Locus 8455

Sequence ID	X_DroMel_CAF1
Location	21,014,566 – 21,014,755
Length	189
Max. P	0.999265

overview

Window 0

Location	21,014,566 – 21,014,684
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.47
Mean single sequence MFE	-37.18
Consensus MFE	-32.64
Energy contribution	-32.80
Covariance contribution	0.16
Combinations/Pair	1.03
Mean z-score	-2.50
Structure conservation index	0.88
SVM decision value	3.47
SVM RNA-class probability	0.999265
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21014566 118 - 22224390
GGUUUGUUGUCA--AGCGAAAGUGCGCUUCAAGUGCACCAAGCACCCACUUGGCCAAAGUGAAUUUAGUGUCAAGUGCAGGAAAAUGUGAAAAGCAGAUGCGAGUUAGUUUUUCAUAUUU
.((((((((...--..)))..((((((.....))))))))))).((((((((((((((.....))).).))))))))..)).(((((((((((((.(((....))).))))))))))))) ( -35.40)
>DroVir_CAF1 36369 120 - 1
CUGUUGUUGUCGGCAGCGAAAGUGCGCUUGAAGUGCACGGAGCACCUACUUGGCCAAAGUGAAUUUAGUGUCAAGUGCAGGAAAAUGUGAAAAGCAGCUACGAGUUAGUUUUUCAUAUUU
((.((((((....)))))).))(((((((((.((((.....)))).(((((.....))))).........)))))))))...((((((((((((((((.....))).))))))))))))) ( -38.70)
>DroSec_CAF1 1388 118 - 1
GGUUUGUUGUCA--AGCGAAAGUGCGCUUCAAGUGCACCAAGCACCCACUUGGCCAAAGUGAAUUUAGUGUCAAGUGCAGGAAAAUGUGAAAAGCAGAUGCGAGUUAGUUUUUCAUAUUU
.((((((((...--..)))..((((((.....))))))))))).((((((((((((((.....))).).))))))))..)).(((((((((((((.(((....))).))))))))))))) ( -35.40)
>DroSim_CAF1 1054 118 - 1
GGUUUGUUGUCA--AGCGAAAGUGCGCUUCAAGUGCACCAAGCACCCACUUGGCCAAAGUGAAUUUAGUGUCAAGUGCAGGAAAAUGUGAAAAGCAGAUGCGAGUUAGUUUUUCAUAUUU
.((((((((...--..)))..((((((.....))))))))))).((((((((((((((.....))).).))))))))..)).(((((((((((((.(((....))).))))))))))))) ( -35.40)
>DroMoj_CAF1 145136 120 - 1
UCGUUGUUGUUGGCAGCGAAAGUGCGCUUGAAGUGCACGGAGCACCUACUUGGCCAAAGUGAAUUUAGUGUCAAGUGCAGGAAAAUGUGAAAAGCAGCUACGAGUUAGUUUUUCAUAUUU
(((((((.....)))))))...(((((((((.((((.....)))).(((((.....))))).........)))))))))...((((((((((((((((.....))).))))))))))))) ( -41.00)
>consensus
GGUUUGUUGUCA__AGCGAAAGUGCGCUUCAAGUGCACCAAGCACCCACUUGGCCAAAGUGAAUUUAGUGUCAAGUGCAGGAAAAUGUGAAAAGCAGAUGCGAGUUAGUUUUUCAUAUUU
...............((....((((((.....))))))...)).((((((((((((((.....))).).))))))))..)).(((((((((((((.(((....))).))))))))))))) (-32.64 = -32.80 +   0.16)

alignment

secondary structure

dotplot

Window 1

Location	21,014,646 – 21,014,755
Length	109
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	95.72
Mean single sequence MFE	-23.20
Consensus MFE	-22.59
Energy contribution	-22.37
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-1.85
Structure conservation index	0.97
SVM decision value	0.77
SVM RNA-class probability	0.845058
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21014646 109 + 22224390
UGGUGCACUUGAAGCGCACUUUCGCUUGACAACAAACCCACCGUCAGCAUCGCAUCCAUAUCCACAUCCAUGGAGCGGCAUCCAUGCAGCAACAUCCACAUCCACAUCC
((.((((...((.((........(((.(((............))))))..(((.(((((..........)))))))))).))..)))).)).................. ( -23.20)
>DroSec_CAF1 1468 103 + 1
UGGUGCACUUGAAGCGCACUUUCGCUUGACAACAAACCCACCGUCAGCAUCGCAUCCAUAUCCACAUCCAUGGAGCGGCAUCCACGCAGCAACAUCC------ACAUCC
.(((((.....(((((......)))))(((............))).)))))((.(((((..........)))))(((.......))).)).......------...... ( -23.20)
>DroSim_CAF1 1134 109 + 1
UGGUGCACUUGAAGCGCACUUUCGCUUGACAACAAACCCACCGUCAGCAUCGCAUCCAUAUCCACAUCCAUGGAGCGGCAUCCACGCAGCAACAUCCACAUCCACAUCC
.(((((.....(((((......)))))(((............))).)))))((.(((((..........)))))(((.......))).))................... ( -23.20)
>consensus
UGGUGCACUUGAAGCGCACUUUCGCUUGACAACAAACCCACCGUCAGCAUCGCAUCCAUAUCCACAUCCAUGGAGCGGCAUCCACGCAGCAACAUCCACAUCCACAUCC
.(((((.....(((((......)))))(((............))).)))))((.(((((..........)))))(((.......))).))................... (-22.59 = -22.37 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:27 2006