCAUAAUUAUCGCAUGGCAAUCGCCCAGGGGACGCGGCAUGCAAAUGU---------GUAUGCUAAUAUACGAAUUUAUAUGGG
..(((((((((..(((...(((.((((((.........)))))).)))))))))))))))((((((((....)---------))))))).(((((......)))))... ( -37.30)
>DroSec_CAF1 4203 109 - 1
CGGCGUCCUUUUCGGUAUUCGCCUGCCAUAAUUAUCGCAUGGCAAUCGCCCAGGGGACGCGGCGUGCAAAUGUGUCUGCUGUGUAUGCUAAUAUACGAAUUUAUAUGGG
(((((((((((..((((((.((((((.((....)).))).)))))).))).)))))))))((((((((...((....))..))))))))......))............ ( -36.10)
>DroSim_CAF1 4216 109 - 1
CUGCGUGCUUUUCGGGAUUCGCCUGCCAUAAUUAUCGCAUGGCAAUCGCCCAGGGGACGCGGCGUGCAAAUGUGUCUGCUGUGUAUGCUAAUAUACGAAUUUAUAUGGG
..((((.((((..((((((.((((((.((....)).))).))))))).)).)))).))))((((((((...((....))..)))))))).(((((......)))))... ( -33.00)
>DroEre_CAF1 4216 108 - 1
CUGCGUCCUUUUCGGGAUACGCCUGCCAUAAUUAUCGCAUAGCAAUCGCCCAG-GGACGCAGCCUGCAAAUGUGUAUUCUGUGUAUGCUAAUAUACGAAUUUAUAUGGG
((((((((((...(((....((.(((.((....)).)))..)).....)))))-))))))))(((....(((((.((((.((((((....)))))))))).)))))))) ( -32.20)
>consensus
CUGCGUCCUUUUCGGGAUUCGCCUGCCAUAAUUAUCGCAUGGCAAUCGCCCAGGGGACGCGGCGUGCAAAUGUGUCUGCUGUGUAUGCUAAUAUACGAAUUUAUAUGGG
..(((((((((..(((...((..((((((.........))))))..))))))))))))))((((((((...(......)..)))))))).(((((......)))))... (-26.86 = -28.30 +   1.44)

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 12:37:33 2006