Locus 3739

Sequence ID	2R_DroMel_CAF1
Location	12,356,951 – 12,357,120
Length	169
Max. P	0.975473

overview

Window 2

Location	12,356,951 – 12,357,065
Length	114
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	93.09
Mean single sequence MFE	-29.76
Consensus MFE	-26.80
Energy contribution	-28.20
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.90
SVM decision value	1.75
SVM RNA-class probability	0.975473
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12356951 114 + 20766785
UGUGUGUGACCAAUUCUUUGAACUAUAAAGUGUUUUGAGUAGGGUCAAAGUUGAUCAAGCCGGCCAAAUUGCAGGUCGAAUGGGGUUAAUGGUUUAUAGAUACACAGAGACUAA-----
(((((((((((....(((.((((........)))).)))...))))...(((((((.(..(((((........)))))..)..))))))).........)))))))........----- ( -30.30)
>DroSec_CAF1 16002 114 + 1
UGUGUGUGACCAAUUCUUUGAACUAUAAAGUGUUUUGAGUAGGGUCAAAGUUGAUCAAGCCGGCCAAAUUGCAGGUCGAAUGGGGUUAAUGGUUUAUAGAUACACAGAGACUAA-----
(((((((((((....(((.((((........)))).)))...))))...(((((((.(..(((((........)))))..)..))))))).........)))))))........----- ( -30.30)
>DroSim_CAF1 16374 114 + 1
UGUGUGUGACCAAUUCUUUGAACUAUAAAGUGUUUUGAGUAGGGUCAAAGUUGAUCAAGCCGGCCAAAUUGCAGGUCGAAUGGGGUUAAUGGUUUAUAGAUACACAGAGACUAA-----
(((((((((((....(((.((((........)))).)))...))))...(((((((.(..(((((........)))))..)..))))))).........)))))))........----- ( -30.30)
>DroEre_CAF1 17617 119 + 1
UGUGUGUGACCAAUUCUUUGAACUAUAAAGUGUUUUGAGUAGGGUCAAAGUUGAUCAAGCCGGCCAAAUUGCAGGUCGAAUGGGGUUAAUGGUUUAUAGAUACACAGAGAUUAGCGUUA
(((((((((((....(((.((((........)))).)))...))))...(((((((.(..(((((........)))))..)..))))))).........)))))))............. ( -30.30)
>DroYak_CAF1 16588 109 + 1
UGUGUGUGACCAAUUCUUUGAACUAUAAAGUGUUUUGAGUAGGGUCAAAGUUGAUCAAGCCGGCCAAAUUGCAGGUCGAAU---------GGUUUAUAGAUACACAGGGAUUAGCAUU-
(((((((((((....(((.((((........)))).)))...))))...((.(((((...(((((........)))))..)---------)))).))..)))))))............- ( -27.60)
>consensus
UGUGUGUGACCAAUUCUUUGAACUAUAAAGUGUUUUGAGUAGGGUCAAAGUUGAUCAAGCCGGCCAAAUUGCAGGUCGAAUGGGGUUAAUGGUUUAUAGAUACACAGAGACUAA_____
(((((((((((....(((.((((........)))).)))...))))...(((((((....(((((........))))).....))))))).........)))))))............. (-26.80 = -28.20 +   1.40)

alignment

secondary structure

dotplot

Window 3

Location	12,357,030 – 12,357,120
Length	90
Sequences	3
Columns	90
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-13.27
Consensus MFE	-12.69
Energy contribution	-13.02
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.81
Structure conservation index	0.96
SVM decision value	1.74
SVM RNA-class probability	0.974830
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12357030 90 - 20766785
UAUAGAAUAAAACAUAGUAACUAAGAUCCAUUCAUCCUAAUCAUUUAAUGCUAGCUUAGUCUCUGUGUAUCUAUAAACCAUUAACCCCAU
((((((.....((((((..((((((...((((..............))))....))))))..)))))).))))))............... ( -15.44)
>DroSec_CAF1 16081 90 - 1
UAUAGAAUGAAACAUAAUAACUAAGAUCCAUCCAUCCUAAUCAUUUAAUGCUAGCUUAGUCUCUGUGUAUCUAUAAACCAUUAACCCCAU
((((((.....(((((...((((((...(((................)))....))))))...))))).))))))............... (  -9.79)
>DroSim_CAF1 16453 90 - 1
UAUAGAAUGAAACAUAGUAACUAAGAUCCAUCCAUCCUAAUCAUUUAAUGCUAGCUUAGUCUCUGUGUAUCUAUAAACCAUUAACCCCAU
((((((.....((((((..((((((...(((................)))....))))))..)))))).))))))............... ( -14.59)
>consensus
UAUAGAAUGAAACAUAGUAACUAAGAUCCAUCCAUCCUAAUCAUUUAAUGCUAGCUUAGUCUCUGUGUAUCUAUAAACCAUUAACCCCAU
((((((.....((((((..((((((...(((................)))....))))))..)))))).))))))............... (-12.69 = -13.02 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:09 2006