Locus 1447

Sequence ID	2R_DroMel_CAF1
Location	5,527,106 – 5,527,207
Length	101
Max. P	0.740987

overview

Window 3

Location	5,527,106 – 5,527,207
Length	101
Sequences	3
Columns	101
Reading direction	forward
Mean pairwise identity	97.36
Mean single sequence MFE	-20.13
Consensus MFE	-19.60
Energy contribution	-19.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.70
Structure conservation index	0.97
SVM decision value	0.45
SVM RNA-class probability	0.740987
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5527106 101 + 20766785
UAUUAUCCACCGUCCCCGCCCGACAUUUAUGCAAAUCAGAUCCAGAUCUAGAUCCGAAUCCCCUCCCCCUGGCCAAACCAACGUCACUUGGCCUGCAUAGC
...........(((.......)))..(((((((..((.((((........)))).)).............((((((...........))))))))))))). ( -20.20)
>DroSec_CAF1 50327 101 + 1
UAUUAUCCACCGUCCCCGCCCGACAUUUAUGCAAAUCAGAUCCAGAUCUAGAUGCGAAUCCCCUCCCCCUGGCCAAACCAUCGCCACUUGGCCUGCAUAGC
...........(((.......)))..(((((((.(((((((....)))).))).................((((((...........))))))))))))). ( -19.80)
>DroSim_CAF1 27687 101 + 1
UAUUAUCCACCGUCCCCGCCCGACAUUUAUGCAAAUCAGAUCCAGAUCUAGAUGCGAGUCCCCUCCCCCUGGCCAAACCAUCGCCACUUGGCCUGCAUAGC
...........(((.......)))..(((((((.(((((((....)))).)))..(((....))).....((((((...........))))))))))))). ( -20.40)
>consensus
UAUUAUCCACCGUCCCCGCCCGACAUUUAUGCAAAUCAGAUCCAGAUCUAGAUGCGAAUCCCCUCCCCCUGGCCAAACCAUCGCCACUUGGCCUGCAUAGC
...........(((.......)))..(((((((.(((((((....)))).))).................((((((...........))))))))))))). (-19.60 = -19.60 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	5,527,106 – 5,527,207
Length	101
Sequences	3
Columns	101
Reading direction	reverse
Mean pairwise identity	97.36
Mean single sequence MFE	-34.47
Consensus MFE	-30.15
Energy contribution	-29.93
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.08
Structure conservation index	0.87
SVM decision value	0.24
SVM RNA-class probability	0.649335
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5527106 101 - 20766785
GCUAUGCAGGCCAAGUGACGUUGGUUUGGCCAGGGGGAGGGGAUUCGGAUCUAGAUCUGGAUCUGAUUUGCAUAAAUGUCGGGCGGGGACGGUGGAUAAUA
..(((((((((((((.........))))))).........((((((((((....))))))))))....))))))..((((.(.((....)).).))))... ( -37.00)
>DroSec_CAF1 50327 101 - 1
GCUAUGCAGGCCAAGUGGCGAUGGUUUGGCCAGGGGGAGGGGAUUCGCAUCUAGAUCUGGAUCUGAUUUGCAUAAAUGUCGGGCGGGGACGGUGGAUAAUA
..(((((((((((((.........))))))).........(((((((.((....)).)))))))....))))))..((((.(.((....)).).))))... ( -30.80)
>DroSim_CAF1 27687 101 - 1
GCUAUGCAGGCCAAGUGGCGAUGGUUUGGCCAGGGGGAGGGGACUCGCAUCUAGAUCUGGAUCUGAUUUGCAUAAAUGUCGGGCGGGGACGGUGGAUAAUA
..(((((((((((((.........)))))))...(.(((....))).)(((.((((....))))))).))))))..((((.(.((....)).).))))... ( -35.60)
>consensus
GCUAUGCAGGCCAAGUGGCGAUGGUUUGGCCAGGGGGAGGGGAUUCGCAUCUAGAUCUGGAUCUGAUUUGCAUAAAUGUCGGGCGGGGACGGUGGAUAAUA
..(((((((((((((.........))))))).....(((....)))..(((.((((....))))))).))))))..((((.(.((....)).).))))... (-30.15 = -29.93 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:07 2006