Locus 5823

Sequence ID 3L_DroMel_CAF1
Location 15,750,378 – 15,750,491
Length 113
Max. P 0.644201
window9260

overview

Window 0

Location 15,750,378 – 15,750,491
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.14
Mean single sequence MFE -28.05
Consensus MFE -22.81
Energy contribution -23.30
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.81
SVM decision value 0.23
SVM RNA-class probability 0.644201
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15750378 113 - 23771897
CCCAGUUUUCCAACAGACUGACUUCUCAUGCAUUUUUUAGCAGCCACAUUUCGGUCAUAUA-----UAUGCCCAGAGUGCUCCUUCUUGCUCCUUGUUGCCGGUG--GCCUGAGAAGCCU
..((((((......)))))).((((((((((........)))(((((....((((.(((..-----...((..((((......)))).))....))).)))))))--)).)))))))... ( -30.40)
>DroSec_CAF1 2082 109 - 1
CCCAGUUUUCCAACAGACUGACUUCUCAUGCAUUUUUUAGCAGCCACAUUUCGGUCAUAUA-----UAUGCCCAGAGUGCUCCUUC----UCCUUGUUGCCGUUG--GCCUGAGAAACCU
..((((((......))))))..((((((.((........(((((........((.(((...-----.))).)).(((........)----))...))))).....--)).)))))).... ( -23.02)
>DroSim_CAF1 2313 109 - 1
CCCAGUUUUCCAACAGACUGACUUCUCAUGCAUUUUUUAGCAGCCACAUUUCGGUCAUAUA-----UAUGCCCAGAGUGCUCCUUC----UCCUGGUUGCCGGUG--GCCUGAGAAGCCU
..((((((......)))))).(((((((.((.....(..(((((((((((..((.(((...-----.))).))..)))).......----...)))))))..)..--)).)))))))... ( -32.00)
>DroEre_CAF1 2060 116 - 1
CCCAGUUUUCCAGCAGACUGACUUCUCAUGCAUUUUUUAGCAGCCACAUUUCGGUCAUAUAUACUAUAUGCCCAGAGUGCUCCUUC----UCCUUGUUGCCUGCGAAGCCGGAGAAGCCU
..((((((......)))))).((((((..((.(((.(..(((((........((.((((((...)))))).)).(((........)----))...)))))..).)))))..))))))... ( -26.80)
>consensus
CCCAGUUUUCCAACAGACUGACUUCUCAUGCAUUUUUUAGCAGCCACAUUUCGGUCAUAUA_____UAUGCCCAGAGUGCUCCUUC____UCCUUGUUGCCGGUG__GCCUGAGAAGCCU
..((((((......)))))).(((((((.((........(((((..((((..((.((((.......)))).))..))))................))))).......)).)))))))... (-22.81 = -23.30 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:57 2006