Locus 204

Sequence ID	3R_DroMel_CAF1
Location	868,533 – 868,653
Length	120
Max. P	0.840743

overview

Window 7

Location	868,533 – 868,653
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	98.47
Mean single sequence MFE	-34.80
Consensus MFE	-32.78
Energy contribution	-33.02
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-2.15
Structure conservation index	0.94
SVM decision value	0.70
SVM RNA-class probability	0.827259
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 868533 120 + 27905053
UGUUUUUUGCCUUGUAUCUUUUUUGCUUACAGUUGCACGACAACAACGUCGCCGAUGACACGACAAGCUGCGCUGCGAUGUCGUAGUUUUGCUUGUUUUUAUAGUUGUUGCCGAGUUGGU
........(((............(((........)))((.(((((((((((....))))..(((((((...((((((....))))))...)))))))......))))))).))....))) ( -34.90)
>DroSec_CAF1 43550 120 + 1
UGUUUUUUGCCUUGUAUCUUUUUUGCUUACAGUUGCACGACAACAACUUCGACGAUGACACGACAAGCUGCGCUGCGAUGUCGUAGUUUUGCUUGUUUUUAUAGUUGUUGCCGAGUUGGU
((((...(((.(((((...........)))))..))).)))).(((((((((((((.....(((((((...((((((....))))))...)))))))......)))))))..)))))).. ( -34.70)
>DroSim_CAF1 42763 120 + 1
UGUUUUUUGCCUUGUAUCUUUUUUGCUUACAGUUGCACGACAACAACUUCGACGAUGACACGACAAGCUGCGCUGCGAUGUCGUAGUUUUGCUUGUUUUUAUAGUUGUUGCCGAGUUGGU
((((...(((.(((((...........)))))..))).)))).(((((((((((((.....(((((((...((((((....))))))...)))))))......)))))))..)))))).. ( -34.70)
>DroEre_CAF1 42786 120 + 1
UGUUUUUUGCCUUAUAUCUUUUUUGCUUACAGUUGCACGACAACAACGUCGCCGAUGACACGACAAGCUGCGCUGCGAUGUCGUAGUUUUGCUUGUUUUUAUAGUUGUUGCCGAGUUGGU
........(((............(((........)))((.(((((((((((....))))..(((((((...((((((....))))))...)))))))......))))))).))....))) ( -34.90)
>consensus
UGUUUUUUGCCUUGUAUCUUUUUUGCUUACAGUUGCACGACAACAACGUCGACGAUGACACGACAAGCUGCGCUGCGAUGUCGUAGUUUUGCUUGUUUUUAUAGUUGUUGCCGAGUUGGU
((((...(((.(((((...........)))))..))).)))).((((.(((.(((..((..(((((((...((((((....))))))...)))))))......))..))).))))))).. (-32.78 = -33.02 +   0.25)

alignment

secondary structure

dotplot

Window 8

Location	868,533 – 868,653
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	98.47
Mean single sequence MFE	-28.15
Consensus MFE	-26.15
Energy contribution	-26.65
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.27
Structure conservation index	0.93
SVM decision value	0.75
SVM RNA-class probability	0.840743
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 868533 120 - 27905053
ACCAACUCGGCAACAACUAUAAAAACAAGCAAAACUACGACAUCGCAGCGCAGCUUGUCGUGUCAUCGGCGACGUUGUUGUCGUGCAACUGUAAGCAAAAAAGAUACAAGGCAAAAAACA
.((....((((((((((...................((((((..((......)).))))))(((......)))))))))))))(((........)))............))......... ( -28.90)
>DroSec_CAF1 43550 120 - 1
ACCAACUCGGCAACAACUAUAAAAACAAGCAAAACUACGACAUCGCAGCGCAGCUUGUCGUGUCAUCGUCGAAGUUGUUGUCGUGCAACUGUAAGCAAAAAAGAUACAAGGCAAAAAACA
.((....(((((((((((.......(((((....((.((....)).))....)))))(((((....)).))))))))))))))(((........)))............))......... ( -27.40)
>DroSim_CAF1 42763 120 - 1
ACCAACUCGGCAACAACUAUAAAAACAAGCAAAACUACGACAUCGCAGCGCAGCUUGUCGUGUCAUCGUCGAAGUUGUUGUCGUGCAACUGUAAGCAAAAAAGAUACAAGGCAAAAAACA
.((....(((((((((((.......(((((....((.((....)).))....)))))(((((....)).))))))))))))))(((........)))............))......... ( -27.40)
>DroEre_CAF1 42786 120 - 1
ACCAACUCGGCAACAACUAUAAAAACAAGCAAAACUACGACAUCGCAGCGCAGCUUGUCGUGUCAUCGGCGACGUUGUUGUCGUGCAACUGUAAGCAAAAAAGAUAUAAGGCAAAAAACA
.((....((((((((((...................((((((..((......)).))))))(((......)))))))))))))(((........)))............))......... ( -28.90)
>consensus
ACCAACUCGGCAACAACUAUAAAAACAAGCAAAACUACGACAUCGCAGCGCAGCUUGUCGUGUCAUCGGCGAAGUUGUUGUCGUGCAACUGUAAGCAAAAAAGAUACAAGGCAAAAAACA
.((....((((((((((...................((((((..((......)).))))))(((......)))))))))))))(((........)))............))......... (-26.15 = -26.65 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:22 2006