Locus 1442

Sequence ID	2R_DroMel_CAF1
Location	5,521,526 – 5,521,630
Length	104
Max. P	0.835888

overview

Window 5

Location	5,521,526 – 5,521,630
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	96.54
Mean single sequence MFE	-20.90
Consensus MFE	-19.52
Energy contribution	-19.44
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-1.19
Structure conservation index	0.93
SVM decision value	0.31
SVM RNA-class probability	0.680780
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5521526 104 + 20766785
GAAUCCAACUUUAAAAUUGCAUUUACAUUUGGAAUCGGUUUUAUGCUCUCCAUUCAUAAUGAAUGGUUUGAAUUAUUCAAGGGAUACAUCGCUGAAUGCCAUGA
((.(((((.(.((((......)))).).))))).))(((.......((.((((((.....))))))...))...(((((.(.((....)).))))))))).... ( -20.20)
>DroSec_CAF1 44686 104 + 1
GAAUCCAACUUUAAAAUUGCAUUUACAUUUGGAAUCGGUUUUAUGCUCUCCAUUCAUAAUGAAUGGUUUGAAUUAUUCAAGGGAUACAUCGCUGAAUGCCAUGA
((.(((((.(.((((......)))).).))))).))(((.......((.((((((.....))))))...))...(((((.(.((....)).))))))))).... ( -20.20)
>DroSim_CAF1 21977 104 + 1
GAAUCCAACUUUAAAAUUGCAUUUACAUUUGGAAUCGGUUUUAUGCUCUCCAUUCAUAAUGAAUGGUUUGAAUUAUUCAAGGGAUACAUCGCUGAAUGCCAUGA
((.(((((.(.((((......)))).).))))).))(((.......((.((((((.....))))))...))...(((((.(.((....)).))))))))).... ( -20.20)
>DroEre_CAF1 21689 104 + 1
GAAUCCAACUUUAAAAUUGCAUUUACAUUUGGAAUCGGUUCUAUGCUCUCCAUUCAUAAUGAAUGGCCUGAAUUAUUCAAGGCAUACAUCGCUGAAUACCAUGA
((.(((((.(.((((......)))).).))))).))(((.....((....(((((.....)))))((((((.....)).)))).......)).....))).... ( -21.90)
>DroYak_CAF1 22185 104 + 1
GAAUCCAACUUUAAAAUUGCAUUUACAUUUGGAAUCGGUUUUAUGCUCUCCAUUCAUAAUGAAUGGCCUGAAUCAUUCAAGGCAUACAUUGCUGAAUACCAUGA
((.(((((.(.((((......)))).).))))).))(((((((.((....(((((.....)))))((((((.....)).)))).......)))))).))).... ( -22.00)
>consensus
GAAUCCAACUUUAAAAUUGCAUUUACAUUUGGAAUCGGUUUUAUGCUCUCCAUUCAUAAUGAAUGGUUUGAAUUAUUCAAGGGAUACAUCGCUGAAUGCCAUGA
((.(((((.(.((((......)))).).))))).))(((.....((...((((((.....))))))(((((.....))))).........)).....))).... (-19.52 = -19.44 +  -0.08)

alignment

secondary structure

dotplot

Window 6

Location	5,521,526 – 5,521,630
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	96.54
Mean single sequence MFE	-22.46
Consensus MFE	-19.16
Energy contribution	-18.68
Covariance contribution	-0.48
Combinations/Pair	1.08
Mean z-score	-1.62
Structure conservation index	0.85
SVM decision value	0.73
SVM RNA-class probability	0.835888
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5521526 104 - 20766785
UCAUGGCAUUCAGCGAUGUAUCCCUUGAAUAAUUCAAACCAUUCAUUAUGAAUGGAGAGCAUAAAACCGAUUCCAAAUGUAAAUGCAAUUUUAAAGUUGGAUUC
.(((.((.....)).)))......((((.....)))).((((((.....)))))).............((.(((((...((((......))))...))))).)) ( -20.10)
>DroSec_CAF1 44686 104 - 1
UCAUGGCAUUCAGCGAUGUAUCCCUUGAAUAAUUCAAACCAUUCAUUAUGAAUGGAGAGCAUAAAACCGAUUCCAAAUGUAAAUGCAAUUUUAAAGUUGGAUUC
.(((.((.....)).)))......((((.....)))).((((((.....)))))).............((.(((((...((((......))))...))))).)) ( -20.10)
>DroSim_CAF1 21977 104 - 1
UCAUGGCAUUCAGCGAUGUAUCCCUUGAAUAAUUCAAACCAUUCAUUAUGAAUGGAGAGCAUAAAACCGAUUCCAAAUGUAAAUGCAAUUUUAAAGUUGGAUUC
.(((.((.....)).)))......((((.....)))).((((((.....)))))).............((.(((((...((((......))))...))))).)) ( -20.10)
>DroEre_CAF1 21689 104 - 1
UCAUGGUAUUCAGCGAUGUAUGCCUUGAAUAAUUCAGGCCAUUCAUUAUGAAUGGAGAGCAUAGAACCGAUUCCAAAUGUAAAUGCAAUUUUAAAGUUGGAUUC
.(((.((.....)).)))((((((((((.....)))))((((((.....))))))...))))).....((.(((((...((((......))))...))))).)) ( -24.80)
>DroYak_CAF1 22185 104 - 1
UCAUGGUAUUCAGCAAUGUAUGCCUUGAAUGAUUCAGGCCAUUCAUUAUGAAUGGAGAGCAUAAAACCGAUUCCAAAUGUAAAUGCAAUUUUAAAGUUGGAUUC
(((.(((((.((....)).))))).)))(((.(((...((((((.....)))))).))))))......((.(((((...((((......))))...))))).)) ( -27.20)
>consensus
UCAUGGCAUUCAGCGAUGUAUCCCUUGAAUAAUUCAAACCAUUCAUUAUGAAUGGAGAGCAUAAAACCGAUUCCAAAUGUAAAUGCAAUUUUAAAGUUGGAUUC
.(((.((.....)).)))......((((.....)))).((((((.....)))))).............((.(((((...((((......))))...))))).)) (-19.16 = -18.68 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:59 2006