Locus 4749

Sequence ID 3R_DroMel_CAF1
Location 12,456,878 – 12,456,977
Length 99
Max. P 0.546120
window7796

overview

Window 6

Location 12,456,878 – 12,456,977
Length 99
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 84.95
Mean single sequence MFE -33.90
Consensus MFE -20.48
Energy contribution -21.22
Covariance contribution 0.75
Combinations/Pair 1.09
Mean z-score -1.95
Structure conservation index 0.60
SVM decision value 0.02
SVM RNA-class probability 0.546120
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12456878 99 - 27905053
AUUUUCCAGCCACCCCAAAA-C---GCCAGCCACUGACCCUAAACCGGGC--CCAGAGUCAUUUGCUCGGGCGGGCC-AGACCACCUGCC-CCUGCCAUAUGAGGCC
....................-.---(((.....(((.(((......))).--.)))..((((..((..(((((((..-......))))))-)..))...))))))). ( -30.70)
>DroAna_CAF1 4552 107 - 1
AUUUUCCAGCCACCCCCAAAACACGGCCAGCCACUGACCCUAAACCAGGCUUCGGGAGUCAGUUGCUGAGCCGGGCAUCGGGCACCGGCCACCUGCCACAUGUGGCC
........(((((..........((((((((.((((((((..((......))..)).)))))).)))).))))((((...(((....)))...))))....))))). ( -47.10)
>DroSim_CAF1 5105 99 - 1
AUUUUCCAGCCACCCCAAAA-C---GCCAGCCACUGACCCUAAACCGGGC--CCAGAGUCAGUUGCUCGGGCGGGCC-AGACCACCUGCC-CCUGCCGCAUGAGGCC
....................-.---(((.....(((.(((......))).--.)))..(((((.((..(((((((..-......))))))-)..)).)).)))))). ( -31.60)
>DroEre_CAF1 5070 94 - 1
AUUUCCCAGCCACCCCAAAA-A---GCCAGCCACUGACCCUAAACCAGGC--CCAGAGUCAGUUGCUCGGACGGGC------CACCUGCC-CCUGCCGCAUGAGGCC
....................-.---((((((.(((((((((.....))).--.....)))))).)))(((..((((------.....)))-)...))).....))). ( -26.20)
>consensus
AUUUUCCAGCCACCCCAAAA_C___GCCAGCCACUGACCCUAAACCAGGC__CCAGAGUCAGUUGCUCGGGCGGGCC_AGACCACCUGCC_CCUGCCACAUGAGGCC
........(((.................(((.(((((((((.....)))........)))))).)))..((((((...((.....))....))))))......))). (-20.48 = -21.22 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:00 2006