Locus 2773

Sequence ID	2R_DroMel_CAF1
Location	9,690,867 – 9,690,999
Length	132
Max. P	0.989420

overview

Window 1

Location	9,690,867 – 9,690,959
Length	92
Sequences	3
Columns	92
Reading direction	forward
Mean pairwise identity	97.10
Mean single sequence MFE	-23.43
Consensus MFE	-21.97
Energy contribution	-22.30
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.21
Structure conservation index	0.94
SVM decision value	0.94
SVM RNA-class probability	0.886495
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9690867 92 + 20766785
CGUUGUCAUGCGAAUAUACGAAUAUGUACGAAUGAACGUACGUAUGUAUGUUUUUAUGGGGGGGAUGGAGCGAGUGUAUUAGAAUUCUUUUA
(.((.(((((.((((((((..(((((((((......))))))))))))))))).))))).)).).......((((........))))..... ( -23.60)
>DroSec_CAF1 7263 91 + 1
CGUUGUCAUGCGAAUAUACGAAUAUGUACGAAUGAACGUACGUAUGUAUGUUAAUA-GGGGGGGAUGGAGCGAGUGUGUUAGAAUUCUUUUA
(((......)))(((((((..(((((((((......))))))))))))))))....-.((((((((..((((....))))...)))))))). ( -21.40)
>DroSim_CAF1 5411 92 + 1
CGUUGUCAUGCGAAUAUACGAAUAUGUACGAAUGAACGUACGUAUGUAUGUUUAUAUGGGGGGGAUGGAGCGAGUGUGUUAGAAUUCUUUUA
......((((..(((((((..(((((((((......))))))))))))))))..))))((((((((..((((....))))...)))))))). ( -25.30)
>consensus
CGUUGUCAUGCGAAUAUACGAAUAUGUACGAAUGAACGUACGUAUGUAUGUUUAUAUGGGGGGGAUGGAGCGAGUGUGUUAGAAUUCUUUUA
(.((.(((((..(((((((..(((((((((......))))))))))))))))..))))).)).).......((((........))))..... (-21.97 = -22.30 +   0.33)

alignment

secondary structure

dotplot

Window 2

Location	9,690,887 – 9,690,999
Length	112
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	86.13
Mean single sequence MFE	-28.16
Consensus MFE	-24.16
Energy contribution	-25.48
Covariance contribution	1.32
Combinations/Pair	1.06
Mean z-score	-2.35
Structure conservation index	0.86
SVM decision value	2.16
SVM RNA-class probability	0.989420
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9690887 112 + 20766785
AAUAUGUACGAAUGAACGUACGUAUGUAUGUUUUUAUGGGGGGGAUGGAGCGAGUGUAUUAGAAUUCUUUUAGCAUACAUCCAUACGGAUUUUUUUCGUUUCCAUUUCAUUC
.(((((((((......)))))))))................(..(((((((((((((.(((((.....))))).))))((((....)))).....))).))))))..).... ( -29.50)
>DroSec_CAF1 7283 111 + 1
AAUAUGUACGAAUGAACGUACGUAUGUAUGUUAAUA-GGGGGGGAUGGAGCGAGUGUGUUAGAAUUCUUUUACCAUACAUCCAUACGGAUUUUUUUCGUUUCCAUUUCAUUC
.(((((((((......)))))))))...........-....(..((((((((((((((.((((.....)))).)))))((((....)))).....))).))))))..).... ( -31.60)
>DroSim_CAF1 5431 112 + 1
AAUAUGUACGAAUGAACGUACGUAUGUAUGUUUAUAUGGGGGGGAUGGAGCGAGUGUGUUAGAAUUCUUUUACCAUACAUCCAUACGGAUUUUUUUCGUUUCCAUUUCAUUC
........((.((((((((((....)))))))))).))...(..((((((((((((((.((((.....)))).)))))((((....)))).....))).))))))..).... ( -31.90)
>DroEre_CAF1 5344 90 + 1
AA----------------------UGUAUAUUUAUAUGGGGGGAAUGGAGCGAGUGUGUUAGAAUUCUUUUACCAUACAUCCAUACGGGUUUUUUUCGUUUCCAUUUCAUUC
.(----------------------((((....)))))....(((((((((((((((((.((((.....)))).)))))((((....)))).....))).))))))))).... ( -22.50)
>DroYak_CAF1 5374 102 + 1
AAUAUGUACGU----------UUAUGUAUGUUUAUAUGGGGGGAAUGGAGCGAGUGUGUUAGAAUUCUUUUACCAUACAUCCAUAGGGGUUUUUUUCGUUUCCAUUUCAUUC
.(((((.((((----------......)))).)))))....(((((((((((((((((.((((.....)))).)))))((((....)))).....))).))))))))).... ( -25.30)
>consensus
AAUAUGUACGAAUGAACGUACGUAUGUAUGUUUAUAUGGGGGGGAUGGAGCGAGUGUGUUAGAAUUCUUUUACCAUACAUCCAUACGGAUUUUUUUCGUUUCCAUUUCAUUC
.(((((((((......)))))))))................(((((((((((((((((.((((.....)))).)))))((((....)))).....))).))))))))).... (-24.16 = -25.48 +   1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:08 2006