Locus 6236

Sequence ID	3R_DroMel_CAF1
Location	16,290,802 – 16,290,922
Length	120
Max. P	0.957987

overview

Window 2

Location	16,290,802 – 16,290,922
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-24.20
Consensus MFE	-24.20
Energy contribution	-24.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.52
Structure conservation index	1.00
SVM decision value	0.30
SVM RNA-class probability	0.676616
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16290802 120 + 27905053
AGAUAUCAGCGGACGUUGUCUACUGUUCAGCUGAAAUCGAGAGAGAGAAGUACAAUUUGUUCAAUUAAUUAUUGAAAUUGAAGCGAACAGCUGAAUAAUUGCCAAAGGAAAAUAAAGUAA
........((((((...))))..((((((((((...((....))...........(((((((((((.........))))).))))))))))))))))...)).................. ( -24.20)
>DroSec_CAF1 11441 120 + 1
AGAUAUCAGCGGACGUUGUCUACUGUUCAGCUGAAAUCGAGAGAGAGAAGUACAAUUUGUUCAAUUAAUUAUUGAAAUUGAAGCGAACAGCUGAAUAAUUGCCAAAGGAAAAUAAAGUAA
........((((((...))))..((((((((((...((....))...........(((((((((((.........))))).))))))))))))))))...)).................. ( -24.20)
>DroSim_CAF1 3558 120 + 1
AGAUAUCAGCGGACGUUGUCUACUGUUCAGCUGAAAUCGAGAGAGAGAAGUACAAUUUGUUCAAUUAAUUAUUGAAAUUGAAGCGAACAGCUGAAUAAUUGCCAAAGGAAAAUAAAGUAA
........((((((...))))..((((((((((...((....))...........(((((((((((.........))))).))))))))))))))))...)).................. ( -24.20)
>consensus
AGAUAUCAGCGGACGUUGUCUACUGUUCAGCUGAAAUCGAGAGAGAGAAGUACAAUUUGUUCAAUUAAUUAUUGAAAUUGAAGCGAACAGCUGAAUAAUUGCCAAAGGAAAAUAAAGUAA
........((((((...))))..((((((((((...((....))...........(((((((((((.........))))).))))))))))))))))...)).................. (-24.20 = -24.20 +  -0.00)

alignment

secondary structure

dotplot

Window 3

Location	16,290,802 – 16,290,922
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	100.00
Mean single sequence MFE	-21.90
Consensus MFE	-21.90
Energy contribution	-21.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.34
Structure conservation index	1.00
SVM decision value	1.48
SVM RNA-class probability	0.957987
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16290802 120 - 27905053
UUACUUUAUUUUCCUUUGGCAAUUAUUCAGCUGUUCGCUUCAAUUUCAAUAAUUAAUUGAACAAAUUGUACUUCUCUCUCUCGAUUUCAGCUGAACAGUAGACAACGUCCGCUGAUAUCU
.........................((((((((.(((..((((((.........))))))((.....))............)))...))))))))(((..(((...)))..)))...... ( -21.90)
>DroSec_CAF1 11441 120 - 1
UUACUUUAUUUUCCUUUGGCAAUUAUUCAGCUGUUCGCUUCAAUUUCAAUAAUUAAUUGAACAAAUUGUACUUCUCUCUCUCGAUUUCAGCUGAACAGUAGACAACGUCCGCUGAUAUCU
.........................((((((((.(((..((((((.........))))))((.....))............)))...))))))))(((..(((...)))..)))...... ( -21.90)
>DroSim_CAF1 3558 120 - 1
UUACUUUAUUUUCCUUUGGCAAUUAUUCAGCUGUUCGCUUCAAUUUCAAUAAUUAAUUGAACAAAUUGUACUUCUCUCUCUCGAUUUCAGCUGAACAGUAGACAACGUCCGCUGAUAUCU
.........................((((((((.(((..((((((.........))))))((.....))............)))...))))))))(((..(((...)))..)))...... ( -21.90)
>consensus
UUACUUUAUUUUCCUUUGGCAAUUAUUCAGCUGUUCGCUUCAAUUUCAAUAAUUAAUUGAACAAAUUGUACUUCUCUCUCUCGAUUUCAGCUGAACAGUAGACAACGUCCGCUGAUAUCU
.........................((((((((.(((..((((((.........))))))((.....))............)))...))))))))(((..(((...)))..)))...... (-21.90 = -21.90 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:21 2006