Locus 5457

Sequence ID	X_DroMel_CAF1
Location	14,194,439 – 14,194,531
Length	92
Max. P	0.963614

overview

Window 7

Location	14,194,439 – 14,194,531
Length	92
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	90.59
Mean single sequence MFE	-31.74
Consensus MFE	-24.46
Energy contribution	-24.54
Covariance contribution	0.08
Combinations/Pair	1.09
Mean z-score	-2.48
Structure conservation index	0.77
SVM decision value	1.56
SVM RNA-class probability	0.963614
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14194439 92 + 22224390
GUUUUUGGCCAGUUCAUUUUUGCUGGCCACUUGAGCAGCUUCAAAGCCAUGAGUUGCCAGAUGCCACAUGCGGCCUG---CUCGGCUGUUCGGCU
.....((((((((........)))))))).(((.((((((.((......)))))))))))..(((....((((((..---...))))))..))). ( -36.50)
>DroSec_CAF1 104701 84 + 1
GUUUUUGGCCAGUUCAUUUUUGCUGGCCACUUGAGCAGCUUCAACGCCAUGAGUUGCCAGAUGCCACAUGCGGCCUG---CUCGG--------CU
.....((((((((........)))))))).((((((((...((((.......))))......(((......))))))---)))))--------.. ( -30.00)
>DroSim_CAF1 82281 84 + 1
GUUUUUGGCCAGUUCAUUUUUGCUGGCCACUUGAGCAGCUUCAAAGCCAUGAGUUGCCAGAUGCCACAUGCGGCCUG---CUCGG--------CU
((((.((((((((........))))))))...))))........((((..((((.(((..(((...)))..)))..)---)))))--------)) ( -29.90)
>DroEre_CAF1 93783 86 + 1
GUUUUUGGCCAGUUCAUUUUUGCUGGCCACUUGAGCAGCUUCAAAGCCAUGAGUUGCCAGCUGCUACAUGCGG-CUGCUGUUGGG--------CU
.....((((((((........))))))))((..(((((((.((......))))))))(((((((.....))))-)))...)..))--------.. ( -34.90)
>DroYak_CAF1 95720 87 + 1
GUUUUUGGCCAACUCAUUUUUGCUGGCCACUUGAGCAGCUUCAAAGCCAUGAGUUGCCAGAUGCCACAUGCGGCCUGCUGUUCGG--------CU
...((((((.(((((((...((((.(.....).))))(((....))).))))))))))))).(((....((((....))))..))--------). ( -27.40)
>consensus
GUUUUUGGCCAGUUCAUUUUUGCUGGCCACUUGAGCAGCUUCAAAGCCAUGAGUUGCCAGAUGCCACAUGCGGCCUG___CUCGG________CU
.....((((((((........)))))))).(((.((((((.((......)))))))))))..(((......)))..................... (-24.46 = -24.54 +   0.08)

alignment

secondary structure

dotplot

Window 8

Location	14,194,439 – 14,194,531
Length	92
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	90.59
Mean single sequence MFE	-29.54
Consensus MFE	-20.52
Energy contribution	-20.72
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.45
Structure conservation index	0.69
SVM decision value	0.29
SVM RNA-class probability	0.670214
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14194439 92 - 22224390
AGCCGAACAGCCGAG---CAGGCCGCAUGUGGCAUCUGGCAACUCAUGGCUUUGAAGCUGCUCAAGUGGCCAGCAAAAAUGAACUGGCCAAAAAC
............(((---(((((((....)))).((.(((........)))..))..))))))...(((((((..........)))))))..... ( -30.40)
>DroSec_CAF1 104701 84 - 1
AG--------CCGAG---CAGGCCGCAUGUGGCAUCUGGCAACUCAUGGCGUUGAAGCUGCUCAAGUGGCCAGCAAAAAUGAACUGGCCAAAAAC
..--------..(((---(((((((....))))..((..((((.......)))).))))))))...(((((((..........)))))))..... ( -30.20)
>DroSim_CAF1 82281 84 - 1
AG--------CCGAG---CAGGCCGCAUGUGGCAUCUGGCAACUCAUGGCUUUGAAGCUGCUCAAGUGGCCAGCAAAAAUGAACUGGCCAAAAAC
..--------..(((---(((((((....)))).((.(((........)))..))..))))))...(((((((..........)))))))..... ( -30.40)
>DroEre_CAF1 93783 86 - 1
AG--------CCCAACAGCAG-CCGCAUGUAGCAGCUGGCAACUCAUGGCUUUGAAGCUGCUCAAGUGGCCAGCAAAAAUGAACUGGCCAAAAAC
..--------......(((((-(..((...(((....(....).....))).))..))))))....(((((((..........)))))))..... ( -26.80)
>DroYak_CAF1 95720 87 - 1
AG--------CCGAACAGCAGGCCGCAUGUGGCAUCUGGCAACUCAUGGCUUUGAAGCUGCUCAAGUGGCCAGCAAAAAUGAGUUGGCCAAAAAC
..--------..((.((((..((((....)))).((.(((........)))..)).)))).))...((((((((........))))))))..... ( -29.90)
>consensus
AG________CCGAG___CAGGCCGCAUGUGGCAUCUGGCAACUCAUGGCUUUGAAGCUGCUCAAGUGGCCAGCAAAAAUGAACUGGCCAAAAAC
....................((((((.....))..(((((.(((...(((.........)))..))).)))))............))))...... (-20.52 = -20.72 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:20 2006