Locus 7248

Sequence ID	2L_DroMel_CAF1
Location	20,285,190 – 20,285,280
Length	90
Max. P	0.704700

overview

Window 5

Location	20,285,190 – 20,285,280
Length	90
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	82.63
Mean single sequence MFE	-27.00
Consensus MFE	-18.22
Energy contribution	-19.30
Covariance contribution	1.08
Combinations/Pair	1.12
Mean z-score	-1.90
Structure conservation index	0.67
SVM decision value	0.20
SVM RNA-class probability	0.632982
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20285190 90 + 22407834
CCAUCC------ACCGAUGGUUUCCCAUCGCGAUGUCGUUGUCAUCGUCGAACAUAGCGGCCCAUAAAGAGUUUGCUUUAUGCCCGCCGACCGACU
.((((.------..((((((....)))))).)))).....(((...((((......((((..(((((((......))))))).)))))))).))). ( -27.10)
>DroSec_CAF1 35900 89 + 1
-CAUCC------ACCGAUGGCUUCCCAUCGCGAUGUCGUUGUCAUCGUCGAACAUAGCGGCCCAUAAAGAGUUUGCUUUAUGCCCGCCGACCAACU
-((((.------..((((((....)))))).))))..((((.....((((......((((..(((((((......))))))).)))))))))))). ( -26.10)
>DroSim_CAF1 34768 90 + 1
CCGUCC------ACCGAUGGCUUCCCAUCGCGAUGUCGUUGUCAUCGUCGAACAUAGCGGCCCAUAAAGAGUUUGCUUUAUGCCCGCCGACCAACU
.((((.------..((((((....)))))).))))..((((.....((((......((((..(((((((......))))))).)))))))))))). ( -26.00)
>DroEre_CAF1 21031 82 + 1
CCCUCC------ACCGAUGGC----GAUGUCGUUGUCAUCGUCAUCGUCGAACAUAGCGGCCCAUAAAGAGUUCGCUUUAUGCCCGCCGACC----
......------...((((((----((((.......))))))))))((((......((((..(((((((......))))))).)))))))).---- ( -29.80)
>DroYak_CAF1 16249 86 + 1
CCAUCC------ACCGAUGGCUUCCCAUCGCGAUGUCGUUGUCAUCGUCGAACAUAGCGGCCCAUAAAGACUUUUCUUUAUGCCCGCCGGCC----
(((((.------...)))))....((.((((((((.......))))).))).....((((..((((((((....)))))))).)))).))..---- ( -27.60)
>DroAna_CAF1 3835 94 + 1
UAGUCCCGGCAGUCCAGUGCCUUCCCAUCGAGAUGUCGUUGUCAUCAUUGGCCG--ACGGCCCAUAAAGCGUUUUCUUUAUGCCCGCCGACCGACU
.((((.((((.((((.(((......))).).)))((((((((((....))).))--))))).(((((((......)))))))...))))...)))) ( -25.40)
>consensus
CCAUCC______ACCGAUGGCUUCCCAUCGCGAUGUCGUUGUCAUCGUCGAACAUAGCGGCCCAUAAAGAGUUUGCUUUAUGCCCGCCGACC_ACU
..............((((((....)))))).((((.......))))((((......((((..(((((((......))))))).))))))))..... (-18.22 = -19.30 +   1.08)

alignment

secondary structure

dotplot

Window 6

Location	20,285,190 – 20,285,280
Length	90
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	82.63
Mean single sequence MFE	-32.42
Consensus MFE	-22.85
Energy contribution	-24.13
Covariance contribution	1.28
Combinations/Pair	1.15
Mean z-score	-1.97
Structure conservation index	0.70
SVM decision value	0.36
SVM RNA-class probability	0.704700
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20285190 90 - 22407834
AGUCGGUCGGCGGGCAUAAAGCAAACUCUUUAUGGGCCGCUAUGUUCGACGAUGACAACGACAUCGCGAUGGGAAACCAUCGGU------GGAUGG
.(((((..(((((.(((((((......)))))).).)))))....)))))...........((((.((((((....))))))..------.)))). ( -35.50)
>DroSec_CAF1 35900 89 - 1
AGUUGGUCGGCGGGCAUAAAGCAAACUCUUUAUGGGCCGCUAUGUUCGACGAUGACAACGACAUCGCGAUGGGAAGCCAUCGGU------GGAUG-
.((((((((.(((((((..(((...(((.....)))..)))))))))).))))..))))..((((.((((((....))))))..------.))))- ( -31.10)
>DroSim_CAF1 34768 90 - 1
AGUUGGUCGGCGGGCAUAAAGCAAACUCUUUAUGGGCCGCUAUGUUCGACGAUGACAACGACAUCGCGAUGGGAAGCCAUCGGU------GGACGG
........(((((.(((((((......)))))).).))))).((((((.(((((.......)))))((((((....)))))).)------))))). ( -32.00)
>DroEre_CAF1 21031 82 - 1
----GGUCGGCGGGCAUAAAGCGAACUCUUUAUGGGCCGCUAUGUUCGACGAUGACGAUGACAACGACAUC----GCCAUCGGU------GGAGGG
----....(((((.(((((((......)))))).).))))).(.((((.(((((.(((((.......))))----).))))).)------))).). ( -28.40)
>DroYak_CAF1 16249 86 - 1
----GGCCGGCGGGCAUAAAGAAAAGUCUUUAUGGGCCGCUAUGUUCGACGAUGACAACGACAUCGCGAUGGGAAGCCAUCGGU------GGAUGG
----..(((((((.((((((((....))))))).).)))))..(((((.(((((.......)))))((((((....)))))).)------)))))) ( -32.20)
>DroAna_CAF1 3835 94 - 1
AGUCGGUCGGCGGGCAUAAAGAAAACGCUUUAUGGGCCGU--CGGCCAAUGAUGACAACGACAUCUCGAUGGGAAGGCACUGGACUGCCGGGACUA
(((((((((((((.(((((((......)))))).).))))--)))))........((.(((....))).))....((((......))))..)))). ( -35.30)
>consensus
AGU_GGUCGGCGGGCAUAAAGCAAACUCUUUAUGGGCCGCUAUGUUCGACGAUGACAACGACAUCGCGAUGGGAAGCCAUCGGU______GGAUGG
........(((((.(((((((......)))))).).)))))..((((..(((((.......)))))((((((....))))))........)))).. (-22.85 = -24.13 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:32 2006