Locus 5776

Sequence ID	3L_DroMel_CAF1
Location	15,656,409 – 15,656,544
Length	135
Max. P	0.568961

overview

Window 5

Location	15,656,409 – 15,656,524
Length	115
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	95.34
Mean single sequence MFE	-27.08
Consensus MFE	-24.20
Energy contribution	-23.98
Covariance contribution	-0.22
Combinations/Pair	1.09
Mean z-score	-1.12
Structure conservation index	0.89
SVM decision value	-0.02
SVM RNA-class probability	0.521825
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15656409 115 - 23771897
UCUCGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCAGUAUUUGUUUGUGC----UCG
...................(((((((((((..(((....)))..)))))))........(((......(((((((....)))))))..(((...))))))..........))----)). ( -26.50)
>DroSec_CAF1 16160 119 - 1
UCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCAGUAUUUGUUUGUGCUCGCUCG
...................(((((((((((..(((....)))..))))))).................(((((((....)))))))..(((...)))(((((......))))).)))). ( -28.10)
>DroSim_CAF1 16146 119 - 1
UCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCAGUAUUUGUUUGUGCUCGCUCG
...................(((((((((((..(((....)))..))))))).................(((((((....)))))))..(((...)))(((((......))))).)))). ( -28.10)
>DroEre_CAF1 16324 115 - 1
UCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCAGCAUUUGUUUGUGC----UCG
....(((((((((....))))))(((((((..(((....)))..))))))).......))).......(((((((....)))))))..(((...)))(((((......))))----).. ( -27.80)
>DroYak_CAF1 16195 115 - 1
UCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCAGUAUUUGUUUGUGC----UCG
...................(((((((((((..(((....)))..)))))))........(((......(((((((....)))))))..(((...))))))..........))----)). ( -26.50)
>DroAna_CAF1 75736 115 - 1
UCUUGUUGUUUAUUUUUAUGAGCCCUGAGUUCGGUGGCCGCCGCGCUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCGGUGUUUGUUUGCGC----UUG
...((((((((((....))))))...((((.((((....)))).))))))))................(((((((....)))))))..(((...)))(((((......))))----).. ( -25.50)
>consensus
UCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGUUAUCAGUCAGCCUUCGGCAGUAUUUGUUUGUGC____UCG
....(((((((((....))))))(((((((..(((....)))..))))))).......))).......(((((((....)))))))..(((...))).((((......))))....... (-24.20 = -23.98 +  -0.22)

alignment

secondary structure

dotplot

Window 6

Location	15,656,445 – 15,656,544
Length	99
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	89.40
Mean single sequence MFE	-20.30
Consensus MFE	-18.11
Energy contribution	-18.08
Covariance contribution	-0.03
Combinations/Pair	1.09
Mean z-score	-1.30
Structure conservation index	0.89
SVM decision value	0.07
SVM RNA-class probability	0.568961
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15656445 99 - 23771897
UUCCGUGGCUCC--------------------UUAUUCAUUCUCGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
....((((((((--------------------..(((((..(((((...........)))))...)))))..)).))))))...........((((.(((......)))..)))).... ( -20.20)
>DroSec_CAF1 16200 99 - 1
UUCCGUGACUCC--------------------UUAUUCAUUCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
.((.((((....--------------------...............((((((....))))))(((((((..(((....)))..)))))))...............)))).))...... ( -19.70)
>DroSim_CAF1 16186 99 - 1
UUCCGUGGCUCC--------------------UUAUUCAUUCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
.((.((((....--------------------...............((((((....))))))(((((((..(((....)))..)))))))...............)))).))...... ( -18.80)
>DroEre_CAF1 16360 99 - 1
UUCCGUGGCUCC--------------------UUAUUCAUUCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
.((.((((....--------------------...............((((((....))))))(((((((..(((....)))..)))))))...............)))).))...... ( -18.80)
>DroYak_CAF1 16231 99 - 1
UUCCGUGGCUCC--------------------UUAUUCAUUCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
.((.((((....--------------------...............((((((....))))))(((((((..(((....)))..)))))))...............)))).))...... ( -18.80)
>DroAna_CAF1 75772 119 - 1
CUCAGUGAUUUAUUGAUGGCAGUGCAUUAUUUCUCUUCAUUCUUGUUGUUUAUUUUUAUGAGCCCUGAGUUCGGUGGCCGCCGCGCUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
.(((((((.....(((((......))))).......(((....((((((((((....))))))...((((.((((....)))).)))))))).....)))......)))))))...... ( -25.50)
>consensus
UUCCGUGGCUCC____________________UUAUUCAUUCUUGUUGUUUAUUUUUAUGAGCGUUGAGUUCGGUGGCCGCCUCACUCAACAUAUUUUGACUUCUUUCAUUGAUAAAGU
.((.((((.......................................((((((....))))))(((((((..(((....)))..)))))))...............)))).))...... (-18.11 = -18.08 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:38 2006