Locus 7540

Sequence ID 2L_DroMel_CAF1
Location 20,920,305 – 20,920,425
Length 120
Max. P 0.748736
window12123

overview

Window 3

Location 20,920,305 – 20,920,425
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -23.58
Consensus MFE -20.56
Energy contribution -20.88
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -1.34
Structure conservation index 0.87
SVM decision value 0.47
SVM RNA-class probability 0.748736
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20920305 120 + 22407834
GAGCUCAUUUCACUGCGCCUCAGUCUCUCGAUCAGCCUCCCGAAUGGCUUCUCCCAGGUAUACAUCUUGAUCACCUGAAUACCUGAUAUAAUCUCGUUCAUCAUCCUAACCCGCUGAUCA
((((.((......)).).)))........(((((((...((....)).......(((((((.((...........)).)))))))...........................))))))). ( -22.50)
>DroSec_CAF1 5662 120 + 1
GAGCUCAUUUCACUACGCCGAAGUCUUUCGAUCAGCCUCCCGAAUGGCUUCUCCCAGGUAUACAUCUUGAUCACCUGAAUACCUGAUAUAAUCUCGUUCAUCAUCCUAACCCGCUGAUCA
((((...............((((((.((((..........)))).))))))...(((((((.((...........)).)))))))..........))))..................... ( -22.80)
>DroSim_CAF1 4922 120 + 1
GAGCUCAUUUCACUGCGCCGAAGUCUCUCGAUCAGCCUCCCGAAUGGCUUCUCCCAGGUAUACAUCUUGAUCACCUGAAUACCUGAUAUAAUCUCGUUCAUCAUCCUAACCCGCUGAUCA
(((...(((((........)))))..)))(((((((...((....)).......(((((((.((...........)).)))))))...........................))))))). ( -24.10)
>DroEre_CAF1 4713 120 + 1
GAGCUCAUUUCACUGUGCCGAAGUCUCUCGAUCAGACUCCCAAACGGCUUCUCCCAGGUGUACAUCUUGAUCACUUGCAUGCCUGAUAUGAUCUCGUUCAUCAUCCUAACCCGCUGAUCA
(((...(((((........)))))..)))((((((..........(((......((((((...........))))))...))).(((((((......)))).)))........)))))). ( -25.30)
>DroYak_CAF1 4716 120 + 1
GAGCUCAUUUCACUGCGCCGAAGUCUCUCGAUCAGACUCCCAAAUGGCUUCUCCCAGGUAUACAUCUUGAUUACCUGAAUACCUGAUAUGAUCUCAUUCAUCAUCCUAACCCGCUGAUCA
(((...(((((........)))))..)))((((((...................((((((...........)))))).......(((((((......)))).)))........)))))). ( -23.20)
>consensus
GAGCUCAUUUCACUGCGCCGAAGUCUCUCGAUCAGCCUCCCGAAUGGCUUCUCCCAGGUAUACAUCUUGAUCACCUGAAUACCUGAUAUAAUCUCGUUCAUCAUCCUAACCCGCUGAUCA
(((...(((((........)))))..)))(((((((...((....)).......(((((((.((...........)).)))))))...........................))))))). (-20.56 = -20.88 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:23 2006