Locus 122

Sequence ID	4_DroMel_CAF1
Location	834,724 – 834,843
Length	119
Max. P	0.971803

overview

Window 7

Location	834,724 – 834,843
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.17
Mean single sequence MFE	-27.38
Consensus MFE	-24.94
Energy contribution	-24.46
Covariance contribution	-0.48
Combinations/Pair	1.06
Mean z-score	-1.22
Structure conservation index	0.91
SVM decision value	0.09
SVM RNA-class probability	0.578680
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 834724 119 + 1281640
AUGCGAAAUUAUUCAAUAAGAA-AGGCUCAAGGCGAAAGAAACUUUUUUCAGAGUCAUCCUUCAGAACUAAGGAGUCAGUCAAUGAAGCGAUGACACAGCGUGUCAUCUGUGUAAUUUGC
..((.(((((((.((....((.-.(((((....(....)...(((..(((.(((......))).)))..))))))))..))........((((((((...)))))))))).))))))))) ( -28.60)
>DroSec_CAF1 13818 120 + 1
AUGCGAAAUUAUUCAAUAAGAAAAGGCUCAAGGCGAAAGAAACUUUUUUCAGAGUCAUCCUUCAGAACUAAGGAGUCAGUCAAUGAAGCGAUGACACAGCGUGUCAUCUGUGUAAUUUGC
..((.(((((((.((..........(((((.(((((((((....))))))...(.(.(((((.......)))))).).)))..)).)))((((((((...)))))))))).))))))))) ( -27.80)
>DroSim_CAF1 13308 120 + 1
AUGCGAAAUUAUUCAAUAAGAAAAGGCUCAAGGCGAAAGAAACUUUUUUCAGAGUCAUCCUUCAGAACUAAGGAGUCAGUCAAUGAAGCGAUGACACAGCGUGUCAUCUGUGUAAUUUGC
..((.(((((((.((..........(((((.(((((((((....))))))...(.(.(((((.......)))))).).)))..)).)))((((((((...)))))))))).))))))))) ( -27.80)
>DroEre_CAF1 13173 120 + 1
AUGCGAAAUUAUUCAAUAAGAAAAGGCUCAACGCAAAAGAAACUUUUUUCAGAGUCAUCCUCCAAUACUAAGGAGUCAGUCAAUGAAGCGAUGACACAGCGUGUCAUCUGUGUAAUUUGC
..((.(((((((.((....((...(((((.....(((((...)))))....)))))...((((........))))))............((((((((...)))))))))).))))))))) ( -26.00)
>DroYak_CAF1 16288 120 + 1
AUGCGAAAUUAUUCAAUAAGAAAAGGCUCAACGCAAAAGAAACUUUUUUCAGAGUCAUUCUCCAGAACUAAGGAGUCAGUCAAUGAAGCGAUGACACAGCGUGUCAUCUGUGUAAUUUGC
..((.(((((((.((...(((((((..((.........))..)))))))..(..(((((((((........))))......)))))..)((((((((...)))))))))).))))))))) ( -26.70)
>consensus
AUGCGAAAUUAUUCAAUAAGAAAAGGCUCAAGGCGAAAGAAACUUUUUUCAGAGUCAUCCUUCAGAACUAAGGAGUCAGUCAAUGAAGCGAUGACACAGCGUGUCAUCUGUGUAAUUUGC
..((.(((((((.((....((...(((((.....(((((...)))))....)))))...((((........))))))............((((((((...)))))))))).))))))))) (-24.94 = -24.46 +  -0.48)

alignment

secondary structure

dotplot

Window 8

Location	834,724 – 834,843
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.17
Mean single sequence MFE	-28.08
Consensus MFE	-26.54
Energy contribution	-26.46
Covariance contribution	-0.08
Combinations/Pair	1.05
Mean z-score	-1.59
Structure conservation index	0.95
SVM decision value	1.68
SVM RNA-class probability	0.971803
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 834724 119 - 1281640
GCAAAUUACACAGAUGACACGCUGUGUCAUCGCUUCAUUGACUGACUCCUUAGUUCUGAAGGAUGACUCUGAAAAAAGUUUCUUUCGCCUUGAGCCU-UUCUUAUUGAAUAAUUUCGCAU
((((((((..((((((((((...))))))))((((....((((((....))))))..((((((.((((.(....).)))))))))).....))))..-.......))..)))))).)).. ( -28.80)
>DroSec_CAF1 13818 120 - 1
GCAAAUUACACAGAUGACACGCUGUGUCAUCGCUUCAUUGACUGACUCCUUAGUUCUGAAGGAUGACUCUGAAAAAAGUUUCUUUCGCCUUGAGCCUUUUCUUAUUGAAUAAUUUCGCAU
((((((((..((((((((((...))))))))((((....((((((....))))))..((((((.((((.(....).)))))))))).....))))..........))..)))))).)).. ( -28.80)
>DroSim_CAF1 13308 120 - 1
GCAAAUUACACAGAUGACACGCUGUGUCAUCGCUUCAUUGACUGACUCCUUAGUUCUGAAGGAUGACUCUGAAAAAAGUUUCUUUCGCCUUGAGCCUUUUCUUAUUGAAUAAUUUCGCAU
((((((((..((((((((((...))))))))((((....((((((....))))))..((((((.((((.(....).)))))))))).....))))..........))..)))))).)).. ( -28.80)
>DroEre_CAF1 13173 120 - 1
GCAAAUUACACAGAUGACACGCUGUGUCAUCGCUUCAUUGACUGACUCCUUAGUAUUGGAGGAUGACUCUGAAAAAAGUUUCUUUUGCGUUGAGCCUUUUCUUAUUGAAUAAUUUCGCAU
((((((((..((((((((((...))))))))((((..........((((........))))((((.....((((....)))).....))))))))..........))..)))))).)).. ( -27.30)
>DroYak_CAF1 16288 120 - 1
GCAAAUUACACAGAUGACACGCUGUGUCAUCGCUUCAUUGACUGACUCCUUAGUUCUGGAGAAUGACUCUGAAAAAAGUUUCUUUUGCGUUGAGCCUUUUCUUAUUGAAUAAUUUCGCAU
((((((((..((((((((((...))))))))((((..........((((........))))((((.....((((....)))).....))))))))..........))..)))))).)).. ( -26.70)
>consensus
GCAAAUUACACAGAUGACACGCUGUGUCAUCGCUUCAUUGACUGACUCCUUAGUUCUGAAGGAUGACUCUGAAAAAAGUUUCUUUCGCCUUGAGCCUUUUCUUAUUGAAUAAUUUCGCAU
((((((((..((((((((((...))))))))((((....((((((....))))))..((((((.((((.(....).)))))))))).....))))..........))..)))))).)).. (-26.54 = -26.46 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:49 2006