Locus 1367

Sequence ID	X_DroMel_CAF1
Location	4,092,786 – 4,092,930
Length	144
Max. P	0.693422

overview

Window 4

Location	4,092,786 – 4,092,895
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	82.06
Mean single sequence MFE	-38.44
Consensus MFE	-26.36
Energy contribution	-27.92
Covariance contribution	1.56
Combinations/Pair	1.25
Mean z-score	-1.78
Structure conservation index	0.69
SVM decision value	0.33
SVM RNA-class probability	0.693422
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4092786 109 + 22224390
CUAACUGGAGGAGUAGCUGGCUCUGCUCUGCCUCAGCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGCCCAAGGACCACUUUCUGGACUUACCGGUUAAU
.(((((((.(((((((......)))))))...((((((((((((((.....))))))))))...(((((((.....)))))))........)))).....))))))).. ( -43.00)
>DroSec_CAF1 104536 109 + 1
CUAACUGGAGGACUAGCUGGCUCCGCUCUGCCUCAGCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGCCCAAGGACCACUUUCCGGACUUACCGGUUAAU
.((((((((((.(((((((((........)))..))))((((((((.....)))))))).((.((((.(((.....))))))).)).......)).))).))))))).. ( -40.00)
>DroSim_CAF1 105567 109 + 1
CUAACUGGAGGAGUAGCUGGCUCCGCUCUGCCUCAGCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGGCCAAGGACCACUUUCCGGACUUACCGGUUAAU
.(((((((.(((((.....)))))..((((((.(((((((((((((.....))))))))))..((....)).))))))...(((......))))))....))))))).. ( -40.40)
>DroEre_CAF1 110920 106 + 1
CUAACUGCAGGAGCAGCUAAUUCCGCUGUUCCUCAACUGAGUAGUGUUCUUGGCCAGUCAGGACCUUUGGGAUUGGCUCAAGGA---CUUGGAGGACUUUCCGGUUAAU
...(((((.((((((((.......))))))))((....)))))))((((((((((((((...........))))))).))))))---)((((((....))))))..... ( -39.50)
>DroYak_CAF1 103914 100 + 1
GGUGCUGGAGGAAUAGCUAGUUCCCUUCCUGCUCAAUUGACUAGUGCUCUUGGCCAGCCAGGACCUUU------GGCUCAAGGA---CUUGGAGGAAUUACCGGAUAAU
....((((.(((((.....)))))(((((...((..((((((((.(.((((((....)))))).).))------)).)))).))---...))))).....))))..... ( -29.30)
>consensus
CUAACUGGAGGAGUAGCUGGCUCCGCUCUGCCUCAGCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGCCCAAGGACCACUUUCAGGACUUACCGGUUAAU
.(((((((.(((((.....)))))..((((......(((((((((.......)))))))))...(((((((.....))))))).........))))....))))))).. (-26.36 = -27.92 +   1.56)

alignment

secondary structure

dotplot

Window 5

Location	4,092,821 – 4,092,930
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	84.08
Mean single sequence MFE	-33.75
Consensus MFE	-21.14
Energy contribution	-23.14
Covariance contribution	2.00
Combinations/Pair	1.17
Mean z-score	-1.82
Structure conservation index	0.63
SVM decision value	-0.03
SVM RNA-class probability	0.516102
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4092821 109 + 22224390
GCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGCCCAAGGACCACUUUCUGGACUUACCGGUUAAUCCCUAGAACACUUCGGAAGCUCCUAGGCAACUUUU
(((((((((((.....))))))))((((.((((((((((((((..(((.(((.....))).)))...))))))))))..((.....)).)))).)))).)))....... ( -39.20)
>DroSec_CAF1 104571 109 + 1
GCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGCCCAAGGACCACUUUCCGGACUUACCGGUUAAUCCCUUGAACACUUCGGAAGCUCCUAGGCAACUUGU
(((((((((((.....))))))))((((.((((((((((((((...(((......)))((.....)))))))))))).(((.....))))))).)))).)))....... ( -40.00)
>DroSim_CAF1 105602 109 + 1
GCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGGCCAAGGACCACUUUCCGGACUUACCGGUUAAUCCCUUGAACACUUCGGAAGCUCCUAGGCAACUUUU
(((((((((((.....))))))))((((.((((.(((.((...(((((........((((.....))))......)))))..)).))).)))).)))).)))....... ( -38.54)
>DroEre_CAF1 110955 106 + 1
ACUGAGUAGUGUUCUUGGCCAGUCAGGACCUUUGGGAUUGGCUCAAGGA---CUUGGAGGACUUUCCGGUUAAUCCCUUGAAUAUUUCAAAAGCUCUUAGACAUCUUAU
.(((((.(((((((((((((((((...........))))))).))))))---)((((((....(((.((......))..)))..))))))..))))))))......... ( -30.20)
>DroYak_CAF1 103949 100 + 1
AUUGACUAGUGCUCUUGGCCAGCCAGGACCUUU------GGCUCAAGGA---CUUGGAGGAAUUACCGGAUAAUCCUUUCAACACUUCAGAAGCUCUUAGACAACUUCU
.((((((((.(.((((((....)))))).).))------)).))))(((---.(((((((.((((.....)))).)))))))...)))(((((...........))))) ( -20.80)
>consensus
GCUGACUGGUUCUCUUGGCCAGUCAGGACCUUUGGGAUUGGCCCAAGGACCACUUUCAGGACUUACCGGUUAAUCCCUUGAACACUUCGGAAGCUCCUAGGCAACUUUU
...(((((((.......)))))))((((.((((.(((.((...(((((........((((.....))))......)))))..)).))).)))).))))........... (-21.14 = -23.14 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:29 2006