Locus 7516

Sequence ID	2L_DroMel_CAF1
Location	20,850,904 – 20,851,061
Length	157
Max. P	0.584394

overview

Window 0

Location	20,850,904 – 20,851,022
Length	118
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	89.94
Mean single sequence MFE	-27.97
Consensus MFE	-24.86
Energy contribution	-24.87
Covariance contribution	0.01
Combinations/Pair	1.10
Mean z-score	-1.58
Structure conservation index	0.89
SVM decision value	0.01
SVM RNA-class probability	0.538603
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20850904 118 + 22407834
AGAUUUUUACUCUUUGCCUAAAUUUAACCCGUUGUAUAUCAUAUGCUCAACUUGCUUGUCAAGUGAGUCAAGCUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUCGGCCUCCAGA--
...............(((.........(((.(((((((((....(((..(((..((.....))..)))..)))......))))))))).))).....((.....))..))).......-- ( -26.50)
>DroSec_CAF1 29424 120 + 1
AGAUUUUUACUCCUUGCCCAAUAUCAAGCCUUUGUAUACCACAUGCUCAACUCGCUUGUCAAGUAAGUCAAGUUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUAGACCUCCAGACU
.((..(((((..((((........))))((((((((((((....(((..(((..((.....))..)))..)))......))))))))))))..............)))))..))...... ( -28.00)
>DroSim_CAF1 30581 118 + 1
AGAUUUUUACUCCUUGCCCAAUAUCAAGCCUUUGUAUACCACAUGCUCAACUCGCUUGCCAAGUAAGUCAAGUUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUAGACCUCCAGG--
.((((.......((((........))))((((((((((((....(((..(((..((.....))..)))..)))......)))))))))))))))).......((((........))))-- ( -29.40)
>consensus
AGAUUUUUACUCCUUGCCCAAUAUCAAGCCUUUGUAUACCACAUGCUCAACUCGCUUGUCAAGUAAGUCAAGUUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUAGACCUCCAGA__
.((((.......((((........))))((((((((((((....(((..(((..((.....))..)))..)))......))))))))))))))))........(((........)))... (-24.86 = -24.87 +   0.01)

alignment

secondary structure

dotplot

Window 1

Location	20,850,944 – 20,851,061
Length	117
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	91.60
Mean single sequence MFE	-37.60
Consensus MFE	-32.41
Energy contribution	-32.30
Covariance contribution	-0.11
Combinations/Pair	1.06
Mean z-score	-1.85
Structure conservation index	0.86
SVM decision value	0.10
SVM RNA-class probability	0.584394
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20850944 117 + 22407834
AUAUGCUCAACUUGCUUGUCAAGUGAGUCAAGCUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUCGGCCUCCAGA---UAGAGUCCGUUAAUGUUCUUGGCCGACUCGGGAUCCAUU
.....(((.(((..((.....))..)))...(((((....))).)).)))(((((((.......((((........))---))(((((.(((((.....))))).))))))))))))... ( -37.10)
>DroSec_CAF1 29464 120 + 1
ACAUGCUCAACUCGCUUGUCAAGUAAGUCAAGUUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUAGACCUCCAGACUCCAGAGUCCGUUACUGUUCUUGGCGGACUCGGGAUCCAUU
.((((((......(((((.(......).)))))......)))))).....(((((((......(((........)))......((((((((((.......)))))))))))))))))... ( -40.00)
>DroSim_CAF1 30621 117 + 1
ACAUGCUCAACUCGCUUGCCAAGUAAGUCAAGUUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUAGACCUCCAGG---UAGAGUCCGUUACUGUUCUUGGCCGCCUCGGGAUCCAUU
..........(((((.((((..((((......))))...)))).)).)))(((((((...((((((........))))---))(((.(.((((.......)))).).))))))))))... ( -35.70)
>consensus
ACAUGCUCAACUCGCUUGUCAAGUAAGUCAAGUUACAUCGGUAUGCAGAGGGAUCCCCAUUACCUGUAGACCUCCAGA___UAGAGUCCGUUACUGUUCUUGGCCGACUCGGGAUCCAUU
.((((((......(((((.(......).)))))......)))))).....(((((((......(((........)))......(((((.((((.......)))).))))))))))))... (-32.41 = -32.30 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:45 2006