Locus 6404

Sequence ID 3L_DroMel_CAF1
Location 17,164,839 – 17,164,946
Length 107
Max. P 0.758336
window10259

overview

Window 9

Location 17,164,839 – 17,164,946
Length 107
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -26.65
Consensus MFE -16.99
Energy contribution -16.93
Covariance contribution -0.05
Combinations/Pair 1.04
Mean z-score -1.84
Structure conservation index 0.64
SVM decision value 0.49
SVM RNA-class probability 0.758336
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17164839 107 + 23771897
---CCCUCCAC-UGGGU----GGCAUUUCACGUUGAUGCCACGCACGAACGCUUACUUUGUCGCAUGCCCAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
---.((.....-.))((----((((((.......))))))))((......)).......((((((...(((.....)))(((..((((((.....))))))..)))...)))))) ( -32.10)
>DroVir_CAF1 58657 97 + 1
------------------GUCCAAAAUGCUCGUCGCUGCCACGCACGAACGCUUACUUUGUCGCAUGCACAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
------------------.........((((((.((......))))))..)).......((((((....((.....)).(((..((((((.....))))))..)))...)))))) ( -21.30)
>DroGri_CAF1 32348 115 + 1
CUGCCUGCCACUUGUGUAGCCAAAAAUGUUCGUUGCUGCUACGCACGAACGCUUACUUUGUCGCAUGCACAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
.(((..((((.(((((((((((((..(((((((.((......))))))))).....))))..)).)))))))....))))((..((((((.....))))))..)).....))).. ( -29.90)
>DroWil_CAF1 60249 103 + 1
---CCCUCUAC-AA--------GUUCUUCAUGCUGCUGCCACGCACGAACGCUUACUUUGUCGCAUGCACAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
---........-((--------((..(((.(((((....)).))).))).)))).....((((((....((.....)).(((..((((((.....))))))..)))...)))))) ( -21.10)
>DroYak_CAF1 52289 101 + 1
-------CG---GUUGU----GGCAUUUCACGUUGAUGCCACGCACGAACGCUUACUUUGUCGCAUGCCCAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
-------((---..(((----((((((.......)))))))))..))............((((((...(((.....)))(((..((((((.....))))))..)))...)))))) ( -32.00)
>DroMoj_CAF1 61346 107 + 1
CUAUCCAGCU--------CUCGAAAAUUCGACUCGCUGCCACGCACGAACGCUUACUUUGUCGCAUGCACAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
.....((((.--------.((((....))))...))))....((......)).......((((((....((.....)).(((..((((((.....))))))..)))...)))))) ( -23.50)
>consensus
___CCC_CCA___________GAAAAUUCACGUUGCUGCCACGCACGAACGCUUACUUUGUCGCAUGCACAACUUUUGGCUAUUAAGUCAUUUUUUGGCUUUUUAGAUUUGCGAC
................................(((.(((...))))))...........((((((....((.....)).(((..((((((.....))))))..)))...)))))) (-16.99 = -16.93 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:37 2006