Locus 12965

Sequence ID	dm3.chrX
Location	3,633,778 – 3,633,875
Length	97
Max. P	0.940376

overview

Window 2

Location	3,633,778 – 3,633,868
Length	90
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	82.83
Shannon entropy	0.27914
G+C content	0.49370
Mean single sequence MFE	-32.58
Consensus MFE	-21.70
Energy contribution	-23.57
Covariance contribution	1.87
Combinations/Pair	1.07
Mean z-score	-2.02
Structure conservation index	0.67
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.63
SVM RNA-class probability	0.766304
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3633778 90 - 22422827
AACCAUCACUUCCGGAGGCGCUCCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUGUGUGUGUGUGUGU----------
.((((((((...((((((((((((.((((((((.(.(((((.....))))).).)))))))).).))))))).)))).))).))).))..---------- ( -35.70, z-score =  -3.51, R)
>droYak2.chrX 16997370 94 + 21770863
AACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUAUGUGUGUGUGUAUGUGU------
.((((((((....((((((((((..((((((((.(.(((((.....))))).).))))))))...))))))).)))..))).))).))......------ ( -31.20, z-score =  -1.97, R)
>droEre2.scaffold_4690 1027284 100 - 18748788
AACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUGUGUGCGUGUAUGAGUGUAUGUGU
.((((((((..((((((((((((..((((((((.(.(((((.....))))).).))))))))...))))))).)))).)...))).))).))........ ( -34.10, z-score =  -1.96, R)
>droAna3.scaffold_13047 83520 99 - 1816235
AACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGAGUGGGUAUUGGUGUGU-CUGUGAGUGCUACGCUGCCCUUGUGUGUGU
......((((..((((.(((((...((((((.(...(((((.....)))))...).))))))))))).)-)))..)))).(((((.......)))))... ( -29.30, z-score =  -0.66, R)
>consensus
AACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUGUGUGUGUGUGUGUGUGU______
......(((...(((((((((((..((((((((.(.(((((.....))))).).))))))))...))))))).)))).)))................... (-21.70 = -23.57 +   1.87)

alignment

secondary structure

dotplot

Window 3

Location	3,633,784 – 3,633,875
Length	91
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	85.69
Shannon entropy	0.23858
G+C content	0.48702
Mean single sequence MFE	-31.85
Consensus MFE	-24.80
Energy contribution	-26.17
Covariance contribution	1.38
Combinations/Pair	1.07
Mean z-score	-2.24
Structure conservation index	0.78
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.44
SVM RNA-class probability	0.940376
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3633784 91 - 22422827
AGAUGAAAACCAUCACUUCCGGAGGCGCUCCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUGUGUGUGU---------
.((((.....))))((...((((((((((((.((((((((.(.(((((.....))))).).)))))))).).))))))).))))...))..--------- ( -34.80, z-score =  -3.63, R)
>droYak2.chrX 16997377 94 + 21770863
AGAUGAAAACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUAUGUGUGUGUG------
........((((.(((....((((((((((..((((((((.(.(((((.....))))).).))))))))...))))))).)))..))))).)).------ ( -30.50, z-score =  -2.15, R)
>droEre2.scaffold_4690 1027291 100 - 18748788
AGAUGAAAACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUGUGUGCGUGUAUGAGUG
........((((((((..((((((((((((..((((((((.(.(((((.....))))).).))))))))...))))))).)))).)...))).))).)). ( -34.10, z-score =  -2.39, R)
>droAna3.scaffold_13047 83527 99 - 1816235
AGAUGAAAACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGAGUGGGUAUUGGUGUGU-CUGUGAGUGCUACGCUGCCCUUG
.((((.....))))(((..((((.(((((...((((((.(...(((((.....)))))...).))))))))))).)-)))..)))((......))..... ( -28.00, z-score =  -0.79, R)
>consensus
AGAUGAAAACCAUCACUUCCGGAGGCGCUUCAAGUACUGAGGAAUGUAGUAAAUACGUGCGUCGGUAUUGGUGAGCGCUGUCUGUGUGUGUGUG______
.((((.....)))).....(((((((((((..((((((((.(.(((((.....))))).).))))))))...))))))).))))................ (-24.80 = -26.17 +   1.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:12:07 2011