Locus 5203

Sequence ID	2L_DroMel_CAF1
Location	14,717,023 – 14,717,123
Length	100
Max. P	0.885075

overview

Window 1

Location	14,717,023 – 14,717,123
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	97.80
Mean single sequence MFE	-23.62
Consensus MFE	-22.32
Energy contribution	-22.16
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.20
Structure conservation index	0.94
SVM decision value	0.18
SVM RNA-class probability	0.621956
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14717023 100 + 22407834
CUUAAACACUGAGAAGUGAUUUAUAAUUAGUUUAGUGCGUGACAUGAAUAACAGCACACUUCAUUUCCGGCCAAAGAUCAUUGUGUUGAACUAGUGGCCG
............(((((((....(((.....)))((((((..........)).))))...)))))))((((((.((.(((......))).))..)))))) ( -23.00)
>DroSec_CAF1 73998 100 + 1
CUAAAACACUGAGAAGUGAUUUAUAAUUAGUUUAGUGCGUGACAUGAAUAACAGCACACUUCACUUCCGGCCAAAGAUCAUUGUGUUGAACUAGUGGCCG
............(((((((....(((.....)))((((((..........)).))))...)))))))((((((.((.(((......))).))..)))))) ( -25.30)
>DroSim_CAF1 73974 100 + 1
CUUAAACACUGAGAAGUGAUUUAUAAUUAGUUUAAUGCGUGACAUGAAUAACAGCACACUUCAUUUCCGGCCAAAGAUCAUUGUGUUGAACUAGUGGCCG
............(((((((..........((.....))(((...((.....)).)))...)))))))((((((.((.(((......))).))..)))))) ( -21.70)
>DroEre_CAF1 73574 100 + 1
CUAAAACACUGAGAAGUGAUUUAUAAUUAGUUUAGUGCGUGACAUGAAUUACAGCACACUUCAUUUCCGGCCAAAGAUCAUUGUGUUGAACUAGUGGCCG
............(((((((....(((.....)))((((((((......)))).))))...)))))))((((((.((.(((......))).))..)))))) ( -25.10)
>DroYak_CAF1 73156 100 + 1
CUAAAACGCUGAGAAGUGAUUUAUAAUUAGUUUAGUGCGUGACAUGAAUAACAGCACACUUCAUUUCCGGCCAAAGAUCAUUGUGUUGAACUAGUGGCCG
............(((((((....(((.....)))((((((..........)).))))...)))))))((((((.((.(((......))).))..)))))) ( -23.00)
>consensus
CUAAAACACUGAGAAGUGAUUUAUAAUUAGUUUAGUGCGUGACAUGAAUAACAGCACACUUCAUUUCCGGCCAAAGAUCAUUGUGUUGAACUAGUGGCCG
............(((((((..........((.....))(((...((.....)).)))...)))))))((((((.((.(((......))).))..)))))) (-22.32 = -22.16 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	14,717,023 – 14,717,123
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	97.80
Mean single sequence MFE	-23.11
Consensus MFE	-20.76
Energy contribution	-21.36
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.58
Structure conservation index	0.90
SVM decision value	0.93
SVM RNA-class probability	0.885075
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14717023 100 - 22407834
CGGCCACUAGUUCAACACAAUGAUCUUUGGCCGGAAAUGAAGUGUGCUGUUAUUCAUGUCACGCACUAAACUAAUUAUAAAUCACUUCUCAGUGUUUAAG
((((((..((.(((......))).)).)))))).......((((((.((..........))))))))..........((((.((((....)))))))).. ( -22.80)
>DroSec_CAF1 73998 100 - 1
CGGCCACUAGUUCAACACAAUGAUCUUUGGCCGGAAGUGAAGUGUGCUGUUAUUCAUGUCACGCACUAAACUAAUUAUAAAUCACUUCUCAGUGUUUUAG
((((((..((.(((......))).)).))))))(((((((((((((.((..........))))))))..............)))))))............ ( -26.33)
>DroSim_CAF1 73974 100 - 1
CGGCCACUAGUUCAACACAAUGAUCUUUGGCCGGAAAUGAAGUGUGCUGUUAUUCAUGUCACGCAUUAAACUAAUUAUAAAUCACUUCUCAGUGUUUAAG
((((((..((.(((......))).)).))))))........((((((((.....)).).))))).............((((.((((....)))))))).. ( -22.50)
>DroEre_CAF1 73574 100 - 1
CGGCCACUAGUUCAACACAAUGAUCUUUGGCCGGAAAUGAAGUGUGCUGUAAUUCAUGUCACGCACUAAACUAAUUAUAAAUCACUUCUCAGUGUUUUAG
((((((..((.(((......))).)).)))))).......((((((.((..........))))))))..........((((.((((....)))).)))). ( -23.40)
>DroYak_CAF1 73156 100 - 1
CGGCCACUAGUUCAACACAAUGAUCUUUGGCCGGAAAUGAAGUGUGCUGUUAUUCAUGUCACGCACUAAACUAAUUAUAAAUCACUUCUCAGCGUUUUAG
((((((..((.(((......))).)).))))))((((((.((((((.((..........)))))))).................((....)))))))).. ( -20.50)
>consensus
CGGCCACUAGUUCAACACAAUGAUCUUUGGCCGGAAAUGAAGUGUGCUGUUAUUCAUGUCACGCACUAAACUAAUUAUAAAUCACUUCUCAGUGUUUUAG
((((((..((.(((......))).)).))))))........((((((((.....)).).))))).............((((.((((....)))).)))). (-20.76 = -21.36 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:32 2006