Locus 935

Sequence ID 3L_DroMel_CAF1
Location 2,805,919 – 2,806,014
Length 95
Max. P 0.873216
window1438

overview

Window 8

Location 2,805,919 – 2,806,014
Length 95
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 68.06
Mean single sequence MFE -23.47
Consensus MFE -11.24
Energy contribution -10.88
Covariance contribution -0.36
Combinations/Pair 1.17
Mean z-score -1.76
Structure conservation index 0.48
SVM decision value 0.88
SVM RNA-class probability 0.873216
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2805919 95 - 23771897
---GGAGGG------AAGUGGAGUUGUGGGUG-----GCUAUAUAUGUACAUAGCUAUAGCUUAAUGGGUGGCAUGAAAUAUUGCCGGCUAAAGUUUUUUCCAAAAUGA
---((((((------((.(.(((((((((.((-----..(((....)))..)).)))))))))..(((.(((((........))))).))).).))))))))....... ( -27.90)
>DroVir_CAF1 67631 73 - 1
---GGCUGG-------GGUGGGGCUAAGAGAG-----AC------------------UCGCUUAAUGGGUGGCAUGAAAUAUUGCCGGCUGAAGUUUUG---CAAAUGA
---.((..(-------((((((.((.....))-----.)------------------))))))...((.(((((........))))).))........)---)...... ( -18.30)
>DroPse_CAF1 60544 93 - 1
GAGCGAAAG------AAGUGGAGUUGUGGGUGUACCGGCCACCA--------GGGGCUGGCUUAAUGGGUGGCAUGAAAUAUUGCCGGCUAAAGUUUUUUUCCAAAU--
..(.(((((------((.(..(((((..(((((..((((((((.--------.(((....)))....)))))).))..)))))..)))))..).))))))).)....-- ( -26.50)
>DroSim_CAF1 40910 95 - 1
---GGAGGG------AAGUGGAGUUGUGGGUG-----GCUAUAUGUGUACAUAGCUAUAGCUUAAUGGGUGGCAUGAAAUAUUGCCGGCUAAAGUUUUUUCCAAAAUGA
---((((((------((.(.(((((((((.((-----..(((....)))..)).)))))))))..(((.(((((........))))).))).).))))))))....... ( -27.90)
>DroMoj_CAF1 52820 72 - 1
---GGCAGG-------GGCGGGGCUGAC-GGG-----AC------------------UCGCUUAAUGGGUGGCAUGAAAUAUUGCCGGCUGAAGUUUUG---CAAAUGA
---.(((((-------((((((.((...-.))-----.)------------------))))))...((.(((((........))))).))......)))---)...... ( -21.90)
>DroAna_CAF1 40119 82 - 1
---CGAGGGGCAAGCGAGGGAAGUUGUGGGAG-----GCUA------------------ACUUAAUGGGUGGCAUGAAAUAUUGCCGGCUAAAGUUUUUU-CAAAAUGA
---...(..(.((((.(((..((((......)-----))).------------------.)))..(((.(((((........))))).)))..)))))..-)....... ( -18.30)
>consensus
___GGAGGG______AAGUGGAGUUGUGGGUG_____GCUA________________UAGCUUAAUGGGUGGCAUGAAAUAUUGCCGGCUAAAGUUUUUU_CAAAAUGA
...........................................................((((..(((.(((((........))))).))))))).............. (-11.24 = -10.88 +  -0.36) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:48 2006