Locus 5676

Sequence ID	X_DroMel_CAF1
Location	14,681,286 – 14,681,446
Length	160
Max. P	0.663808

overview

Window 8

Location	14,681,286 – 14,681,406
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	86.67
Mean single sequence MFE	-54.40
Consensus MFE	-44.14
Energy contribution	-42.82
Covariance contribution	-1.32
Combinations/Pair	1.27
Mean z-score	-1.74
Structure conservation index	0.81
SVM decision value	0.03
SVM RNA-class probability	0.546683
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14681286 120 - 22224390
CGGUGGCGUAGAGACGCUCACCUUCAUCAAGGUGCCGUCGGGCAAGAGUCCGGCCACCCAACCCGAUGUGGAACUCAUCCAAGUGGCCGGCAGCCUGGCUAGCGAUGAUGGCACUGCCCU
.((((((((....)))).))))........((((((((((.((....(.((((((((.((......))((((.....)))).)))))))))(((...))).))..))))))))))..... ( -50.00)
>DroYak_CAF1 12564 120 - 1
CGGCGGCGUGGAGACGCUCACCUUCAUCAAGGUGCCAUCGGGCAAGAGUCCGGCCAGCCAACCCGAUGUGGAACUCAUCCAGGUGGCCGGCAGCUUGGCCAGCGAUGAUGGCACCGCCCU
.(((((.(((....)))...))........(((((((((((((....))))((((((((...((.((.((((.....)))).))))..)))....)))))......)))))))))))).. ( -55.40)
>DroAna_CAF1 16709 120 - 1
CGGGGGCGUGGAGACACUGACCUUCAUCAAGGUGCCCUCGGCCCAGAGCCCACCCACCCAGCCGGACAUCGAGCUCAUCCAGGUGGCCGGCAGCCUGGCCAGCGACGAGGGCACCGCCCU
..((((((((....))).............((((((((((.....((((.(.....((.....)).....).)))).....(.(((((((....))))))).)..))))))))))))))) ( -57.80)
>consensus
CGGCGGCGUGGAGACGCUCACCUUCAUCAAGGUGCCAUCGGGCAAGAGUCCGGCCACCCAACCCGAUGUGGAACUCAUCCAGGUGGCCGGCAGCCUGGCCAGCGAUGAUGGCACCGCCCU
.((.((((((....))).............((((((((((.....(((((((................))).)))).....(.(((((((....))))))).)..))))))))))))))) (-44.14 = -42.82 +  -1.32)

alignment

secondary structure

dotplot

Window 9

Location	14,681,326 – 14,681,446
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	85.56
Mean single sequence MFE	-49.00
Consensus MFE	-35.84
Energy contribution	-36.74
Covariance contribution	0.90
Combinations/Pair	1.15
Mean z-score	-2.08
Structure conservation index	0.73
SVM decision value	0.27
SVM RNA-class probability	0.663808
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14681326 120 - 22224390
AGUUUCUACUGGGCCGGGCAGACACCUUUCUGUCCAGUAUCGGUGGCGUAGAGACGCUCACCUUCAUCAAGGUGCCGUCGGGCAAGAGUCCGGCCACCCAACCCGAUGUGGAACUCAUCC
...((((((((((..(((((((......)))))))......((((((.....((((..((((((....)))))).))))((((....)))).))))))...))))..))))))....... ( -50.00)
>DroYak_CAF1 12604 120 - 1
AGUUUCUACUGGGCCGGGCAGACACCAUUCUCUCCAGCAUCGGCGGCGUGGAGACGCUCACCUUCAUCAAGGUGCCAUCGGGCAAGAGUCCGGCCAGCCAACCCGAUGUGGAACUCAUCC
...((((((((((...((((((......)))..........(((((((((....)))..(((((....))))))))..(((((....)))))))).)))..))))..))))))....... ( -42.80)
>DroAna_CAF1 16749 120 - 1
AGUUCCUGCUGGGCCGGGCGGACACCAUCAUGUCCAGCAUCGGGGGCGUGGAGACACUGACCUUCAUCAAGGUGCCCUCGGCCCAGAGCCCACCCACCCAGCCGGACAUCGAGCUCAUCC
.((.((.((((((..(((((((((......)))))....(((((((((((....)))..(((((....)))))))))))))......)))).....)))))).))))............. ( -54.20)
>consensus
AGUUUCUACUGGGCCGGGCAGACACCAUUCUGUCCAGCAUCGGCGGCGUGGAGACGCUCACCUUCAUCAAGGUGCCAUCGGGCAAGAGUCCGGCCACCCAACCCGAUGUGGAACUCAUCC
((((((.....((((((((.((((......)))).....(((((((((((....)))..(((((....)))))))))))))......))))))))..............))))))..... (-35.84 = -36.74 +   0.90)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:49 2006