Locus 9387

Sequence ID	3R_DroMel_CAF1
Location	24,910,105 – 24,910,255
Length	150
Max. P	0.994005

overview

Window 9

Location	24,910,105 – 24,910,222
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.80
Mean single sequence MFE	-37.32
Consensus MFE	-33.94
Energy contribution	-34.18
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.90
Structure conservation index	0.91
SVM decision value	2.44
SVM RNA-class probability	0.994005
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24910105 117 - 27905053
AUCGCCUUGCCACCU---CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGAUAAUUAGUUUGCUUUCGGUGGCAGCUCCCAGAGCAUCCGA
.(((...(((((((.---....((((((....((......(((((..(((((.((((........)))).)))))))))).....)).))))))..)))))))((((...))))...))) ( -36.20)
>DroSec_CAF1 21700 120 - 1
AUCGCGUUGCCACCUCCUCCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGAUAAUUAGUUUGCCUUCGGUGGCAGCUCCCAGAGCAUCCGA
.(((...(((((((........((((((....((......(((((..(((((.((((........)))).)))))))))).....)).))))))..)))))))((((...))))...))) ( -37.10)
>DroSim_CAF1 21352 120 - 1
AUCGCGUUGCCACCUCCUCCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGAUAAUUAGUUUGCCUUCGGUGGCAGCUCCCAGAGCAUCCGA
.(((...(((((((........((((((....((......(((((..(((((.((((........)))).)))))))))).....)).))))))..)))))))((((...))))...))) ( -37.10)
>DroEre_CAF1 21790 117 - 1
ACCACGGUGCCACCU---CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGAUAAUUAGUUUGCCUUCAGUGGCAGCUCCCAGAGCAUCCGA
....(((((((((..---....((((((....((......(((((..(((((.((((........)))).)))))))))).....)).))))))...))))))((((...))))..))). ( -38.10)
>DroYak_CAF1 22077 117 - 1
ACCACGGUGCCACCU---CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGAUAAUUAGUUUGCCUUCAGUGGCAGCUCCCAGAGCAUCCGA
....(((((((((..---....((((((....((......(((((..(((((.((((........)))).)))))))))).....)).))))))...))))))((((...))))..))). ( -38.10)
>consensus
AUCGCGUUGCCACCU___CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGAUAAUUAGUUUGCCUUCGGUGGCAGCUCCCAGAGCAUCCGA
.......(((((((........((((((....((......(((((..(((((.((((........)))).)))))))))).....)).))))))..)))))))((((...))))...... (-33.94 = -34.18 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	24,910,145 – 24,910,255
Length	110
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.73
Mean single sequence MFE	-27.48
Consensus MFE	-23.20
Energy contribution	-23.40
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.54
Structure conservation index	0.84
SVM decision value	0.77
SVM RNA-class probability	0.845000
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24910145 110 - 27905053
AUUUCGAUUCAGAUUCGGAUUCCC-------ACUUCCACCAUCGCCUUGCCACCU---CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGA
.....((((((((...(((.....-------...))).........(((((....---.....))))).....))))))))((((..(((((.((((........)))).))))))))). ( -26.30)
>DroSec_CAF1 21740 113 - 1
AUUUCGAUGCAGAUUCGGAUUCCC-------ACUUCCACCAUCGCGUUGCCACCUCCUCCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGA
..(((((.((.(((..(((.....-------...)))...)))))((((((............)))))).....))))).(((((..(((((.((((........)))).)))))))))) ( -27.00)
>DroSim_CAF1 21392 113 - 1
AUUUCGAUUCAGAUUCGGAUUCCC-------ACUUCCACCAUCGCGUUGCCACCUCCUCCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGA
.....((((((((...(((.....-------...)))......(.((((((............)))))).)..))))))))((((..(((((.((((........)))).))))))))). ( -27.20)
>DroEre_CAF1 21830 117 - 1
AUUUCGAUUCAGAUUCGGAUUCCCACUCUCCACUUCCACCACCACGGUGCCACCU---CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGA
.....((((((((...(((((.((............((((.....))))......---.....)).)))))..))))))))((((..(((((.((((........)))).))))))))). ( -29.00)
>DroYak_CAF1 22117 110 - 1
AUUUCGAUUCAGAUUCGGAUUCCC-------ACUUCCACCACCACGGUGCCACCU---CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGA
.....((((((((...(((((...-------......(((.....)))(((....---.....))))))))..))))))))((((..(((((.((((........)))).))))))))). ( -27.90)
>consensus
AUUUCGAUUCAGAUUCGGAUUCCC_______ACUUCCACCAUCGCGUUGCCACCU___CCCCAGGCAAUCCCCUUUGAAUUCCCCGAGCUGUCUGUUUGUCACUCAACAUAUGGCGGGGA
.....((((((((...(((...............)))..........((((............))))......))))))))((((..(((((.((((........)))).))))))))). (-23.20 = -23.40 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:33:23 2006