Locus 7769

Sequence ID	X_DroMel_CAF1
Location	19,329,452 – 19,329,544
Length	92
Max. P	0.999580

overview

Window 0

Location	19,329,452 – 19,329,544
Length	92
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	97.20
Mean single sequence MFE	-20.10
Consensus MFE	-19.42
Energy contribution	-19.42
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.27
Structure conservation index	0.97
SVM decision value	3.75
SVM RNA-class probability	0.999580
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19329452 92 + 22224390
UCUAGCAAUUUGUCUGCAACUUCUAAUUCGCUGCGGGUAUUUU--UUUUGUGUUUGUUGUUACAUAUAAUCCGAUCAAUUUCGAUCGCCCGCUU
....(((.......)))...............((((((.....--...(((((........)))))......((((......)))))))))).. ( -20.20)
>DroSec_CAF1 2842 92 + 1
UCUAGCAAUUUGUCUUCAACUUCUAAUUCGCUGCGGGUAUUUU--UUUUGUGUUUGUUGUUACAUAUAAUCCGAUCAAUUUCGAUCGCCCGCUU
...(((((((.((.....))....)))).)))((((((.....--...(((((........)))))......((((......)))))))))).. ( -19.50)
>DroSim_CAF1 4224 92 + 1
UCUAGCAAUUUGUCUGCAACUUCUAAUUCGCUGCGGGUAUUUU--UUUUGUGUUUGUUGUUACAUAUAAUCCGAUCAAUUUCGAUCGCCCGCUU
....(((.......)))...............((((((.....--...(((((........)))))......((((......)))))))))).. ( -20.20)
>DroEre_CAF1 2785 94 + 1
UCUAGCAAUUUGUCUGCAACUUCUAAUUCGCUGCGGGUAUUUUUUUUUUGUGUUUGUUGUUACAUAUAAACCGAUCAACUUCGAUCGCCCGCCU
....(((.......)))...............((((((...........(.((((((........)))))))((((......)))))))))).. ( -20.40)
>DroYak_CAF1 2777 92 + 1
UCUAGCAAUUUGUCUGCAACUUCUAAUUCGCUGCGGGUAUUUU--UUUUGUGUUUGUUGUUACAUAUAAUCCGAUCAACUUCGAUCGCCCGCUU
....(((.......)))...............((((((.....--...(((((........)))))......((((......)))))))))).. ( -20.20)
>consensus
UCUAGCAAUUUGUCUGCAACUUCUAAUUCGCUGCGGGUAUUUU__UUUUGUGUUUGUUGUUACAUAUAAUCCGAUCAAUUUCGAUCGCCCGCUU
...(((((((.((.....))....)))).)))((((((..........(((((........)))))......((((......)))))))))).. (-19.42 = -19.42 +  -0.00)

alignment

secondary structure

dotplot

Window 1

Location	19,329,452 – 19,329,544
Length	92
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	97.20
Mean single sequence MFE	-19.72
Consensus MFE	-18.88
Energy contribution	-18.92
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-2.31
Structure conservation index	0.96
SVM decision value	3.72
SVM RNA-class probability	0.999560
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19329452 92 - 22224390
AAGCGGGCGAUCGAAAUUGAUCGGAUUAUAUGUAACAACAAACACAAAA--AAAAUACCCGCAGCGAAUUAGAAGUUGCAGACAAAUUGCUAGA
.((((((((((((....)))))).......(((....))).........--......)))(((((.........))))).........)))... ( -20.10)
>DroSec_CAF1 2842 92 - 1
AAGCGGGCGAUCGAAAUUGAUCGGAUUAUAUGUAACAACAAACACAAAA--AAAAUACCCGCAGCGAAUUAGAAGUUGAAGACAAAUUGCUAGA
..(((((((((((....)))))).......(((....))).........--......)))))......((((.((((.......)))).)))). ( -18.20)
>DroSim_CAF1 4224 92 - 1
AAGCGGGCGAUCGAAAUUGAUCGGAUUAUAUGUAACAACAAACACAAAA--AAAAUACCCGCAGCGAAUUAGAAGUUGCAGACAAAUUGCUAGA
.((((((((((((....)))))).......(((....))).........--......)))(((((.........))))).........)))... ( -20.10)
>DroEre_CAF1 2785 94 - 1
AGGCGGGCGAUCGAAGUUGAUCGGUUUAUAUGUAACAACAAACACAAAAAAAAAAUACCCGCAGCGAAUUAGAAGUUGCAGACAAAUUGCUAGA
.((((((((((((....)))))).......(((....))).................)))(((((.........))))).........)))... ( -20.10)
>DroYak_CAF1 2777 92 - 1
AAGCGGGCGAUCGAAGUUGAUCGGAUUAUAUGUAACAACAAACACAAAA--AAAAUACCCGCAGCGAAUUAGAAGUUGCAGACAAAUUGCUAGA
.((((((((((((....)))))).......(((....))).........--......)))(((((.........))))).........)))... ( -20.10)
>consensus
AAGCGGGCGAUCGAAAUUGAUCGGAUUAUAUGUAACAACAAACACAAAA__AAAAUACCCGCAGCGAAUUAGAAGUUGCAGACAAAUUGCUAGA
.((((((((((((....)))))).......(((....))).................)))(((((.........))))).........)))... (-18.88 = -18.92 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:09 2006