Locus 6848

Sequence ID 3R_DroMel_CAF1
Location 18,119,673 – 18,119,767
Length 94
Max. P 0.680350
window11114

overview

Window 4

Location 18,119,673 – 18,119,767
Length 94
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 74.90
Mean single sequence MFE -46.64
Consensus MFE -25.51
Energy contribution -26.88
Covariance contribution 1.36
Combinations/Pair 1.17
Mean z-score -1.63
Structure conservation index 0.55
SVM decision value 0.30
SVM RNA-class probability 0.680350
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18119673 94 - 27905053
GGCGGUAGGCGAGGUGGCAGUGGCCACUCC-GUG--GGGCGUCAGGGUACCUGUGGUGCCAUGACUCAUGGU---------GCCAAGACCAA------GACC------CAUGCCCAUG
........(((..(((((....)))))..)-)).--((((((..((((.....(((..(((((...))))).---------.))).......------.)))------)))))))... ( -43.62)
>DroPse_CAF1 152652 97 - 1
GGCCCCAAUGAGGCUGGCCGAGGCCACCGAGGUGGUGGGCGA---------UGUGGCGCCCACGCUCAGGCCGUGACCGUGACCGUGGCCCA------GGCC------CAGGCCCAUG
.......(((.((((((((..((((((.(((...(((((((.---------.....))))))).))).(((((....)).).))))))))..------))))------..))))))). ( -47.80)
>DroSec_CAF1 150344 94 - 1
GGCGGUAGGCGAGGUGGAACUGGCCACUCC-GUG--GGGCGUCAGGGUACCGGUGGUGCCAUGACUUAUGGU---------GCCAAGACCAA------GACC------CAUGCCCAUG
.((((..(((.((......)).)))...))-)).--((((((..((((...(((((..(((((...))))).---------.))...)))..------.)))------)))))))... ( -43.70)
>DroSim_CAF1 155175 94 - 1
GGCGGUAGGCGAGGUGGCAGUGGCCACUCC-GUG--GGGCGUCAGGGUACCGGUGGUGCCAUGACUCAUGGU---------GCCAAGACCAA------GACC------CAUGCCCAUG
........(((..(((((....)))))..)-)).--((((((..((((...(((((..(((((...))))).---------.))...)))..------.)))------)))))))... ( -45.20)
>DroEre_CAF1 161731 100 - 1
GGCGGUGGGCGAGGUGGCGGUGGCCACUCC-GUG--GGGCGUCAGGGUCCCAGUGGUUCCAUGGCUCAUGGU---------GCCAAGACCAAGGCCAAGACC------CAUGCCCAUG
....(((((((..(((((....)))))..)-(((--((..(((..((((....((((.(((((...))))).---------)))).))))..))).....))------))))))))). ( -48.20)
>DroYak_CAF1 158711 106 - 1
AGCGGUGGGCGAGGUGGCGGUGGCCACUCC-GUG--GGGCGUCAGGGUACCGGUGGUGCCAUGACUCAUGGU---------GCCAAGACCAAGGCCAAGACCCAAGCCCAUGCCCAUG
....(((((((..(((((....)))))..)-...--(((((((..(((...(((((..(((((...))))).---------.))...)))...)))..)))....))))..)))))). ( -51.30)
>consensus
GGCGGUAGGCGAGGUGGCAGUGGCCACUCC_GUG__GGGCGUCAGGGUACCGGUGGUGCCAUGACUCAUGGU_________GCCAAGACCAA______GACC______CAUGCCCAUG
............((((((....))))))........((((((((.(((((.....))))).))))...((((...............))))....................))))... (-25.51 = -26.88 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:25 2006