Locus 1151

Sequence ID	3R_DroMel_CAF1
Location	3,449,597 – 3,449,693
Length	96
Max. P	0.719987

overview

Window 0

Location	3,449,597 – 3,449,693
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	95.48
Mean single sequence MFE	-19.83
Consensus MFE	-17.06
Energy contribution	-17.25
Covariance contribution	0.19
Combinations/Pair	1.04
Mean z-score	-1.60
Structure conservation index	0.86
SVM decision value	0.34
SVM RNA-class probability	0.695684
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3449597 96 + 27905053
GUAGUGCGUAAAAUUUCAAUGCGAAAUCAAGAAGUUGAGCCAUAAAUUUCUAAAAUUAUUGGCACAAUUGAAGUUGUGCCUUGAAAUAUAUAUUUC
............(((((((..........(((((((........))))))).........((((((((....)))))))))))))))......... ( -20.60)
>DroSec_CAF1 48336 96 + 1
GUAGUGCGUAAAAUUUCAAUGCGAAAUCAAGAAGUUGAGCCAUAAAUUUCUAAAAUUAUUGGCACAAUUGAAGUUGUGCCUUGAAAUAUAUAUUUC
............(((((((..........(((((((........))))))).........((((((((....)))))))))))))))......... ( -20.60)
>DroSim_CAF1 62829 96 + 1
GUAGUGCGUAAAAUUUCAAUGCGAAAUCAAGAAGUUGAGCCAUAAAUUUCUAAAAUUAUUGGCACAAUUGAAGUUGUGCCUUGAAAUAUAUAUUUC
............(((((((..........(((((((........))))))).........((((((((....)))))))))))))))......... ( -20.60)
>DroEre_CAF1 57705 94 + 1
GUAGUGCGUAAAAUUUCAAUGCGAAAUCAAGAAGUUGCGCCAUAAAUUUCCAAAAUUAUUGGCACAAUUGAAGUUGUGCCUUGA-A-AUAUAUUUC
............(((((((...........((((((........))))))..........((((((((....))))))))))))-)-))....... ( -19.00)
>DroYak_CAF1 70302 95 + 1
GUAGUGCGUAAAAUUUCAAUGCGAAAUCAAGAAGUUGAGCCAUAAAUUUCUAAAAUUAUUGGCACAAUUGAAGUUGAGCUUCGAAA-AUAUAUUUC
...((((.....(((((.....)))))..(((((((........)))))))..........))))..((((((.....))))))..-......... ( -17.70)
>DroAna_CAF1 46513 95 + 1
GUAGUGCGUAAAAUUUCAAUGCGAUAUCAAGAAGUUGAGCCAUAAAUUUCG-AAAUUAUUGGCACAAUUGAAGUUGUGCCUUGAAAAGUGUAUUUC
.................((((((...((((((((((........)))))).-........((((((((....))))))))))))....)))))).. ( -20.50)
>consensus
GUAGUGCGUAAAAUUUCAAUGCGAAAUCAAGAAGUUGAGCCAUAAAUUUCUAAAAUUAUUGGCACAAUUGAAGUUGUGCCUUGAAAUAUAUAUUUC
....(((((.........)))))...((((((((((........))))))..........((((((((....))))))))))))............ (-17.06 = -17.25 +   0.19)

alignment

secondary structure

dotplot

Window 1

Location	3,449,597 – 3,449,693
Length	96
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	95.48
Mean single sequence MFE	-17.32
Consensus MFE	-14.62
Energy contribution	-15.15
Covariance contribution	0.53
Combinations/Pair	1.05
Mean z-score	-1.82
Structure conservation index	0.84
SVM decision value	0.40
SVM RNA-class probability	0.719987
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3449597 96 - 27905053
GAAAUAUAUAUUUCAAGGCACAACUUCAAUUGUGCCAAUAAUUUUAGAAAUUUAUGGCUCAACUUCUUGAUUUCGCAUUGAAAUUUUACGCACUAC
.........((((((((((((((......)))))))..........((((((...((.....))....))))))...)))))))............ ( -18.10)
>DroSec_CAF1 48336 96 - 1
GAAAUAUAUAUUUCAAGGCACAACUUCAAUUGUGCCAAUAAUUUUAGAAAUUUAUGGCUCAACUUCUUGAUUUCGCAUUGAAAUUUUACGCACUAC
.........((((((((((((((......)))))))..........((((((...((.....))....))))))...)))))))............ ( -18.10)
>DroSim_CAF1 62829 96 - 1
GAAAUAUAUAUUUCAAGGCACAACUUCAAUUGUGCCAAUAAUUUUAGAAAUUUAUGGCUCAACUUCUUGAUUUCGCAUUGAAAUUUUACGCACUAC
.........((((((((((((((......)))))))..........((((((...((.....))....))))))...)))))))............ ( -18.10)
>DroEre_CAF1 57705 94 - 1
GAAAUAUAU-U-UCAAGGCACAACUUCAAUUGUGCCAAUAAUUUUGGAAAUUUAUGGCGCAACUUCUUGAUUUCGCAUUGAAAUUUUACGCACUAC
(......((-(-((((.((......((((((((((((..((((.....))))..))))))))....))))....)).)))))))......)..... ( -18.40)
>DroYak_CAF1 70302 95 - 1
GAAAUAUAU-UUUCGAAGCUCAACUUCAAUUGUGCCAAUAAUUUUAGAAAUUUAUGGCUCAACUUCUUGAUUUCGCAUUGAAAUUUUACGCACUAC
((((.....-))))((((.....))))....((((....(((((((((((((...((.....))....))))))....)))))))....))))... ( -14.40)
>DroAna_CAF1 46513 95 - 1
GAAAUACACUUUUCAAGGCACAACUUCAAUUGUGCCAAUAAUUU-CGAAAUUUAUGGCUCAACUUCUUGAUAUCGCAUUGAAAUUUUACGCACUAC
((((......))))..(((((((......)))))))........-.(((((((...((((((....))))....))....)))))))......... ( -16.80)
>consensus
GAAAUAUAUAUUUCAAGGCACAACUUCAAUUGUGCCAAUAAUUUUAGAAAUUUAUGGCUCAACUUCUUGAUUUCGCAUUGAAAUUUUACGCACUAC
..........(((((((((((((......)))))))..........((((((...((.....))....))))))...))))))............. (-14.62 = -15.15 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:19 2006