Locus 4230

Sequence ID	X_DroMel_CAF1
Location	11,090,209 – 11,090,307
Length	98
Max. P	0.887685

overview

Window 9

Location	11,090,209 – 11,090,307
Length	98
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	76.12
Mean single sequence MFE	-26.85
Consensus MFE	-17.18
Energy contribution	-16.93
Covariance contribution	-0.25
Combinations/Pair	1.18
Mean z-score	-1.66
Structure conservation index	0.64
SVM decision value	0.95
SVM RNA-class probability	0.887685
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11090209 98 + 22224390
CCUGCAUUCAAUUUUCAGGAUGAGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCCAACUGCUCUUGUACGAUGGCAAAAAAAGGGGU-----GGGGGUG
(((.(((((.........(((((((....((((......)))).))))))).((((((((.((((....))).).))))))))....))))-----).))).. ( -35.70)
>DroPse_CAF1 9887 91 + 1
UCUGCAUUCAAUUUACAGGAUGGGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCAAAAUGCUCAAAG------------GGGGAGAACACCGGAGGAUG
..((((............(((((((....((((......)))).)))))))....))))..((.(((...(------------((......).)).))).)). ( -21.69)
>DroSec_CAF1 9950 86 + 1
CCUGCAUUCAAUUUUCAGGAUGAGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCCAACUGCUCUUGA------------GGGGAGGA-----GGGGAGG
(((.(.............(((((((....((((......)))).)))))))......((..((.(((....------------))).))..-----))).))) ( -26.20)
>DroEre_CAF1 7772 89 + 1
CCUGCAUUCAAUUUUCAGGAUGAGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCCAACUGCUCUUGUGCGACGGAG---------AA-----GGGGGUG
....(((((..(((((..(((((((....((((......)))).)))))))...(((((((......))).))))..)))---------))-----..))))) ( -26.60)
>DroAna_CAF1 9000 78 + 1
CCUGCAUUCAAUUUUCAGGAUGAGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCCAACGGCG--------------------GGGUG-----GGGGAGC
(((.(((((.........(((((((....((((......)))).)))))))....((((...))))--------------------)))))-----.)))... ( -27.80)
>DroPer_CAF1 9907 91 + 1
UCCGCAUUCAAUUUACAGGAUGGGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCAAAAUGCUCAAAG------------GGGGAGAAUACCGGAGGAUG
((((((((..........(((((((....((((......)))).))))))).........)))))......------------((........)))))..... ( -23.11)
>consensus
CCUGCAUUCAAUUUUCAGGAUGAGCCAUGCAACUUUUAUGUUGAGCUCAUCAUUUUGCCAACUGCUCUUGG____________GGGGAGAA_____GGGGAUG
(((.(.............(((((((....((((......)))).))))))).....((.....))...............................).))).. (-17.18 = -16.93 +  -0.25)

alignment

secondary structure

dotplot

Window 0

Location	11,090,209 – 11,090,307
Length	98
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	76.12
Mean single sequence MFE	-20.08
Consensus MFE	-14.42
Energy contribution	-14.62
Covariance contribution	0.19
Combinations/Pair	1.06
Mean z-score	-0.96
Structure conservation index	0.72
SVM decision value	0.18
SVM RNA-class probability	0.621596
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11090209 98 - 22224390
CACCCCC-----ACCCCUUUUUUUGCCAUCGUACAAGAGCAGUUGGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCUCAUCCUGAAAAUUGAAUGCAGG
.......-----...(((..((((((((..((......))...)))))))).((((((((((((......))))...))))))))...............))) ( -24.20)
>DroPse_CAF1 9887 91 - 1
CAUCCUCCGGUGUUCUCCCC------------CUUUGAGCAUUUUGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCCCAUCCUGUAAAUUGAAUGCAGA
........(((((((.....------------....))))))).........((((.(((((((......))))...))).))))(((((.......))))). ( -17.70)
>DroSec_CAF1 9950 86 - 1
CCUCCCC-----UCCUCCCC------------UCAAGAGCAGUUGGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCUCAUCCUGAAAAUUGAAUGCAGG
.......-----......((------------(((....(((((..((....((((((((((((......))))...)))))))).))..)))))..)).))) ( -20.40)
>DroEre_CAF1 7772 89 - 1
CACCCCC-----UU---------CUCCGUCGCACAAGAGCAGUUGGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCUCAUCCUGAAAAUUGAAUGCAGG
.......-----..---------.......(((......(((((..((....((((((((((((......))))...)))))))).))..)))))..)))... ( -20.20)
>DroAna_CAF1 9000 78 - 1
GCUCCCC-----CACCC--------------------CGCCGUUGGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCUCAUCCUGAAAAUUGAAUGCAGG
((.....-----.....--------------------.(((...))).....((((((((((((......))))...)))))))).............))... ( -18.70)
>DroPer_CAF1 9907 91 - 1
CAUCCUCCGGUAUUCUCCCC------------CUUUGAGCAUUUUGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCCCAUCCUGUAAAUUGAAUGCGGA
.....(((((......))..------------......((((((((((....((((.(((((((......))))...))).)))).))))....))))))))) ( -19.30)
>consensus
CAUCCCC_____UUCUCCCC____________ACAAGAGCAGUUGGCAAAAUGAUGAGCUCAACAUAAAAGUUGCAUGGCUCAUCCUGAAAAUUGAAUGCAGG
......................................((.....)).....((((((((((((......))))...))))))))(((...........))). (-14.42 = -14.62 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:44 2006