Locus 7939

Sequence ID	3L_DroMel_CAF1
Location	21,070,259 – 21,070,415
Length	156
Max. P	0.561922

overview

Window 5

Location	21,070,259 – 21,070,378
Length	119
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	97.20
Mean single sequence MFE	-20.70
Consensus MFE	-20.24
Energy contribution	-19.80
Covariance contribution	-0.44
Combinations/Pair	1.06
Mean z-score	-1.45
Structure conservation index	0.98
SVM decision value	0.06
SVM RNA-class probability	0.561922
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21070259 119 + 23771897
CAAAAACCAUUAAGUUCUACCAUUUGUUAGUUUUGCUUAUCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAAGUGCUGGCUGUAUAGUAAUACACCUUUUAU
..........(((((.(((.(....).)))....)))))...((((((((((..((.(((((((....)))))))...))..))))))))))..((.(((((....)))))))...... ( -21.50)
>DroSec_CAF1 125569 119 + 1
CAAAAACCAUUAAGUUUCACCAUUUGUUAGUUUUGCUUAUCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAGGUGCUGGCUGUAUAGUAACACACCUUAUAU
........................(((((.(..(((...(((((((((((((..((.(((((((....)))))))...))..)))))))))).)))..))).).))))).......... ( -20.30)
>DroSim_CAF1 31808 119 + 1
CAAAAACCAUUAAGUUUCACCAUUUGUUAGUUUUGCUUAUCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAGGUGCUGGCUGUAUAGUAACACACCUUAUAU
........................(((((.(..(((...(((((((((((((..((.(((((((....)))))))...))..)))))))))).)))..))).).))))).......... ( -20.30)
>consensus
CAAAAACCAUUAAGUUUCACCAUUUGUUAGUUUUGCUUAUCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAGGUGCUGGCUGUAUAGUAACACACCUUAUAU
........................(((((.(..(((...(((((((((((((..((.(((((((....)))))))...))..)))))))))).)))..))).).))))).......... (-20.24 = -19.80 +  -0.44)

alignment

secondary structure

dotplot

Window 6

Location	21,070,298 – 21,070,415
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	89.58
Mean single sequence MFE	-19.60
Consensus MFE	-13.70
Energy contribution	-15.57
Covariance contribution	1.88
Combinations/Pair	1.03
Mean z-score	-1.68
Structure conservation index	0.70
SVM decision value	-0.01
SVM RNA-class probability	0.526414
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21070298 117 + 23771897
UCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAAGUGCUGGCUGUAUAGUAAUACACCUUUUAUUUGCCAAAAUCCAUUUCACAUUUCAGUAACACUUGAC---
...((((((((((..((.(((((((....)))))))...))..)))))))))).((((.....(((((........))))).))))................((((......)))).--- ( -19.80)
>DroSec_CAF1 125608 120 + 1
UCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAGGUGCUGGCUGUAUAGUAACACACCUUAUAUUUGCCAAAAUCCAUUUCACAUAUAAGUAACACUUCACCGC
......(((((((((...(((((((....)))))))...(((..((((.(((..((((.((((((.........))))))..))))..))).))))))).)))))))))........... ( -22.00)
>DroSim_CAF1 31847 120 + 1
UCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAGGUGCUGGCUGUAUAGUAACACACCUUAUAUUUGCCAAAAUCCAUUUCACAUAUAAGUAACACUUCACCGC
......(((((((((...(((((((....)))))))...(((..((((.(((..((((.((((((.........))))))..))))..))).))))))).)))))))))........... ( -22.00)
>DroEre_CAF1 48202 120 + 1
UCACAUUUAAUUUUAACGAACUGUAUCAUUACAAUUAAAGUACUUAAUAUGUGUUGGCUGUAUAGUAAUACAUAUUUUAUUUUCCAGAAUUAAUUUCACAUAUCAGUAACACUUGUCCGC
......((((((((.......((((....))))...((((((...(((((((((((.((....))))))))))))).))))))..))))))))........................... ( -14.60)
>consensus
UCACAUUUAUUUAUAACGAAUUGUAUAAUUACAAUUAAAGUGCUAAAUAGGUGCUGGCUGUAUAGUAACACACCUUAUAUUUGCCAAAAUCCAUUUCACAUAUAAGUAACACUUCACCGC
...((((((((((..((.(((((((....)))))))...))..)))))))))).((((.((((((.........))))))..)))).................................. (-13.70 = -15.57 +   1.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:26 2006