Locus 15847

Sequence ID	dm3.chrX
Location	21,487,802 – 21,487,923
Length	121
Max. P	0.647638

overview

Window 8

Location	21,487,802 – 21,487,923
Length	121
Sequences	3
Columns	133
Reading direction	forward
Mean pairwise identity	88.47
Shannon entropy	0.15880
G+C content	0.29692
Mean single sequence MFE	-17.09
Consensus MFE	-14.37
Energy contribution	-13.93
Covariance contribution	-0.44
Combinations/Pair	1.07
Mean z-score	-1.47
Structure conservation index	0.84
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.04
SVM RNA-class probability	0.513265
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21487802 121 + 22422827
AGUGAAUUAGCUAGGUUACAUUAUUUUGCACCCUUUCAUUCUUUUUCGAGAAUGAAUAGUAUAAAAAUGUCCCGUUUUUCCCUA------------AACCAAAACUAAUUUAAAUUAAUGAAAGCUUCGUAUU
..((((((((...((..(((((.((.(((.....(((((((((....)))))))))..))).)).))))).))((((......)------------))).....)))))))).....((((.....))))... ( -20.00, z-score =  -1.97, R)
>droSec1.super_178 12931 133 + 58033
ACUGAAUUACCCAGGUUACAUUAUUUUGCACCUUUUCAUUCUUUUUCAAGAAUGAAUAUUAUAAAAAUGUCCAGUUUUUCCCUACACUCCCUACCAAACCAAAACUACUUCAAAUUAAUGAAAGCAUAGUAUU
((((.........((((....((((((.......(((((((((....))))))))).......))))))....((........))...........))))........((((......))))....))))... ( -15.64, z-score =  -1.23, R)
>droSim1.chrX 16557960 133 + 17042790
ACUGAAUUACCCAGGUUACAUUAUUUUGCACCUUUUCAUUCUUUUUCAAGAAUGAAUAUUAUAAAAAUGUCCAGUUUUUCCCUACACUCCCUACCAAACCAAAACUACUUCAAAUUAAUGAAAGCAUAGUAUU
((((.........((((....((((((.......(((((((((....))))))))).......))))))....((........))...........))))........((((......))))....))))... ( -15.64, z-score =  -1.23, R)
>consensus
ACUGAAUUACCCAGGUUACAUUAUUUUGCACCUUUUCAUUCUUUUUCAAGAAUGAAUAUUAUAAAAAUGUCCAGUUUUUCCCUACACUCCCUACCAAACCAAAACUACUUCAAAUUAAUGAAAGCAUAGUAUU
.............(.((.(((((.((((......(((((((((....)))))))))......((((((.....))))))...............................)))).))))).)).)........ (-14.37 = -13.93 +  -0.44)

alignment

secondary structure

dotplot

Window 9

Location	21,487,802 – 21,487,923
Length	121
Sequences	3
Columns	133
Reading direction	reverse
Mean pairwise identity	88.47
Shannon entropy	0.15880
G+C content	0.29692
Mean single sequence MFE	-28.90
Consensus MFE	-18.24
Energy contribution	-21.47
Covariance contribution	3.23
Combinations/Pair	1.05
Mean z-score	-2.57
Structure conservation index	0.63
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.33
SVM RNA-class probability	0.647638
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21487802 121 - 22422827
AAUACGAAGCUUUCAUUAAUUUAAAUUAGUUUUGGUU------------UAGGGAAAAACGGGACAUUUUUAUACUAUUCAUUCUCGAAAAAGAAUGAAAGGGUGCAAAAUAAUGUAACCUAGCUAAUUCACU
.......(((((((.((((.(((((.....))))).)------------))).))))...(((((((((((.((((.((((((((......))))))))..)))).)))..)))))..))).)))........ ( -20.30, z-score =  -0.92, R)
>droSec1.super_178 12931 133 - 58033
AAUACUAUGCUUUCAUUAAUUUGAAGUAGUUUUGGUUUGGUAGGGAGUGUAGGGAAAAACUGGACAUUUUUAUAAUAUUCAUUCUUGAAAAAGAAUGAAAAGGUGCAAAAUAAUGUAACCUGGGUAAUUCAGU
....(((((((..((((((.(..(((...)))..).))))).)..)))))))......((((((.............(((((((((....))))))))).(((((((......))).))))......)))))) ( -33.20, z-score =  -3.39, R)
>droSim1.chrX 16557960 133 - 17042790
AAUACUAUGCUUUCAUUAAUUUGAAGUAGUUUUGGUUUGGUAGGGAGUGUAGGGAAAAACUGGACAUUUUUAUAAUAUUCAUUCUUGAAAAAGAAUGAAAAGGUGCAAAAUAAUGUAACCUGGGUAAUUCAGU
....(((((((..((((((.(..(((...)))..).))))).)..)))))))......((((((.............(((((((((....))))))))).(((((((......))).))))......)))))) ( -33.20, z-score =  -3.39, R)
>consensus
AAUACUAUGCUUUCAUUAAUUUGAAGUAGUUUUGGUUUGGUAGGGAGUGUAGGGAAAAACUGGACAUUUUUAUAAUAUUCAUUCUUGAAAAAGAAUGAAAAGGUGCAAAAUAAUGUAACCUGGGUAAUUCAGU
....((((((((((...(((..(((....)))..))).....))))))))))......((((((.............(((((((((....))))))))).(((((((......))).))))......)))))) (-18.24 = -21.47 +   3.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:07:01 2011