Locus 3000

Sequence ID X_DroMel_CAF1
Location 7,998,263 – 7,998,353
Length 90
Max. P 0.722718
window4919

overview

Window 9

Location 7,998,263 – 7,998,353
Length 90
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 68.48
Mean single sequence MFE -31.15
Consensus MFE -14.61
Energy contribution -16.37
Covariance contribution 1.75
Combinations/Pair 1.32
Mean z-score -1.63
Structure conservation index 0.47
SVM decision value 0.40
SVM RNA-class probability 0.722718
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7998263 90 - 22224390
CUGAAUAAGACCUCGCCGCAACGCAGAUUGUGGUAGCCACCGGC---CACAUCCGGCGGUGGCUGCACCUUGAUCAUCGC------G---GCUUGCUCCCUG
........((.(..(((((..(((.....)))((((((((((.(---(......))))))))))))............))------)---))..).)).... ( -36.60)
>DroPse_CAF1 5052 102 - 1
UUGCACAGAACCUCACCGCAUCGAAAGUUGUGAUAAGAGCCGGUUCCUAUCACCGGCAGUGACUGCAACUUGAUCAUCUUGAGCCAAUACUUAUGGCUGAUG
(((((.......((((((((.(....).))))......((((((.......)))))).)))).)))))......((((...(((((.......))))))))) ( -28.90)
>DroSec_CAF1 4003 90 - 1
CUAAACAAGAUCUCGCCGCAUCGCAGAUUGUAGUAGCCACCGGC---CACAUUCGGCGGUGGCUGCACCUUGAUCAUUGC------U---CCGUGCUCCCUG
.....((((((((.((......))))))....((((((((((.(---(......))))))))))))..))))......((------.---....))...... ( -30.50)
>DroEre_CAF1 4151 96 - 1
CUGAACAAGAGCUCGCCGCACCGGAGAUUGUGGUAGCCACCGGC---CACAUCCGGCGGUGGCUGCACCUUUAUCAUCGCGCACCUU---GAUUGUUCACUC
.((((((((((..(((((((........))))((((((((((.(---(......))))))))))))............)))...)))---..)))))))... ( -35.50)
>DroYak_CAF1 3847 90 - 1
CUGAACAAGACCUCGCCGCAUCGGAGAUUAUGGUAGCCACCGGC---CACAUCCGGUGGUGGCUGCACCUUGAUCAUCGC------U---GGUUGCUCCCUG
..............((.((..((..(((((..((((((((((.(---(......))))))))))))....)))))..)).------.---.)).))...... ( -31.30)
>DroAna_CAF1 8655 90 - 1
UUGCACAGAACUUCGCCACACCGAAAAUUGUGGUAUACUCCGGA---UAUGUCUAACGGAGGUUGCAACUUAAUCAUCCU------G---UUGAAGUUCCUG
.......(((((((((((((........))))))...(((((..---.........)))))...................------.---..)))))))... ( -24.10)
>consensus
CUGAACAAGACCUCGCCGCAUCGAAGAUUGUGGUAGCCACCGGC___CACAUCCGGCGGUGGCUGCACCUUGAUCAUCGC______U___GCUUGCUCCCUG
.(((.((((.......((((........))))((((((((((.(..........).))))))))))..)))).))).......................... (-14.61 = -16.37 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:42 2006