Locus 9817

Sequence ID	3R_DroMel_CAF1
Location	26,090,496 – 26,090,592
Length	96
Max. P	0.994690

overview

Window 0

Location	26,090,496 – 26,090,592
Length	96
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	72.98
Mean single sequence MFE	-25.55
Consensus MFE	-11.89
Energy contribution	-12.33
Covariance contribution	0.45
Combinations/Pair	1.09
Mean z-score	-2.43
Structure conservation index	0.47
SVM decision value	1.99
SVM RNA-class probability	0.985032
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26090496 96 + 27905053
ACACACACACACACACA--CG-----AAUGG-----CGGUGAGUGUGUGUUGGUGCAUACGUGUAUGCGUAAUUAGCAUGCACGCAAAUAAAUUGUUAGCAGUUGCGG
.((.((((((((.(((.--((-----.....-----))))).)))))))))).(((...(((((((((.......)))))))))......(((((....)))))))). ( -36.10)
>DroPse_CAF1 87614 87 + 1
CUGCA------CACACACACA-----CACAGCUACACAUUGAGA----------ACGUGUGUGUAUGGGUAAUUAGCAGGCACGCAAAUAAAUUGUUAGCAUUUGCGG
(((((------(.((.(((((-----(((..((........)).----------..)))))))).)).)).....))))...(((((((...........))))))). ( -23.90)
>DroSec_CAF1 81942 80 + 1
A----------CACACA--CG-----AAAAG-----CGGUGAGUGUG------UGCAUACGUGUAUGCGUAAUUAGCAUGCACGCAAAUAAAUUGUUAGCAGUUGCGG
.----------((((((--(.-----.....-----......)))))------))....(((((((((.......)))))))))......(((((....))))).... ( -25.40)
>DroSim_CAF1 83595 80 + 1
A----------CACACA--CG-----AAAGG-----CGGUGAGUGUG------UGCAUACGUGUAUGCGUAAUUAGCAUGCACGCAAAUAAAUUGUUAGCAGUUGCGG
.----------((((((--(.-----.....-----......)))))------))....(((((((((.......)))))))))......(((((....))))).... ( -25.40)
>DroAna_CAF1 92171 83 + 1
A----------UACAGA--CGGACGGAAUAA-----AAGUGAAUG--------UGUAUACGUGUAUGCGUAAUUAGCAUGCACGCAAAUAAAUUGUUGGCAGUUGCGG
.----------......--....((.(((..-----..((.((((--------..(((.(((((((((.......)))))))))...)))...)))).)).))).)). ( -18.60)
>DroPer_CAF1 90387 87 + 1
CUGCA------CACACACACA-----CACAGCUACACAUUGAGA----------ACGUGUGUGUAUGGGUAAUUAGCAGGCACGCAAAUAAAUUGUUAGCAUUUGCGG
(((((------(.((.(((((-----(((..((........)).----------..)))))))).)).)).....))))...(((((((...........))))))). ( -23.90)
>consensus
A__________CACACA__CG_____AAAAG_____CAGUGAGUG________UGCAUACGUGUAUGCGUAAUUAGCAUGCACGCAAAUAAAUUGUUAGCAGUUGCGG
...........................................................(((((((((.......)))))))))..............((....)).. (-11.89 = -12.33 +   0.45)

alignment

secondary structure

dotplot

Window 1

Location	26,090,496 – 26,090,592
Length	96
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	72.98
Mean single sequence MFE	-24.23
Consensus MFE	-8.49
Energy contribution	-9.27
Covariance contribution	0.78
Combinations/Pair	1.08
Mean z-score	-3.02
Structure conservation index	0.35
SVM decision value	2.50
SVM RNA-class probability	0.994690
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26090496 96 - 27905053
CCGCAACUGCUAACAAUUUAUUUGCGUGCAUGCUAAUUACGCAUACACGUAUGCACCAACACACACUCACCG-----CCAUU-----CG--UGUGUGUGUGUGUGUGU
..((....))............((((((.((((.......)))).)))))).((((..((((((((.(((((-----.....-----))--.))).)))))))))))) ( -32.30)
>DroPse_CAF1 87614 87 - 1
CCGCAAAUGCUAACAAUUUAUUUGCGUGCCUGCUAAUUACCCAUACACACACGU----------UCUCAAUGUGUAGCUGUG-----UGUGUGUGUG------UGCAG
.((((((((.........))))))))...((((....(((.((((((((((.((----------((.......).)))))))-----)))))).)))------.)))) ( -28.00)
>DroSec_CAF1 81942 80 - 1
CCGCAACUGCUAACAAUUUAUUUGCGUGCAUGCUAAUUACGCAUACACGUAUGCA------CACACUCACCG-----CUUUU-----CG--UGUGUG----------U
..((....))............((((((.((((.......)))).)))))).(((------(((((......-----.....-----.)--))))))----------) ( -22.40)
>DroSim_CAF1 83595 80 - 1
CCGCAACUGCUAACAAUUUAUUUGCGUGCAUGCUAAUUACGCAUACACGUAUGCA------CACACUCACCG-----CCUUU-----CG--UGUGUG----------U
..((....))............((((((.((((.......)))).)))))).(((------(((((......-----.....-----.)--))))))----------) ( -22.40)
>DroAna_CAF1 92171 83 - 1
CCGCAACUGCCAACAAUUUAUUUGCGUGCAUGCUAAUUACGCAUACACGUAUACA--------CAUUCACUU-----UUAUUCCGUCCG--UCUGUA----------U
..((....))............((((((.((((.......)))).))))))((((--------.((..((..-----.......))..)--).))))----------. ( -12.30)
>DroPer_CAF1 90387 87 - 1
CCGCAAAUGCUAACAAUUUAUUUGCGUGCCUGCUAAUUACCCAUACACACACGU----------UCUCAAUGUGUAGCUGUG-----UGUGUGUGUG------UGCAG
.((((((((.........))))))))...((((....(((.((((((((((.((----------((.......).)))))))-----)))))).)))------.)))) ( -28.00)
>consensus
CCGCAACUGCUAACAAUUUAUUUGCGUGCAUGCUAAUUACGCAUACACGUAUGCA________CACUCACCG_____CUAUU_____CG__UGUGUG__________U
..((....))............((((((.((((.......)))).))))))......................................................... ( -8.49 =  -9.27 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:53 2006