Locus 2372

Sequence ID	3R_DroMel_CAF1
Location	6,735,372 – 6,735,517
Length	145
Max. P	0.979552

overview

Window 6

Location	6,735,372 – 6,735,477
Length	105
Sequences	3
Columns	105
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-18.60
Consensus MFE	-18.60
Energy contribution	-18.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.73
Structure conservation index	1.00
SVM decision value	0.63
SVM RNA-class probability	0.804774
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6735372 105 + 27905053
AUUACGACUCAAUGGGGCCAACUGAUUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGG
........(((((..((((..((..((((((((...........))))))))..(((.........)))))..))))....)))))................... ( -18.60)
>DroSec_CAF1 302 105 + 1
AUUACGACUCAAUGGGGCCAACUGAUUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGG
........(((((..((((..((..((((((((...........))))))))..(((.........)))))..))))....)))))................... ( -18.60)
>DroSim_CAF1 4642 105 + 1
AUUACGACUCAAUGGGGCCAACUGAUUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGG
........(((((..((((..((..((((((((...........))))))))..(((.........)))))..))))....)))))................... ( -18.60)
>consensus
AUUACGACUCAAUGGGGCCAACUGAUUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGG
........(((((..((((..((..((((((((...........))))))))..(((.........)))))..))))....)))))................... (-18.60 = -18.60 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	6,735,372 – 6,735,477
Length	105
Sequences	3
Columns	105
Reading direction	reverse
Mean pairwise identity	100.00
Mean single sequence MFE	-23.30
Consensus MFE	-23.30
Energy contribution	-23.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.68
Structure conservation index	1.00
SVM decision value	1.84
SVM RNA-class probability	0.979552
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6735372 105 - 27905053
CCGCUUUUUAAAAUUCAUUUCAAUUUUCGGCCGUCUGGCUUUUUUAUGGCCUUUUGUUUAUGGUAUUUAUUUAUAAACAAUCAGUUGGCCCCAUUGAGUCGUAAU
..................((((((....(((((.((((((.......))))..((((((((((.......))))))))))..)).)))))..))))))....... ( -23.30)
>DroSec_CAF1 302 105 - 1
CCGCUUUUUAAAAUUCAUUUCAAUUUUCGGCCGUCUGGCUUUUUUAUGGCCUUUUGUUUAUGGUAUUUAUUUAUAAACAAUCAGUUGGCCCCAUUGAGUCGUAAU
..................((((((....(((((.((((((.......))))..((((((((((.......))))))))))..)).)))))..))))))....... ( -23.30)
>DroSim_CAF1 4642 105 - 1
CCGCUUUUUAAAAUUCAUUUCAAUUUUCGGCCGUCUGGCUUUUUUAUGGCCUUUUGUUUAUGGUAUUUAUUUAUAAACAAUCAGUUGGCCCCAUUGAGUCGUAAU
..................((((((....(((((.((((((.......))))..((((((((((.......))))))))))..)).)))))..))))))....... ( -23.30)
>consensus
CCGCUUUUUAAAAUUCAUUUCAAUUUUCGGCCGUCUGGCUUUUUUAUGGCCUUUUGUUUAUGGUAUUUAUUUAUAAACAAUCAGUUGGCCCCAUUGAGUCGUAAU
..................((((((....(((((.((((((.......))))..((((((((((.......))))))))))..)).)))))..))))))....... (-23.30 = -23.30 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	6,735,397 – 6,735,517
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.06
Mean single sequence MFE	-21.80
Consensus MFE	-20.33
Energy contribution	-20.33
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.93
SVM decision value	0.36
SVM RNA-class probability	0.702766
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6735397 120 + 27905053
UUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGGUGAAAGAGAAAAUCGAAAUCACAGUCAUCGGCGGGGUAUC
..............(((((..........(((.........)))...(.(((((...((((((....))))))...((.((((..((.....))....)))).))..))))).)))))). ( -23.10)
>DroSec_CAF1 327 120 + 1
UUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGGUGAAAGAGAAAAUCAAAAUCGAAGUCAUCGGCGGGGUAUC
..............(((((..........(((.........)))...(.(((((...((((((....))))))....((((....((.....))...))))......))))).)))))). ( -21.30)
>DroSim_CAF1 4667 120 + 1
UUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGGUGAAAGAGAAAAUCGAAAUCAGAGUCAUCGGCGGGGUAUC
..............(((((..........(((.........)))...(.(((((...((((((....))))))...((..(((..((.....))....)))..))..))))).)))))). ( -21.00)
>consensus
UUGUUUAUAAAUAAAUACCAUAAACAAAAGGCCAUAAAAAAGCCAGACGGCCGAAAAUUGAAAUGAAUUUUAAAAAGCGGUGAAAGAGAAAAUCGAAAUCAAAGUCAUCGGCGGGGUAUC
..............(((((..........(((.........)))...(.(((((...((((((....)))))).....(((....((.....))...))).......))))).)))))). (-20.33 = -20.33 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:43 2006