Locus 3055

Sequence ID 3L_DroMel_CAF1
Location 8,826,636 – 8,826,740
Length 104
Max. P 0.761943
window4767

overview

Window 7

Location 8,826,636 – 8,826,740
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.88
Mean single sequence MFE -18.78
Consensus MFE -12.25
Energy contribution -13.37
Covariance contribution 1.11
Combinations/Pair 1.13
Mean z-score -2.17
Structure conservation index 0.65
SVM decision value 0.50
SVM RNA-class probability 0.761943
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8826636 104 + 23771897
UGCGGGAAAAAGCUUCCUCCGGGAAGACUACACAUUAAAAUGAAACAUUUCCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGUCGUCCCGA
...(((((.....))))).(((((.(((....(((....)))........................((((......))))..............))).))))). ( -18.80)
>DroSec_CAF1 86842 103 + 1
UCCGGGAAAAUGCUUCCU-CGGGAAGACUACACAUUAAAGUGAAACAUUUCCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGUCGUCCCGA
...(((((.....)))))-(((((.(((.......(((((.(((....))).))))).........((((......))))..............))).))))). ( -22.10)
>DroSim_CAF1 87574 103 + 1
UCCGGGAAAAUGCUUCCG-CGGGAAGACUACACAUUAAAGUGAAACAUUUCCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGUCGUCCCGA
..(((((......)))))-(((((.(((.......(((((.(((....))).))))).........((((......))))..............))).))))). ( -23.00)
>DroEre_CAF1 90879 103 + 1
UGCGGGAAAAUACUUCCU-CGGGAAGACUACACAUUAAAGUGAAACAUUUCCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGUCGUCCCGA
...(((((.....)))))-(((((.(((.......(((((.(((....))).))))).........((((......))))..............))).))))). ( -22.10)
>DroYak_CAF1 89300 85 + 1
-------------------CGGGAAGACUACACAUUAAAGUGAAACAUUUCCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGUCGUCCCGA
-------------------(((((.(((.......(((((.(((....))).))))).........((((......))))..............))).))))). ( -18.50)
>DroAna_CAF1 88693 79 + 1
UC------------------------ACGAUGUCUUCUGGCCAAA-AGUCUCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGCCAUCCCGA
((------------------------((((.(((....)))..((-((....))))........)))))).................................. (  -8.20)
>consensus
UCCGGGAAAAUGCUUCCU_CGGGAAGACUACACAUUAAAGUGAAACAUUUCCCUUUAUAAUCCUUCGUGACAAACAUCACUUAUCAUUCACACUGUCGUCCCGA
...................(((((.(((..(((......)))........................((((......))))..............))).))))). (-12.25 = -13.37 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:27 2006