Locus 8289

Sequence ID	3L_DroMel_CAF1
Location	21,739,158 – 21,739,398
Length	240
Max. P	0.999272

overview

Window 6

Location	21,739,158 – 21,739,278
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.08
Mean single sequence MFE	-28.12
Consensus MFE	-26.66
Energy contribution	-26.90
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-2.23
Structure conservation index	0.95
SVM decision value	3.48
SVM RNA-class probability	0.999272
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21739158 120 - 23771897
AAAACAUCAUCUUGAACCAUUAGCAAUGUCAGACACAUUAAGCAUCCCCUGCAAAACAGGACUCGUUCAUCUGCCACGGAACUUCAGCCAAGCAGCGGUGAUUAAUGUGUUUAUUAUGCA
......................(((.((..(((((((((((.((((.((((.....))))..........((((...((........))..)))).)))).)))))))))))..))))). ( -28.30)
>DroSec_CAF1 21053 120 - 1
AAAACAUCAUCUUGAACCAUUAGCAAUGUCAGACACAUUAAGCAUCCCCUGCAAAACAGGACUCUUUCAUCUGCCACGGAACUCCAGCCAAGCAGCGGUGAUUAAUGUGUUUAUUAUGCA
......................(((.((..(((((((((((.((((.((((.....))))..........((((...((........))..)))).)))).)))))))))))..))))). ( -28.30)
>DroSim_CAF1 25945 120 - 1
AAAACAUCAUCUUGAACCAUUAGCAAUGUCAGACACAUUAAGCAUCCCCUGCAAAACAGGACUCUUUCAUCUGCCACGGAACUCCAGCCAAGCAGCGGUGAUUAAUGUGUUUAUUAUGCA
......................(((.((..(((((((((((.((((.((((.....))))..........((((...((........))..)))).)))).)))))))))))..))))). ( -28.30)
>DroEre_CAF1 7129 120 - 1
AAAACAUCAUCUUGAACCAUUAGCAAUGUCAGACACAUUAAGCAUCCCCUGCAAAGCAGGACUCUUUCAUCUGCCAUGGAACUCCAGCCAAGCAUCGGUGAUUAAUGUGUUUAUUAUGCA
......................(((.((..(((((((((((.((((.(((((...)))))...........(((..(((....))).....)))..)))).)))))))))))..))))). ( -30.00)
>DroYak_CAF1 78694 120 - 1
AAAACAUCAUCUUGAAUCAUUAGCAAUGUCAGACACAUUAAGCAUCCCCUGCAAAAUAGGACUCCUUCAUCUGCCAUGGAACUCCAGCCAAGCAUCGGUGAUUAAUGUGUUUAUUAUGCA
......................(((.((..(((((((((((.((((.((((.....))))...........(((..(((....))).....)))..)))).)))))))))))..))))). ( -25.70)
>consensus
AAAACAUCAUCUUGAACCAUUAGCAAUGUCAGACACAUUAAGCAUCCCCUGCAAAACAGGACUCUUUCAUCUGCCACGGAACUCCAGCCAAGCAGCGGUGAUUAAUGUGUUUAUUAUGCA
......................(((.((..(((((((((((.((((.((((.....))))..........((((...((........))..)))).)))).)))))))))))..))))). (-26.66 = -26.90 +   0.24)

alignment

secondary structure

dotplot

Window 7

Location	21,739,278 – 21,739,398
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.21
Mean single sequence MFE	-23.58
Consensus MFE	-16.06
Energy contribution	-17.34
Covariance contribution	1.28
Combinations/Pair	1.20
Mean z-score	-1.84
Structure conservation index	0.68
SVM decision value	0.25
SVM RNA-class probability	0.652869
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21739278 120 + 23771897
GAUGCAUUUCGUUUAAGUUCCCCCUCCCCAAUUUCACAAAAAAAAGCCCAAAAGUCUGAGCAUCUGCCUUUUUCUCAAUUCCUUGAGAAGCAGGGAAUGCGAACGAUUGUUGGUAUCUAA
(((((...((((((..((((((.......................((.((......)).))...(((....(((((((....))))))))))))))))..))))))......)))))... ( -30.10)
>DroSec_CAF1 21173 120 + 1
GAUGCAUUUCGUUUAUGUUCCCCUUCCCCCACUUCACAAAAAAAAGCCCAAAAAUCUAAGCAUCUGCCUUUUUCUCAAUCCCUUGAGAAGCAUGGAAUACGAACGAUUGUUGGCAUUUAA
(((((...(((((..((((((......................................((....))...((((((((....))))))))...))))))..)))))......)))))... ( -25.00)
>DroSim_CAF1 26065 120 + 1
GAUGCAUUUCGUUUAUGUUCCCCUUCCCCCACUUCACACAAAAAAGCCCACAAAUCUAAGCAUCUGCCUUUUUCUCAAUCCCUUGAGAAUCAUGGAAUACCAACGAUUGUUGGCAUUCAA
(((((...(((((..((((((......................................((....))....(((((((....)))))))....))))))..)))))......)))))... ( -21.70)
>DroEre_CAF1 7249 116 + 1
GAUGCAUUUCGUUUAUGUACCCCU--CCCCACUACACAAA-AAUAGCCCAAAAAUCUACGCAUCUGUCAUUUC-CCAUUUCGUUGGGAAGCAUGGAAUAUAAACGAUUUUUGGUAUCUAA
(((((...((((((((((.((...--..............-....((............))........((((-(((......)))))))...)).))))))))))......)))))... ( -25.50)
>DroYak_CAF1 78814 117 + 1
GAUGCAUUUCAUUUAUGUACCCCU--CCCUACUACACAAAAAAUUGCCCAAAAAUCUAAGCAUCUGCCAUUAU-CCAUUUCAUUGAGAAGCAUGGAAUAUGAACGAUUGCUGGUAUAUCA
((((((.....(((.((((.....--......)))).)))....)))(((..((((...((....))(((..(-(((((((.....)))..)))))..)))...))))..)))...))). ( -15.60)
>consensus
GAUGCAUUUCGUUUAUGUUCCCCUUCCCCCACUUCACAAAAAAAAGCCCAAAAAUCUAAGCAUCUGCCUUUUUCUCAAUUCCUUGAGAAGCAUGGAAUACGAACGAUUGUUGGUAUCUAA
(((((...((((((.((((((......................................((....))....((((((......))))))....)))))).))))))......)))))... (-16.06 = -17.34 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:32 2006