Locus 1498

Sequence ID 2R_DroMel_CAF1
Location 5,681,322 – 5,681,431
Length 109
Max. P 0.864072
window2541

overview

Window 1

Location 5,681,322 – 5,681,431
Length 109
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -36.11
Consensus MFE -20.81
Energy contribution -21.87
Covariance contribution 1.06
Combinations/Pair 1.08
Mean z-score -2.22
Structure conservation index 0.58
SVM decision value 0.84
SVM RNA-class probability 0.864072
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5681322 109 - 20766785
UUCUGGAGUGCCGUGGAGCGAAGAGGGGGG-GCAGCUGAAAUGGCGCACAGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUGCCAC-GUUUUGCAGCAG
..(((..(((((((..(((...........-...)))...))))))).((((((((((((((..(((.((.((.....))....)).)))))))))))-)))))))))... ( -42.24)
>DroPse_CAF1 16785 92 - 1
---AGGCGUGCCA----------CGGAAGA-GCA-CUGCAACGGC----GGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUUGCACAGUUUUGUGGCAG
---.....(((((----------(((((..-(((-((((.(((..----....))).)))))...))....((((((.((.......)).))))))....)))))))))). ( -36.30)
>DroSec_CAF1 18322 99 - 1
UUCAGGAGUGCGG----------AGGUGGG-GCAGCUGAAAUGGCGCACGGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUGCCAC-GUUUUGCAGCAG
(((((..((.(..----------.....).-))..)))))...((...((((((((((((((..(((.((.((.....))....)).)))))))))))-))))))..)).. ( -35.30)
>DroSim_CAF1 20945 100 - 1
UUCAGGAGUGCGG----------AGGAGGGAGCAGCUGAAAUGGCGCACGGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUGCCAC-GUUUUGCAGCAG
(((((...(((..----------........))).)))))...((...((((((((((((((..(((.((.((.....))....)).)))))))))))-))))))..)).. ( -34.90)
>DroYak_CAF1 19192 89 - 1
------------------GGAUGAG--GGA-GCAGCUGAAAUGGCGCACGGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUGCCAC-GUUUUGCAGCAG
------------------.......--...-((.(((.....)))(((..((((((((((((..(((.((.((.....))....)).)))))))))))-))))))).)).. ( -32.30)
>DroPer_CAF1 16643 92 - 1
---AGGCGUGCCA----------CGGAAGA-GCA-CUGCAACAGC----GGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUUGCACAGUUUUGUGGCAG
---.....(((((----------(((((..-((.-((((....))----))......(((....))).)).((((((.((.......)).))))))....)))))))))). ( -35.60)
>consensus
___AGGAGUGCCG__________AGGAGGA_GCAGCUGAAAUGGCGCACGGAACGUGGCAGUAAUGCAGCAGCAAGUGGCACAAGUAGCAGCUGCCAC_GUUUUGCAGCAG
...............................((.(((.....)))...((((((((((((((..(((.((.((.....))....)).))))))))))).))))))..)).. (-20.81 = -21.87 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:15 2006