Locus 2260

Sequence ID	2L_DroMel_CAF1
Location	6,140,090 – 6,140,250
Length	160
Max. P	0.765702

overview

Window 4

Location	6,140,090 – 6,140,210
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.81
Mean single sequence MFE	-56.70
Consensus MFE	-50.24
Energy contribution	-50.55
Covariance contribution	0.31
Combinations/Pair	1.11
Mean z-score	-1.32
Structure conservation index	0.89
SVM decision value	-0.05
SVM RNA-class probability	0.506459
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6140090 120 - 22407834
CCAAUGCGUGGCCUUGGUGCACCGGCCACAAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUGAAAUGGGGCGGCCGCGUGGAGGGCAAGUGCAUGGAGUCAACCAGCUCGUCC
((...((((((((...((((.(((((((......)))))))))))(((....))).......(((((......))))))))))))))).((((....((.(((......)))))..)))) ( -57.30)
>DroSec_CAF1 8902 120 - 1
CCAAUGCGUGGCCUUGGUGCACCGGCCACGAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUGAAAUGGGGCGGUCGCGUUGAGGGCAAGUGCAUGGAGUCAACUAGCUCGUCC
.(((((((((((..(.((((.(((((((......))))))))))).).....)))))...(((((((......)))))))..)))))).((((.(((...........))).)))).... ( -56.10)
>DroEre_CAF1 10899 120 - 1
CCAAUGCGUGGCCUCGGAGCUCCGGCCACGAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUAAAAUUGGGUGGACGCGUGGAGGGCGUGUGCACGGAGUCAACCAGCUCCUCC
...(((((((((..(((.((.(((((((......)))))))))....)))..)))))...((((((........))))))..))))(((((((((....))((......)).)).))))) ( -54.10)
>DroYak_CAF1 9489 120 - 1
CCAAUACGCGGCCUCGGUGCUCCGGCCACAAAGCUGGCCGGGCACGGACGUCGCCACUCCUCGCCCUUGAAAUGGGGCGGUCGCGUGGAGGGCGUGUGCACGGAGUCAACCAGCUCGUCC
....((((((((.((.((((.(((((((......))))))))))).)).)))(((.(((((((((((......)))))))......))))))))))))....((((......)))).... ( -59.30)
>consensus
CCAAUGCGUGGCCUCGGUGCACCGGCCACAAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUGAAAUGGGGCGGUCGCGUGGAGGGCAAGUGCACGGAGUCAACCAGCUCGUCC
((..(((((((((...((((.(((((((......)))))))))))((......)).......(((((......))))))))))))))..))((....))...((((......)))).... (-50.24 = -50.55 +   0.31)

alignment

secondary structure

dotplot

Window 5

Location	6,140,130 – 6,140,250
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.19
Mean single sequence MFE	-55.57
Consensus MFE	-51.92
Energy contribution	-51.42
Covariance contribution	-0.50
Combinations/Pair	1.16
Mean z-score	-1.53
Structure conservation index	0.93
SVM decision value	0.51
SVM RNA-class probability	0.765702
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6140130 120 - 22407834
CGUCAGUUUGGCCAGCUGCUCGUAGUUCUUGGGACAUCGGCCAAUGCGUGGCCUUGGUGCACCGGCCACAAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUGAAAUGGGGCGG
.......((((((.(.((((((.......)))).)).))))))).((((((((...((((.(((((((......)))))))))))))))).))).......((((((......)))))). ( -54.60)
>DroSec_CAF1 8942 120 - 1
CGUCAGUUUGGCCAGCUGCUCGUAGUUCUUGGGACAUCGGCCAAUGCGUGGCCUUGGUGCACCGGCCACGAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUGAAAUGGGGCGG
.....((((((((((((..((((.((...(((..(((((((((.....)))))..))))..))))).))))))))))))))))..(((....)))......((((((......)))))). ( -55.00)
>DroEre_CAF1 10939 120 - 1
CGUCAGCUUGGCCAGCUGCUCGUAGUUCUUGGGACACCGGCCAAUGCGUGGCCUCGGAGCUCCGGCCACGAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUAAAAUUGGGUGG
.....(((((((((((((((.((.(((.....))))).))).....(((((((..((....))))))))).))))))))))))..(((....)))......(((((........))))). ( -55.80)
>DroYak_CAF1 9529 120 - 1
CGUCAGUUUGGCCAGCUGCUCGUAGUCCUUGGGACACUUGCCAAUACGCGGCCUCGGUGCUCCGGCCACAAAGCUGGCCGGGCACGGACGUCGCCACUCCUCGCCCUUGAAAUGGGGCGG
.....(((((((.((.((((((.......)))).)))).))))).))(((((.((.((((.(((((((......))))))))))).)).))))).......((((((......)))))). ( -56.90)
>consensus
CGUCAGUUUGGCCAGCUGCUCGUAGUUCUUGGGACACCGGCCAAUGCGUGGCCUCGGUGCACCGGCCACAAAGCUGGCCGGGCACGGUCGUCGCCACUCCUCGCCCUUGAAAUGGGGCGG
.....((((((((.(.((((((.......)))).))).)))))).))(((((..(.((((.(((((((......))))))))))).)..))))).......((((((......)))))). (-51.92 = -51.42 +  -0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:21 2006