Locus 4736

Sequence ID	X_DroMel_CAF1
Location	12,307,432 – 12,307,561
Length	129
Max. P	0.841069

overview

Window 7

Location	12,307,432 – 12,307,527
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	96.00
Mean single sequence MFE	-25.26
Consensus MFE	-24.84
Energy contribution	-24.36
Covariance contribution	-0.48
Combinations/Pair	1.19
Mean z-score	-1.15
Structure conservation index	0.98
SVM decision value	0.56
SVM RNA-class probability	0.783320
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12307432 95 + 22224390
GCCAGAAAAUGUCCAAGCGUUCAGCACCAUUAGAUCGUUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGC
................((((.((((.(((((((....)))))))..............(((((((....)))..)))).........)))))))) ( -20.00)
>DroSec_CAF1 9613 95 + 1
GCCAGAAAAUGGCCAAGCGCUCAGCACCACUAGAUCGCUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGC
((((.....))))...(((.(((((.(((((((....)))))))..............(((((((....)))..)))).........)))))))) ( -30.00)
>DroSim_CAF1 10158 95 + 1
GCCAGAAAAUGGCCAAGCGCUCAGCACCACUAGAUCGCUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGC
((((.....))))...(((.(((((.(((((((....)))))))..............(((((((....)))..)))).........)))))))) ( -30.00)
>DroEre_CAF1 9649 95 + 1
GCCAGAAAAUGGCCAAGCGCUCAGCACCCCUAGAUCGUUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGC
((((.....))))...(((.(((((.......((((((..(((.....))).......))))))......(((....))).......)))))))) ( -23.30)
>DroYak_CAF1 9033 95 + 1
GCCAGAAAAUGGCCAAGUGCUCAGCAUCACUAGAUCGUUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGUUAUUCCCCAGCUGAUGC
((((.....)))).....(((((((.......((((((..(((.....))).......))))))......((((.....))))....))))).)) ( -23.00)
>consensus
GCCAGAAAAUGGCCAAGCGCUCAGCACCACUAGAUCGUUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGC
((((.....))))...(((.(((((.(((((((....)))))))..............(((((((....)))..)))).........)))))))) (-24.84 = -24.36 +  -0.48)

alignment

secondary structure

dotplot

Window 8

Location	12,307,466 – 12,307,561
Length	95
Sequences	4
Columns	95
Reading direction	forward
Mean pairwise identity	98.25
Mean single sequence MFE	-21.58
Consensus MFE	-21.76
Energy contribution	-21.32
Covariance contribution	-0.44
Combinations/Pair	1.08
Mean z-score	-1.95
Structure conservation index	1.01
SVM decision value	0.75
SVM RNA-class probability	0.841069
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12307466 95 + 22224390
UCGUUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGCUGCUUCUUCUGCUUCUGUUUCCCAUUUACAGCUC
..((..((((.(((((........(((((((....)))..)))).......((((....)))).............))))).))))..))..... ( -21.00)
>DroSec_CAF1 9647 95 + 1
UCGCUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGCUGCUUCUUCUGCUUCUGUUUCCCAUUUACAGCUC
..((((((((.(((((........(((((((....)))..)))).......((((....)))).............))))).))))...)))).. ( -23.10)
>DroSim_CAF1 10192 95 + 1
UCGCUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGCUGCUUCUUCUGCUUCUGUUUCCCAUUUACAGCUC
..((((((((.(((((........(((((((....)))..)))).......((((....)))).............))))).))))...)))).. ( -23.10)
>DroYak_CAF1 9067 95 + 1
UCGUUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGUUAUUCCCCAGCUGAUGCUGCUUCUUCUGCUUCUGUUUCCCAUUUACAGCUC
..((..((((.(((((....(((((...(((....)))...))))).....((((....)))).............))))).))))..))..... ( -19.10)
>consensus
UCGCUGGUGGCAAACAUAAUUAAUGCGAUCAUCUUUGAGUUCGCUUUUCCCCAGCUGAUGCUGCUUCUUCUGCUUCUGUUUCCCAUUUACAGCUC
..((((((((.(((((........(((((((....)))..)))).......((((....)))).............))))).))))...)))).. (-21.76 = -21.32 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:08 2006