Locus 6896

Sequence ID	2L_DroMel_CAF1
Location	19,261,052 – 19,261,209
Length	157
Max. P	0.984927

overview

Window 2

Location	19,261,052 – 19,261,169
Length	117
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	97.45
Mean single sequence MFE	-26.16
Consensus MFE	-25.75
Energy contribution	-25.81
Covariance contribution	0.06
Combinations/Pair	1.04
Mean z-score	-3.21
Structure conservation index	0.98
SVM decision value	1.99
SVM RNA-class probability	0.984927
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19261052 117 + 22407834
CCAACAUAUC-CCCACGAACGAUAAAUGCUCAACGCACUUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGGCCAGAA
..........-.....(((.((((..((((....((....))......(((......)))))))..)))).)))......(((((((((((...............))))))))))). ( -28.26)
>DroSec_CAF1 2485 117 + 1
CCAACAUAUC-CCCACGAACGAUGAAUGCUCAACGCACUUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGACCAGAA
..........-.....(((.((((..((((....((....))......(((......)))))))..)))).)))......(((((.(((((...............))))).))))). ( -20.86)
>DroSim_CAF1 8233 117 + 1
CCAACAUAUC-CCCACGAACGAUAAAUGCUCAACGCACUUGCUUUCCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGGCCAGAA
..........-.....(((.((((..((((....((....))......(((......)))))))..)))).)))......(((((((((((...............))))))))))). ( -28.26)
>DroEre_CAF1 9198 118 + 1
CCAACAUAUCCCCCACGAACGAUAAAUGCCCAACGCACUUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACCCGAAAACAUUACUUGUGGGCCAGAA
................(((.((((..(((.....((....))......(((......))).)))..)))).)))......(((((((((((...............))))))))))). ( -27.26)
>consensus
CCAACAUAUC_CCCACGAACGAUAAAUGCUCAACGCACUUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGGCCAGAA
................(((.((((..(((.....((....))......(((......))).)))..)))).)))......(((((((((((...............))))))))))). (-25.75 = -25.81 +   0.06)

alignment

secondary structure

dotplot

Window 3

Location	19,261,089 – 19,261,209
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.08
Mean single sequence MFE	-22.89
Consensus MFE	-18.32
Energy contribution	-20.76
Covariance contribution	2.44
Combinations/Pair	1.04
Mean z-score	-1.73
Structure conservation index	0.80
SVM decision value	0.63
SVM RNA-class probability	0.805705
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19261089 120 + 22407834
UUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGGCCAGAAUAAAGAGCAAACCGAACUGAAACCGCAUUUGCAUUACAUU
..........(((((((((........)))))..........(((((((((((...............))))))))))).....))))................((....))........ ( -27.06)
>DroSec_CAF1 2522 120 + 1
UUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGACCAGAACAAAAAGCAAACCGAACUGAAACCGCAUUUGCAUUACAUU
((((((((..((((......).))).................(((((.(((((...............))))).)))))...))))))))..............((....))........ ( -19.86)
>DroSim_CAF1 8270 120 + 1
UUGCUUUCCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGGCCAGAACAAAAAGCAAACCGAACUGAAACCGCAUUUGCAUUACAUU
(((((((...((((......).))).................(((((((((((...............)))))))))))....)))))))..............((....))........ ( -26.06)
>DroEre_CAF1 9236 120 + 1
UUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACCCGAAAACAUUACUUGUGGGCCAGAACAAAAAGCAAACCGAACUGAAACCGCAUUUGCAUUACAUU
((((((((..((((......).))).................(((((((((((...............)))))))))))...))))))))..............((....))........ ( -26.96)
>DroYak_CAF1 8266 90 + 1
UUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCA------------------------------UUACUUGUGGGCCAGAACAAAAAGCAAACCGAACUGAAACCGCAUUUGCAAUACAUU
((((((((..(((......))).((.((((...------------------------------.....)))).)).......))))))))..............((....))........ ( -14.50)
>consensus
UUGCUUUUCCGCUCGAUAUAGCAGCACAUAUCAUUCACACAAUUUGGCCCAUACUCGAAAACAUUACUUGUGGGCCAGAACAAAAAGCAAACCGAACUGAAACCGCAUUUGCAUUACAUU
((((((((..((((......).))).................(((((((((((...............)))))))))))...))))))))..............((....))........ (-18.32 = -20.76 +   2.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:20 2006